|
Name |
Accession |
Description |
Interval |
E-value |
| LepA |
COG0481 |
Translation elongation factor EF-4, membrane-bound GTPase [Translation, ribosomal structure ... |
64-625 |
0e+00 |
|
Translation elongation factor EF-4, membrane-bound GTPase [Translation, ribosomal structure and biogenesis];
Pssm-ID: 440249 [Multi-domain] Cd Length: 598 Bit Score: 903.62 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 64 PVENIRNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQVLDKLQVERERGITVKAQTASLFYNCE-GKQYLLNLIDTP 142
Cdd:COG0481 2 DQKNIRNFSIIAHIDHGKSTLADRLLELTGTLSEREMKEQVLDSMDLERERGITIKAQAVRLNYKAKdGETYQLNLIDTP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 143 GHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSDECI 222
Cdd:COG0481 82 GHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVINKIDLPSADPERVKQEIEDIIGIDASDAI 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 223 KISAKLGTNVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGV 302
Cdd:COG0481 162 LVSAKTGIGIEEILEAIVERIPPPKGDPDAPLQALIFDSWYDSYRGVVVYVRVFDGTLKKGDKIKMMSTGKEYEVDEVGV 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 303 LNPNEQPTHKLYAGQVGYLIAGMKDVTEAQIGDTLCLHKQPV-EPLPGFKSAKPMVFAGMYPLDQSEYNNLKSAIEKLTL 381
Cdd:COG0481 242 FTPKMTPVDELSAGEVGYIIAGIKDVRDARVGDTITLAKNPAaEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDALEKLQL 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 382 NDSSVTVHRDSSLALGAGWRLGFLGLLHMEVFNQRLEQEYNASVILTTPTVPYKAVLSSSklikehreKEITIINPAQFP 461
Cdd:COG0481 322 NDASLTYEPETSAALGFGFRCGFLGLLHMEIIQERLEREFDLDLITTAPSVVYEVTLTDG--------EVIEVDNPSDLP 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 462 DKSKVTEYLEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFPLNEIVVDFYDSLKSLSSGYASFDY 541
Cdd:COG0481 394 DPGKIEEIEEPIVKATIITPSEYVGAVMELCQEKRGVQKNMEYLGENRVELTYELPLAEIVFDFFDRLKSITRGYASLDY 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 542 EDAGYQTAELVKMDILLNGNTVEELVTVVH----------------------------------------NVKAYRKNVL 581
Cdd:COG0481 474 EFIGYRESDLVKLDILINGEPVDALSFIVHrdkaysrgralveklkeliprqqfevpiqaaiggkiiareTIKALRKDVL 553
|
570 580 590 600
....*....|....*....|....*....|....*....|....
gi 1064244180 582 AKCYGGDITRKMKLLKRQAEGKKKLRKIGNVEVPKDAFIKVLKT 625
Cdd:COG0481 554 AKCYGGDISRKRKLLEKQKEGKKRMKQVGNVEIPQEAFLAVLKV 597
|
|
| lepA |
TIGR01393 |
elongation factor 4; LepA (GUF1 in Saccaromyces), now called elongation factor 4, is a ... |
66-625 |
0e+00 |
|
elongation factor 4; LepA (GUF1 in Saccaromyces), now called elongation factor 4, is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown. [Unknown function, General]
Pssm-ID: 130460 [Multi-domain] Cd Length: 595 Bit Score: 810.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQVLDKLQVERERGITVKAQTASLFYNCE-GKQYLLNLIDTPGH 144
Cdd:TIGR01393 1 KNIRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKdGETYVLNLIDTPGH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 145 VDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSDECIKI 224
Cdd:TIGR01393 81 VDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKIDLPSADPERVKKEIEEVIGLDASEAILA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 225 SAKLGTNVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLN 304
Cdd:TIGR01393 161 SAKTGIGIEEILEAIVKRVPPPKGDPDAPLKALIFDSHYDNYRGVVALVRVFEGTIKPGDKIRFMSTGKEYEVDEVGVFT 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 305 PNEQPTHKLYAGQVGYLIAGMKDVTEAQIGDTLCLHKQPV-EPLPGFKSAKPMVFAGMYPLDQSEYNNLKSAIEKLTLND 383
Cdd:TIGR01393 241 PKLTKTDELSAGEVGYIIAGIKDVSDVRVGDTITHVKNPAkEPLPGFKEVKPMVFAGLYPIDTEDYEDLRDALEKLKLND 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 384 SSVTVHRDSSLALGAGWRLGFLGLLHMEVFNQRLEQEYNASVILTTPTVPYKAVLSSSklikehreKEITIINPAQFPDK 463
Cdd:TIGR01393 321 ASLTYEPESSPALGFGFRCGFLGLLHMEIIQERLEREFNLDLITTAPSVIYRVYLTNG--------EVIEVDNPSDLPDP 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 464 SKVTEYLEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFPLNEIVVDFYDSLKSLSSGYASFDYED 543
Cdd:TIGR01393 393 GKIEHVEEPYVKATIITPTEYLGPIMTLCQEKRGVQTNMEYLDPNRVELIYEMPLAEIVYDFFDKLKSISRGYASFDYEL 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 544 AGYQTAELVKMDILLNGNTVEELVTVVH----------------------------------------NVKAYRKNVLAK 583
Cdd:TIGR01393 473 IGYRPSDLVKLDILINGEPVDALSFIVHrdkaysrgreiceklkeliprqqfeipiqaaiggkiiareTIKALRKDVTAK 552
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 1064244180 584 CYGGDITRKMKLLKRQAEGKKKLRKIGNVEVPKDAFIKVLKT 625
Cdd:TIGR01393 553 CYGGDITRKRKLLEKQKEGKKRMKQIGKVEVPQEAFLAVLKV 594
|
|
| LepA |
cd01890 |
LepA also known as Elongation Factor 4 (EF4); LepA (also known as elongation factor 4, EF4) ... |
69-246 |
9.52e-117 |
|
LepA also known as Elongation Factor 4 (EF4); LepA (also known as elongation factor 4, EF4) belongs to the GTPase family and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Pssm-ID: 206677 [Multi-domain] Cd Length: 179 Bit Score: 345.29 E-value: 9.52e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 69 RNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQVLDKLQVERERGITVKAQTASLFYNCE-GKQYLLNLIDTPGHVDF 147
Cdd:cd01890 1 RNFSIIAHIDHGKSTLADRLLELTGTVSEREMKEQVLDSMDLERERGITIKAQAVRLFYKAKdGEEYLLNLIDTPGHVDF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 148 SYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSDECIKISAK 227
Cdd:cd01890 81 SYEVSRSLAACEGALLVVDATQGVEAQTLANFYLALENNLEIIPVINKIDLPAADPDRVKQEIEDVLGLDASEAILVSAK 160
|
170
....*....|....*....
gi 1064244180 228 LGTNVESVLQAIIERIPPP 246
Cdd:cd01890 161 TGLGVEDLLEAIVERIPPP 179
|
|
| GTP_EFTU |
pfam00009 |
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in ... |
66-245 |
7.65e-69 |
|
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.
Pssm-ID: 425418 [Multi-domain] Cd Length: 187 Bit Score: 221.63 E-value: 7.65e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQ----VLDKLQVERERGITVKAQTASlfynCEGKQYLLNLIDT 141
Cdd:pfam00009 1 KRHRNIGIIGHVDHGKTTLTDRLLYYTGAISKRGEVKGegeaGLDNLPEERERGITIKSAAVS----FETKDYLINLIDT 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 142 PGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKN-ADPERVENQIEKVF------ 214
Cdd:pfam00009 77 PGHVDFVKEVIRGLAQADGAILVVDAVEGVMPQTREHLRLARQLGVPIIVFINKMDRVDgAELEEVVEEVSRELlekyge 156
|
170 180 190
....*....|....*....|....*....|.
gi 1064244180 215 DIPSDECIKISAKLGTNVESVLQAIIERIPP 245
Cdd:pfam00009 157 DGEFVPVVPGSALKGEGVQTLLDALDEYLPS 187
|
|
| TypA_BipA |
TIGR01394 |
GTP-binding protein TypA/BipA; This bacterial (and Arabidopsis) protein, termed TypA or BipA, ... |
68-517 |
1.72e-60 |
|
GTP-binding protein TypA/BipA; This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown. [Regulatory functions, Other, Cellular processes, Adaptations to atypical conditions, Protein synthesis, Translation factors]
Pssm-ID: 273597 [Multi-domain] Cd Length: 594 Bit Score: 212.16 E-value: 1.72e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 68 IRNFSIVAHVDHGKSTLADRLLELTGTI-DKTKNNKQVLDKLQVERERGITVKAQTASLFYNcegkQYLLNLIDTPGHVD 146
Cdd:TIGR01394 1 IRNIAIIAHVDHGKTTLVDALLKQSGTFrANEAVAERVMDSNDLERERGITILAKNTAIRYN----GTKINIVDTPGHAD 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 147 FSYEVSRSLSACQGVLLVVDANEGIQAQTvaNFFL--AFEAQLSVIPVINKIDLKNADPERVENQIEKVF-DIPSDE--- 220
Cdd:TIGR01394 77 FGGEVERVLGMVDGVLLLVDASEGPMPQT--RFVLkkALELGLKPIVVINKIDRPSARPDEVVDEVFDLFaELGADDeql 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 221 ---CIKISAKLGT----------NVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIV 287
Cdd:TIGR01394 155 dfpIVYASGRAGWasldlddpsdNMAPLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQVA 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 288 SAHTQKTYEVNEVGVLNPNE----QPTHKLYAGQVgYLIAGMKDvteAQIGDTLCLHKQPvEPLPGFKSAKP---MVFag 360
Cdd:TIGR01394 235 LMKRDGTIENGRISKLLGFEglerVEIDEAGAGDI-VAVAGLED---INIGETIADPEVP-EALPTITVDEPtlsMTF-- 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 361 mypldqseynnlksaieklTLNDSSVtvhrdsslalgAGWRLGFLGLLHMevfNQRLEQEYNASVIL-TTPT-------V 432
Cdd:TIGR01394 308 -------------------SVNDSPL-----------AGKEGKKVTSRHI---RDRLMRELETNVALrVEDTesadkfeV 354
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 433 PYKAVLSSSKLIKEHREK--EITIINPaQFPDKSKVTEYLEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRV 510
Cdd:TIGR01394 355 SGRGELHLSILIETMRREgfELQVGRP-QVIYKEIDGKKLEPIEELTIDVPEEHVGAVIEKLGKRKGEMVDMEPSGNGRT 433
|
....*..
gi 1064244180 511 MLKYLFP 517
Cdd:TIGR01394 434 RLEFKIP 440
|
|
| TypA |
COG1217 |
Predicted membrane GTPase TypA/BipA involved in stress response [Signal transduction ... |
66-348 |
2.62e-59 |
|
Predicted membrane GTPase TypA/BipA involved in stress response [Signal transduction mechanisms];
Pssm-ID: 440830 [Multi-domain] Cd Length: 606 Bit Score: 209.11 E-value: 2.62e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRNFSIVAHVDHGKSTLADRLLELTGTI-DKTKNNKQVLDKLQVERERGITVKAQTASLFYncegKQYLLNLIDTPGH 144
Cdd:COG1217 4 EDIRNIAIIAHVDHGKTTLVDALLKQSGTFrENQEVAERVMDSNDLERERGITILAKNTAVRY----KGVKINIVDTPGH 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 145 VDFSYEVSRSLSACQGVLLVVDANEGIQAQTvaNFFL--AFEAQLSVIPVINKIDLKNADPERVENQiekVFDI-----P 217
Cdd:COG1217 80 ADFGGEVERVLSMVDGVLLLVDAFEGPMPQT--RFVLkkALELGLKPIVVINKIDRPDARPDEVVDE---VFDLfielgA 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 218 SDE-----CIKISAKLG----------TNVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSK 282
Cdd:COG1217 155 TDEqldfpVVYASARNGwasldlddpgEDLTPLFDTILEHVPAPEVDPDGPLQMLVTNLDYSDYVGRIAIGRIFRGTIKK 234
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 283 GDKIVSAH---TQKTYEVNEV-GVLNPNEQPTHKLYAGQVgYLIAGMKDVTeaqIGDTLClHKQPVEPLP 348
Cdd:COG1217 235 GQQVALIKrdgKVEKGKITKLfGFEGLERVEVEEAEAGDI-VAIAGIEDIN---IGDTIC-DPENPEALP 299
|
|
| FusA |
COG0480 |
Translation elongation factor EF-G, a GTPase [Translation, ribosomal structure and biogenesis]; ... |
60-547 |
2.60e-51 |
|
Translation elongation factor EF-G, a GTPase [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-G, a GTPase is part of the Pathway/BioSystem: Translation factors
Pssm-ID: 440248 [Multi-domain] Cd Length: 693 Bit Score: 188.33 E-value: 2.60e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 60 MSRFPVENIRNFSIVAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVkaqTASLFYnCEGKQYLL 136
Cdd:COG0480 1 MAEYPLEKIRNIGIVAHIDAGKTTLTERILFYTGAIHRigeVHDGNTVMDWMPEEQERGITI---TSAATT-CEWKGHKI 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 137 NLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVF-- 214
Cdd:COG0480 77 NIIDTPGHVDFTGEVERSLRVLDGAVVVFDAVAGVEPQTETVWRQADKYGVPRIVFVNKMDREGADFDRVLEQLKERLga 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 215 ----------------------------------------DIPSDE---------------------------------- 220
Cdd:COG0480 157 npvplqlpigaeddfkgvidlvtmkayvyddelgakyeeeEIPAELkeeaeeareelieavaetddelmekylegeelte 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 221 -----CIKI-------------SAKLGTNVESVLQAIIERIPPP---------------KVHRK----NPLRALVFDSTF 263
Cdd:COG0480 237 eeikaGLRKatlagkivpvlcgSAFKNKGVQPLLDAVVDYLPSPldvpaikgvdpdtgeEVERKpdddEPFSALVFKTMT 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 264 DQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLNPNEQ-PTHKLYAGQVGyLIAGMKDVTeaqIGDTLCLHKQ 342
Cdd:COG0480 317 DPFVGKLSFFRVYSGTLKSGSTVYNSTKGKKERIGRLLRMHGNKReEVDEAGAGDIV-AVVKLKDTT---TGDTLCDEDH 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 343 PVEpLPGFKSAKPMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDSSLA--LGAGwrlgfLGLLHMEVFNQRLEQE 420
Cdd:COG0480 393 PIV-LEPIEFPEPVISVAIEPKTKADEDKLSTALAKLAEEDPTFRVETDEETGqtIISG-----MGELHLEIIVDRLKRE 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 421 YNASVILTTPTVPY-----KAVLSSSKLIKE-----------------HREKEITIIN-------PAQF-P--DKS---- 464
Cdd:COG0480 467 FGVEVNVGKPQVAYretirKKAEAEGKHKKQsgghgqygdvwieieplPRGEGFEFVDkivggviPKEYiPavEKGirea 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 465 --------------KVTEY---------------------------------LEPVVLGTIITPDEYTGKIMMLCEARRA 497
Cdd:COG0480 547 mekgvlagypvvdvKVTLYdgsyhpvdssemafkiaasmafkeaakkakpvlLEPIMKVEVTVPEEYMGDVMGDLNSRRG 626
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 498 VQKNMifiDQ--NRVMLKYLFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQ 547
Cdd:COG0480 627 RILGM---ESrgGAQVIKAEVPLAEM-FGYATDLRSLTQGRGSFTMEFSHYE 674
|
|
| GTP_translation_factor |
cd00881 |
GTP translation factor family primarily contains translation initiation, elongation and ... |
70-246 |
5.03e-50 |
|
GTP translation factor family primarily contains translation initiation, elongation and release factors; The GTP translation factor family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Pssm-ID: 206647 [Multi-domain] Cd Length: 183 Bit Score: 171.71 E-value: 5.03e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQ-VLDKLQVERERGITVKAQTASLFYNcegkQYLLNLIDTPGHVDFS 148
Cdd:cd00881 1 NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKEtFLDTLKEERERGITIKTGVVEFEWP----KRRINFIDTPGHEDFS 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 149 YEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL-KNADPERVENQIEKV-------FDIPSD- 219
Cdd:cd00881 77 KETVRGLAQADGALLVVDANEGVEPQTREHLNIALAGGLPIIVAVNKIDRvGEEDFDEVLREIKELlkligftFLKGKDv 156
|
170 180
....*....|....*....|....*..
gi 1064244180 220 ECIKISAKLGTNVESVLQAIIERIPPP 246
Cdd:cd00881 157 PIIPISALTGEGIEELLDAIVEHLPPP 183
|
|
| TypA_BipA |
cd01891 |
Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; BipA ... |
67-246 |
1.27e-47 |
|
Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. coli has been shown to be phosphorylated on a tyrosine residue, while BipA from Salmonella and from E. coli K12 strains is not phosphorylated under the conditions assayed. The phosphorylation apparently modifies the rate of nucleotide hydrolysis, with the phosphorylated form showing greatly increased GTPase activity.
Pssm-ID: 206678 [Multi-domain] Cd Length: 194 Bit Score: 165.46 E-value: 1.27e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 67 NIRNFSIVAHVDHGKSTLADRLLELTGTI-DKTKNNKQVLDKLQVERERGITVKAQTASLFYncegKQYLLNLIDTPGHV 145
Cdd:cd01891 1 KIRNIAIIAHVDHGKTTLVDALLKQSGTFrENEEVGERVMDSNDLERERGITILAKNTAITY----KDTKINIIDTPGHA 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 146 DFSYEVSRSLSACQGVLLVVDANEGIQAQTvaNFFL--AFEAQLSVIPVINKIDLKNADPERVENQIEKVF---DIPSDE 220
Cdd:cd01891 77 DFGGEVERVLSMVDGVLLLVDASEGPMPQT--RFVLkkALEAGLKPIVVINKIDRPDARPEEVVDEVFDLFlelNATDEQ 154
|
170 180 190 200
....*....|....*....|....*....|....*....|
gi 1064244180 221 C----IKISAKLG----------TNVESVLQAIIERIPPP 246
Cdd:cd01891 155 LdfpiVYASAKNGwaslnlddpsEDLDPLFETIIEHVPAP 194
|
|
| EF2 |
cd01885 |
Elongation Factor 2 (EF2) in archaea and eukarya; Translocation requires hydrolysis of a ... |
69-246 |
3.60e-46 |
|
Elongation Factor 2 (EF2) in archaea and eukarya; Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Second, the protein can be post-translationally modified by ADP-ribosylation. Various bacterial toxins perform this reaction after modification of a specific histidine residue to diphthamide, but there is evidence for endogenous ADP ribosylase activity. Similar to the bacterial toxins, it is presumed that modification by the endogenous enzyme also inhibits eEF2 activity.
Pssm-ID: 206672 [Multi-domain] Cd Length: 218 Bit Score: 162.40 E-value: 3.60e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 69 RNFSIVAHVDHGKSTLADRLLELTGTI-DKTKNNKQVLDKLQVERERGITVKAQTASLFYNCE-----GKQYLLNLIDTP 142
Cdd:cd01885 1 RNICIIAHVDHGKTTLSDSLLASAGIIsEKLAGKARYLDTREDEQERGITIKSSAISLYFEYEeekmdGNDYLINLIDSP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 143 GHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL----KNADPE----RVENQIEKVF 214
Cdd:cd01885 81 GHVDFSSEVTAALRLTDGALVVVDAVEGVCVQTETVLRQALEERVKPVLVINKIDRlileLKLSPEeayqRLLRIVEDVN 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 1064244180 215 DI--------PSDECIKISAKLGT------------------NVESVLQAIIERIPPP 246
Cdd:cd01885 161 AIietyapeeFKQEKWKFSPQKGNvafgsaldgwgftiikfaDIYAVLEMVVKHLPSP 218
|
|
| lepA_C |
cd03709 |
lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized ... |
471-550 |
1.93e-45 |
|
lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits significant homology to elongation factors (EFs) Tu and G. The function(s) of the proteins in this family are unknown. The N-terminal domain of LepA is homologous to a domain of similar size found in initiation factor 2 (IF2), and in EF-Tu and EF-G (factors required for translation in Escherichia coli). Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including S. cerevisiae GUF1) originated within the bacterial LepA family. LepA has never been observed in archaea, and eukaryl LepA is organellar. LepA is therefore a true bacterial GTPase, found only in the bacterial lineage.
Pssm-ID: 239680 [Multi-domain] Cd Length: 80 Bit Score: 155.34 E-value: 1.93e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 471 EPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFPLNEIVVDFYDSLKSLSSGYASFDYEDAGYQTAE 550
Cdd:cd03709 1 EPFVKATIITPSEYLGAIMELCQERRGVQKDMEYLDANRVMLTYELPLAEIVYDFFDKLKSISKGYASLDYELIGYRESD 80
|
|
| PRK13351 |
PRK13351 |
elongation factor G-like protein; |
61-549 |
7.60e-45 |
|
elongation factor G-like protein;
Pssm-ID: 237358 [Multi-domain] Cd Length: 687 Bit Score: 169.75 E-value: 7.60e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 61 SRFPVENIRNFSIVAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVKAQTASLFYncegKQYLLN 137
Cdd:PRK13351 1 AEMPLMQIRNIGILAHIDAGKTTLTERILFYTGKIHKmgeVEDGTTVTDWMPQEQERGITIESAATSCDW----DNHRIN 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 138 LIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERV----------- 206
Cdd:PRK13351 77 LIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDRVGADLFKVledieerfgkr 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 207 ----------ENQIEKVFDI---------------------------------------------------------PSD 219
Cdd:PRK13351 157 plplqlpigsEDGFEGVVDLitepelhfsegdggstveegpipeelleeveearekliealaefddellelylegeeLSA 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 220 ECIKI-----------------SAKLGTNVESVLQAIIE------RIPPPKVHRKN------------PLRALVFDSTFD 264
Cdd:PRK13351 237 EQLRAplregtrsghlvpvlfgSALKNIGIEPLLDAVVDylpsplEVPPPRGSKDNgkpvkvdpdpekPLLALVFKVQYD 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 265 QYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLNPNEQPThkLYAGQVGYLIAGMKdVTEAQIGDTLCLHKQPV 344
Cdd:PRK13351 317 PYAGKLTYLRVYSGTLRAGSQLYNGTGGKREKVGRLFRLQGNKREE--VDRAKAGDIVAVAG-LKELETGDTLHDSADPV 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 345 EpLPGFKSAKPMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDS----SLALGagwrlgfLGLLHMEVFNQRLEQE 420
Cdd:PRK13351 394 L-LELLTFPEPVVSLAVEPERRGDEQKLAEALEKLVWEDPSLRVEEDEetgqTILSG-------MGELHLEVALERLRRE 465
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 421 YNASVILTTPTVPYKAVLSSS---------------------------------------------KLIKEHREK----- 450
Cdd:PRK13351 466 FKLEVNTGKPQVAYRETIRKMaegvyrhkkqfggkgqfgevhlrveplergagfifvskvvggaipEELIPAVEKgirea 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 451 --------------EITIINPAQFPDKSKVT-------------------EYLEPVVLGTIITPDEYTGKIMMLCEARRA 497
Cdd:PRK13351 546 lasgplagypvtdlRVTVLDGKYHPVDSSESafkaaarkafleafrkanpVLLEPIMELEITVPTEHVGDVLGDLSQRRG 625
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 498 VQKNMIFIDQNRVMLKYLFPLNEiVVDFYDSLKSLSSGYASFDYEDAGYQTA 549
Cdd:PRK13351 626 RIEGTEPRGDGEVLVKAEAPLAE-LFGYATRLRSMTKGRGSFTMEFSHFDPV 676
|
|
| PRK07560 |
PRK07560 |
elongation factor EF-2; Reviewed |
65-435 |
2.78e-44 |
|
elongation factor EF-2; Reviewed
Pssm-ID: 236047 [Multi-domain] Cd Length: 731 Bit Score: 168.89 E-value: 2.78e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 65 VENIRNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQ-VLDKLQVERERGITVKAQTASLFYNCEGKQYLLNLIDTPG 143
Cdd:PRK07560 17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQlALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 144 HVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQlsVIPV--INKID-----LKnADPERVENQIEKVFD- 215
Cdd:PRK07560 97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRER--VKPVlfINKVDrlikeLK-LTPQEMQQRLLKIIKd 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 216 ----IPS------DECIKISAKLGT------------NV--------------------------------ESVLQAIIE 241
Cdd:PRK07560 174 vnklIKGmapeefKEKWKVDVEDGTvafgsalynwaiSVpmmqktgikfkdiidyyekgkqkelaekaplhEVVLDMVVK 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 242 RIPPPKVHRKN-------------------------PLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYE 296
Cdd:PRK07560 254 HLPNPIEAQKYripkiwkgdlnsevgkamlncdpngPLVMMVTDIIVDPHAGEVATGRVFSGTLRKGQEVYLVGAKKKNR 333
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 297 VNEVGV-LNPNEQPTHKLYAGQVGYLIaGMKDvteAQIGDTLClhkqPVEPLPGFKSAK----PMVFAGMYPLDQSEYNN 371
Cdd:PRK07560 334 VQQVGIyMGPEREEVEEIPAGNIAAVT-GLKD---ARAGETVV----SVEDMTPFESLKhisePVVTVAIEAKNPKDLPK 405
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1064244180 372 LKSAIEKLTLNDSS--VTVHRDSSLALGAGwrlgfLGLLHMEVFNQRLEQEYNASVILTTPTVPYK 435
Cdd:PRK07560 406 LIEVLRQLAKEDPTlvVKINEETGEHLLSG-----MGELHLEVITYRIKRDYGIEVVTSEPIVVYR 466
|
|
| EF4_III |
cd16260 |
Domain III of Elongation Factor 4 (EF4); Elongation factor 4 (EF4 or LepA) is a highly ... |
355-430 |
3.07e-44 |
|
Domain III of Elongation Factor 4 (EF4); Elongation factor 4 (EF4 or LepA) is a highly conserved guanosine triphosphatase found in bacteria and eukaryotic mitochondria and chloroplasts. EF4 functions as a translation factor, which promotes back-translocation of tRNAs on posttranslocational ribosome complexes and competes with elongation factor G for interaction with pretranslocational ribosomes, inhibiting the elongation phase of protein synthesis.
Pssm-ID: 293917 [Multi-domain] Cd Length: 76 Bit Score: 152.27 E-value: 3.07e-44
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1064244180 355 PMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDSSLALGAGWRLGFLGLLHMEVFNQRLEQEYNASVILTTP 430
Cdd:cd16260 1 PMVFAGLYPVDGSDYEELRDALEKLTLNDASVTFEPETSSALGFGFRCGFLGLLHMEVFQERLEREYGLDLIITAP 76
|
|
| PRK12740 |
PRK12740 |
elongation factor G-like protein EF-G2; |
74-547 |
2.52e-43 |
|
elongation factor G-like protein EF-G2;
Pssm-ID: 237186 [Multi-domain] Cd Length: 668 Bit Score: 165.30 E-value: 2.52e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 74 VAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVKAQTASLFYNceGKQylLNLIDTPGHVDFSYE 150
Cdd:PRK12740 1 VGHSGAGKTTLTEAILFYTGAIHRigeVEDGTTTMDFMPEERERGISITSAATTCEWK--GHK--INLIDTPGHVDFTGE 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 151 VSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVF---------------- 214
Cdd:PRK12740 77 VERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDRAGADFFRVLAQLQEKLgapvvplqlpigegdd 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 215 ------------------------DIPSD---------------------------------------ECIKI------- 224
Cdd:PRK12740 157 ftgvvdllsmkayrydeggpseeiEIPAElldraeeareellealaefddelmekylegeelseeeikAGLRKatlagei 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 225 ------SAKLGTNVESVLQAIIERIPPP----KVHRKN-------------PLRALVFDSTFDQYRGVIANVALFDGVVS 281
Cdd:PRK12740 237 vpvfcgSALKNKGVQRLLDAVVDYLPSPlevpPVDGEDgeegaelapdpdgPLVALVFKTMDDPFVGKLSLVRVYSGTLK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 282 KGDKIVSAHTQKTYEVNEVGVLNPNEQ-PTHKLYAGQVGyLIAGMKDvteAQIGDTLCLHKQPVePLPGFKSAKPMVFAG 360
Cdd:PRK12740 317 KGDTLYNSGTGKKERVGRLYRMHGKQReEVDEAVAGDIV-AVAKLKD---AATGDTLCDKGDPI-LLEPMEFPEPVISLA 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 361 MYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDSSLA---LGAgwrlgfLGLLHMEVFNQRLEQEYNASVILTTPTVPY--- 434
Cdd:PRK12740 392 IEPKDKGDEEKLSEALGKLAEEDPTLRVERDEETGqtiLSG------MGELHLDVALERLKREYGVEVETGPPQVPYret 465
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 435 --KAVLSSSKLIKE-----------------HREKEITIIN-------PAQF-P--DKS------------------KVT 467
Cdd:PRK12740 466 irKKAEGHGRHKKQsgghgqfgdvwleveplPRGEGFEFVDkvvggavPRQYiPavEKGvrealekgvlagypvvdvKVT 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 468 EY---------------------------------LEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMiFIDQNRVMLKY 514
Cdd:PRK12740 546 LTdgsyhsvdssemafkiaarlafrealpkakpvlLEPIMKVEVSVPEEFVGDVIGDLSSRRGRILGM-ESRGGGDVVRA 624
|
650 660 670
....*....|....*....|....*....|...
gi 1064244180 515 LFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQ 547
Cdd:PRK12740 625 EVPLAEM-FGYATDLRSLTQGRGSFSMEFSHYE 656
|
|
| EF4_II |
cd03699 |
Domain II of Elongation Factor 4 (EF4); Elongation factor 4 (EF4 or LepA) is a highly ... |
254-339 |
2.57e-43 |
|
Domain II of Elongation Factor 4 (EF4); Elongation factor 4 (EF4 or LepA) is a highly conserved guanosine triphosphatase found in bacteria and eukaryotic mitochondria and chloroplasts. EF4 functions as a translation factor, which promotes back-translocation of tRNAs on posttranslocational ribosome complexes and competes with elongation factor G for interaction with pretranslocational ribosomes, inhibiting the elongation phase of protein synthesis.
Pssm-ID: 293900 [Multi-domain] Cd Length: 86 Bit Score: 149.88 E-value: 2.57e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 254 LRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLNPNEQPTHKLYAGQVGYLIAGMKDVTEAQI 333
Cdd:cd03699 1 LRALIFDSWYDPYRGVVVLVRVFDGTLKKGDKIRFMATGKEYEVLEVGVFTPKMVPTDELSAGEVGYIIAGIKSVKDARV 80
|
....*.
gi 1064244180 334 GDTLCL 339
Cdd:cd03699 81 GDTITL 86
|
|
| PRK10218 |
PRK10218 |
translational GTPase TypA; |
65-543 |
7.46e-42 |
|
translational GTPase TypA;
Pssm-ID: 104396 [Multi-domain] Cd Length: 607 Bit Score: 160.26 E-value: 7.46e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 65 VENIRNFSIVAHVDHGKSTLADRLLELTGTID-KTKNNKQVLDKLQVERERGITVKAQTASLFYNcegkQYLLNLIDTPG 143
Cdd:PRK10218 2 IEKLRNIAIIAHVDHGKTTLVDKLLQQSGTFDsRAETQERVMDSNDLEKERGITILAKNTAIKWN----DYRINIVDTPG 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 144 HVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVF--------- 214
Cdd:PRK10218 78 HADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQVFDLFvnldatdeq 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 215 -DIPSDECIKISAKLGTNVES-------VLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKI 286
Cdd:PRK10218 158 lDFPIVYASALNGIAGLDHEDmaedmtpLYQAIVDHVPAPDVDLDGPFQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 287 VSAHTQKTYEVNEVGVLNPN---EQPTHKLyaGQVGYLIAgMKDVTEAQIGDTLClHKQPVEPLPGFKSAKPMV------ 357
Cdd:PRK10218 238 TIIDSEGKTRNAKVGKVLGHlglERIETDL--AEAGDIVA-ITGLGELNISDTVC-DTQNVEALPALSVDEPTVsmffcv 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 358 ----FAGmyplDQSEYNNLKSAIEKLTLNDSSVTVHRDSSLALGAGWRLGFLGLLHMEVFNQRLEQEyNASVILTTPTVP 433
Cdd:PRK10218 314 ntspFCG----KEGKFVTSRQILDRLNKELVHNVALRVEETEDADAFRVSGRGELHLSVLIENMRRE-GFELAVSRPKVI 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 434 YKAVlsssklikEHREKeitiinpaqfpdkskvteylEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLK 513
Cdd:PRK10218 389 FREI--------DGRKQ--------------------EPYENVTLDVEEQHQGSVMQALGERKGDLKNMNPDGKGRVRLD 440
|
490 500 510
....*....|....*....|....*....|....
gi 1064244180 514 YLFPlNEIVVDFYDSLKSLSSG----YASFDYED 543
Cdd:PRK10218 441 YVIP-SRGLIGFRSEFMTMTSGtgllYSTFSHYD 473
|
|
| EF-G |
TIGR00484 |
translation elongation factor EF-G; After peptide bond formation, this elongation factor of ... |
60-484 |
2.91e-41 |
|
translation elongation factor EF-G; After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G. [Protein synthesis, Translation factors]
Pssm-ID: 129575 [Multi-domain] Cd Length: 689 Bit Score: 159.59 E-value: 2.91e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 60 MSR-FPVENIRNFSIVAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVKAQTASLFYncegKQYL 135
Cdd:TIGR00484 1 MARtTDLNRFRNIGISAHIDAGKTTTTERILFYTGRIHKigeVHDGAATMDWMEQEKERGITITSAATTVFW----KGHR 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 136 LNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQI----- 210
Cdd:TIGR00484 77 INIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMDKTGANFLRVVNQIkqrlg 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 211 ------------------------EKVF-------------DIPSD---------------------------------- 219
Cdd:TIGR00484 157 anavpiqlpigaednfigvidlveMKAYffngdkgtkaiekEIPSDlleqakelrenlveavaefdeelmekylegeelt 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 220 -ECIKISAKLGT-----------------NVESVLQAIIERIPPP-------------------KVHRKNPLRALVFDST 262
Cdd:TIGR00484 237 iEEIKNAIRKGVlnceffpvlcgsafknkGVQLLLDAVVDYLPSPtdvpaikgidpdtekeierKASDDEPFSALAFKVA 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 263 FDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLNPNEQPTHK-LYAGQVGYLIaGMKDVTeaqIGDTLCLHK 341
Cdd:TIGR00484 317 TDPFVGQLTFVRVYSGVLKSGSYVKNSRKNKKERVGRLVKMHANNREEIKeVRAGDICAAI-GLKDTT---TGDTLCDPK 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 342 QPVEpLPGFKSAKPMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRD--SSLALGAGwrlgfLGLLHMEVFNQRLEQ 419
Cdd:TIGR00484 393 IDVI-LERMEFPEPVISLAVEPKTKADQEKMGIALGKLAEEDPTFRTFTDpeTGQTIIAG-----MGELHLDIIVDRMKR 466
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1064244180 420 EYNASVILTTPTVPYKavlsssKLIKEHREKEITIINPA----QF--------PDKSKVTEYLEPVVLGTIitPDEY 484
Cdd:TIGR00484 467 EFKVEANVGAPQVAYR------ETIRSKVEVEGKHAKQSggrgQYghvkirfePLEPKGYEFVNEIKGGVI--PREY 535
|
|
| aEF-2 |
TIGR00490 |
translation elongation factor aEF-2; This model represents archaeal elongation factor 2, a ... |
66-435 |
4.82e-39 |
|
translation elongation factor aEF-2; This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD. [Protein synthesis, Translation factors]
Pssm-ID: 129581 [Multi-domain] Cd Length: 720 Bit Score: 153.13 E-value: 4.82e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQV-LDKLQVERERGITVKAQTASLFYNCEGKQYLLNLIDTPGH 144
Cdd:TIGR00490 17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLyLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 145 VDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKID--------------------------- 197
Cdd:TIGR00490 97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFINKVDrlinelkltpqelqerfikiitevnkl 176
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 198 LKNADPE--------RVEN------------------------QIEKVFDIPSDECIKISAKLGTNVESVLQAIIERIPP 245
Cdd:TIGR00490 177 IKAMAPEefrdkwkvRVEDgsvafgsayynwaisvpsmkktgiGFKDIYKYCKEDKQKELAKKSPLHQVVLDMVIRHLPS 256
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 246 P-------------------------KVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEV 300
Cdd:TIGR00490 257 PieaqkyripviwkgdlnsevgkamlNCDPKGPLALMITKIVVDKHAGEVAVGRLYSGTIRPGMEVYIVDRKAKARIQQV 336
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 301 GV-LNPNEQPTHKLYAGQVGYLIaGMKDvteAQIGDTLCLHKQPVEPLPGFKS-AKPMVFAGMYPLDQSEYNNLKSAIEK 378
Cdd:TIGR00490 337 GVyMGPERVEVDEIPAGNIVAVI-GLKD---AVAGETICTTVENITPFESIKHiSEPVVTVAIEAKNTKDLPKLIEVLRQ 412
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*....
gi 1064244180 379 LTLNDSS--VTVHRDSSLALGAGwrlgfLGLLHMEVFNQRLEQEYNASVILTTPTVPYK 435
Cdd:TIGR00490 413 VAKEDPTvhVEINEETGEHLISG-----MGELHLEIIVEKIREDYGLDVETSPPIVVYR 466
|
|
| TetM_like |
cd04168 |
Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline ... |
70-233 |
2.13e-35 |
|
Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Pssm-ID: 206731 [Multi-domain] Cd Length: 237 Bit Score: 133.52 E-value: 2.13e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDKT----KNNKQvLDKLQVERERGITVKAQTASLFYN-CEgkqylLNLIDTPGH 144
Cdd:cd04168 1 NIGILAHVDAGKTTLTESLLYTSGAIRELgsvdKGTTR-TDSMELERQRGITIFSAVASFQWEdTK-----VNIIDTPGH 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 145 VDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDipSDECIKI 224
Cdd:cd04168 75 MDFIAEVERSLSVLDGAILVISAVEGVQAQTRILFRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKLS--PDIVPMQ 152
|
....*....
gi 1064244180 225 SAKLGTNVE 233
Cdd:cd04168 153 KVGLYPNIC 161
|
|
| PTZ00416 |
PTZ00416 |
elongation factor 2; Provisional |
66-197 |
1.28e-32 |
|
elongation factor 2; Provisional
Pssm-ID: 240409 [Multi-domain] Cd Length: 836 Bit Score: 134.02 E-value: 1.28e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRNFSIVAHVDHGKSTLADRLLELTGTI-DKTKNNKQVLDKLQVERERGITVKAQTASLFY------NCEGKQYLLNL 138
Cdd:PTZ00416 17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIIsSKNAGDARFTDTRADEQERGITIKSTGISLYYehdledGDDKQPFLINL 96
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 139 IDTPGHVDFSYEVSRSLSACQGVLLVVDANEG--IQAQTVanffLAFEAQLSVIPV--INKID 197
Cdd:PTZ00416 97 IDSPGHVDFSSEVTAALRVTDGALVVVDCVEGvcVQTETV----LRQALQERIRPVlfINKVD 155
|
|
| Snu114p |
cd04167 |
Snu114p, a spliceosome protein, is a GTPase; Snu114p subfamily. Snu114p is one of several ... |
69-197 |
1.29e-31 |
|
Snu114p, a spliceosome protein, is a GTPase; Snu114p subfamily. Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Pssm-ID: 206730 [Multi-domain] Cd Length: 213 Bit Score: 121.99 E-value: 1.29e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 69 RNFSIVAHVDHGKSTLADRLLELTGTIDKTKNNKQV----LDKLQVERERGITVKAQTASLFY-NCEGKQYLLNLIDTPG 143
Cdd:cd04167 1 RNVCIAGHLHHGKTSLLDMLIEQTHKRTPSVKLGWKplryTDTRKDEQERGISIKSNPISLVLeDSKGKSYLINIIDTPG 80
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 144 HVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKID 197
Cdd:cd04167 81 HVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRHAIQEGLPMVLVINKID 134
|
|
| EF-G |
cd01886 |
Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling ... |
70-216 |
1.36e-31 |
|
Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group contains both eukaryotic and bacterial members.
Pssm-ID: 206673 [Multi-domain] Cd Length: 270 Bit Score: 123.76 E-value: 1.36e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVkaQTASLfyNCEGKQYLLNLIDTPGHVD 146
Cdd:cd01886 1 NIGIIAHIDAGKTTTTERILYYTGRIHKigeVHGGGATMDWMEQERERGITI--QSAAT--TCFWKDHRINIIDTPGHVD 76
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 147 FSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDI 216
Cdd:cd01886 77 FTIEVERSLRVLDGAVAVFDAVAGVQPQTETVWRQADRYGVPRIAFVNKMDRTGADFYRVVEQIREKLGA 146
|
|
| LepA_C |
pfam06421 |
GTP-binding protein LepA C-terminus; This family consists of the C-terminal region of several ... |
572-624 |
1.53e-31 |
|
GTP-binding protein LepA C-terminus; This family consists of the C-terminal region of several pro- and eukaryotic GTP-binding LepA proteins.
Pssm-ID: 461905 [Multi-domain] Cd Length: 107 Bit Score: 118.28 E-value: 1.53e-31
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 572 NVKAYRKNVLAKCYGGDITRKMKLLKRQAEGKKKLRKIGNVEVPKDAFIKVLK 624
Cdd:pfam06421 55 TIKALRKDVTAKCYGGDISRKKKLLEKQKEGKKRMKQIGNVEIPQEAFLAVLK 107
|
|
| PLN00116 |
PLN00116 |
translation elongation factor EF-2 subunit; Provisional |
60-197 |
3.38e-31 |
|
translation elongation factor EF-2 subunit; Provisional
Pssm-ID: 177730 [Multi-domain] Cd Length: 843 Bit Score: 129.84 E-value: 3.38e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 60 MSRFPVE----------NIRNFSIVAHVDHGKSTLADRLLELTGTID-KTKNNKQVLDKLQVERERGITVKAQTASLFY- 127
Cdd:PLN00116 1 MVKFTAEelrrimdkkhNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAqEVAGDVRMTDTRADEAERGITIKSTGISLYYe 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 128 -----------NCEGKQYLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEG--IQAQTVANFFLAFEaqlsVIPV-- 192
Cdd:PLN00116 81 mtdeslkdfkgERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGvcVQTETVLRQALGER----IRPVlt 156
|
....*
gi 1064244180 193 INKID 197
Cdd:PLN00116 157 VNKMD 161
|
|
| EFG_C |
pfam00679 |
Elongation factor G C-terminus; This domain includes the carboxyl terminal regions of ... |
468-556 |
7.12e-26 |
|
Elongation factor G C-terminus; This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Pssm-ID: 425814 [Multi-domain] Cd Length: 88 Bit Score: 101.47 E-value: 7.12e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 468 EYLEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQ 547
Cdd:pfam00679 1 VLLEPIEKVTIDVPEEYVGDVISDLNSRRGEILDMDPDDGGRVVIEAEVPLAEL-FGFATELRSLTKGRGSFSMEFSGYQ 79
|
....*....
gi 1064244180 548 TAELVKMDI 556
Cdd:pfam00679 80 PVPGDILDR 88
|
|
| Elongation_Factor_C |
cd01514 |
Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of ... |
471-549 |
9.57e-26 |
|
Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome. Tet(M) and Tet(O) mediate Tc resistance. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. Yeast Snu114p is essential for cell viability and for splicing in vivo. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. The function of LepA proteins is unknown.
Pssm-ID: 238772 [Multi-domain] Cd Length: 79 Bit Score: 100.63 E-value: 9.57e-26
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1064244180 471 EPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQTA 549
Cdd:cd01514 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAELPLAEM-FGFATDLRSLTQGRASFSMEFSHYEPV 78
|
|
| infB |
CHL00189 |
translation initiation factor 2; Provisional |
72-291 |
1.89e-24 |
|
translation initiation factor 2; Provisional
Pssm-ID: 177089 [Multi-domain] Cd Length: 742 Bit Score: 108.38 E-value: 1.89e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 72 SIVAHVDHGKSTLADRlleltgtIDKTKN-NKQVldklqvereRGIT--VKAQTASLFYNCEGKQylLNLIDTPGHVDFS 148
Cdd:CHL00189 248 TILGHVDHGKTTLLDK-------IRKTQIaQKEA---------GGITqkIGAYEVEFEYKDENQK--IVFLDTPGHEAFS 309
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 149 YEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSD-----ECIK 223
Cdd:CHL00189 310 SMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDKANANTERIKQQLAKYNLIPEKwggdtPMIP 389
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 224 ISAKLGTNVESVLQAIIER--IPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHT 291
Cdd:CHL00189 390 ISASQGTNIDKLLETILLLaeIEDLKADPTQLAQGIILEAHLDKTKGPVATILVQNGTLHIGDIIVIGTS 459
|
|
| RF3 |
cd04169 |
Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; ... |
69-216 |
1.36e-23 |
|
Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Pssm-ID: 206732 [Multi-domain] Cd Length: 268 Bit Score: 100.75 E-value: 1.36e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 69 RNFSIVAHVDHGKSTLADRLL------ELTGTIDKTKNNKQVL-DKLQVERERGITVkaqTASL--FyncEGKQYLLNLI 139
Cdd:cd04169 3 RTFAIISHPDAGKTTLTEKLLlfggaiQEAGAVKARKSRKHATsDWMEIEKQRGISV---TSSVmqF---EYKGCVINLL 76
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1064244180 140 DTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDI 216
Cdd:cd04169 77 DTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGRDPLELLDEIENELGI 153
|
|
| IF2_eIF5B |
cd01887 |
Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B ... |
73-241 |
1.64e-23 |
|
Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Pssm-ID: 206674 [Multi-domain] Cd Length: 169 Bit Score: 97.54 E-value: 1.64e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 73 IVAHVDHGKSTLadrlleltgtidktknnkqvLDKLQ----VERE-RGIT--VKAQTASLfyncEGKQYLLNLIDTPGHV 145
Cdd:cd01887 5 VMGHVDHGKTTL--------------------LDKIRktnvAAGEaGGITqhIGAYQVPI----DVKIPGITFIDTPGHE 60
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 146 DFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL---KNADPERVENQIEKvFDIPSDE-- 220
Cdd:cd01887 61 AFTNMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAANVPIIVAINKIDKpygTEADPERVKNELSE-LGLVGEEwg 139
|
170 180
....*....|....*....|....*
gi 1064244180 221 ----CIKISAKLGTNVESVLQAIIE 241
Cdd:cd01887 140 gdvsIVPISAKTGEGIDDLLEAILL 164
|
|
| IF-2 |
TIGR00487 |
translation initiation factor IF-2; This model discriminates eubacterial (and mitochondrial) ... |
72-287 |
1.82e-23 |
|
translation initiation factor IF-2; This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU. [Protein synthesis, Translation factors]
Pssm-ID: 273102 [Multi-domain] Cd Length: 587 Bit Score: 104.85 E-value: 1.82e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 72 SIVAHVDHGKSTLADrlleltgTIDKTKNNkqvldklQVErERGITVKAQTASLFYNcEGKQylLNLIDTPGHVDFSYEV 151
Cdd:TIGR00487 91 TIMGHVDHGKTSLLD-------SIRKTKVA-------QGE-AGGITQHIGAYHVENE-DGKM--ITFLDTPGHEAFTSMR 152
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 152 SRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSD-----ECIKISA 226
Cdd:TIGR00487 153 ARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPIIVAINKIDKPEANPDRVKQELSEYGLVPEDwggdtIFVPVSA 232
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 227 KLGTNVESVLQAII--ERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIV 287
Cdd:TIGR00487 233 LTGDGIDELLDMILlqSEVEELKANPNGQASGVVIEAQLDKGRGPVATVLVQSGTLRVGDIVV 295
|
|
| CysN_ATPS |
cd04166 |
CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; CysN_ATPS ... |
70-232 |
2.36e-23 |
|
CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Pssm-ID: 206729 [Multi-domain] Cd Length: 209 Bit Score: 98.41 E-value: 2.36e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTI--DK-------TKNNKQ--------VLDKLQVERERGITVkaQTASLFYNCEGK 132
Cdd:cd04166 1 RFITCGSVDDGKSTLIGRLLYDSKSIfeDQlaalersKSSGTQgekldlalLVDGLQAEREQGITI--DVAYRYFSTPKR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 133 QYLlnLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAfeAQLS---VIPVINKIDLKNADPERVEnQ 209
Cdd:cd04166 79 KFI--IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYIA--SLLGirhVVVAVNKMDLVDYDEEVFE-E 153
|
170 180 190
....*....|....*....|....*....|
gi 1064244180 210 IEKVF-------DIPSDECIKISAKLGTNV 232
Cdd:cd04166 154 IKADYlafaaslGIEDITFIPISALEGDNV 183
|
|
| TEF1 |
COG5256 |
Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and ... |
70-287 |
2.58e-23 |
|
Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-1alpha (GTPase) is part of the Pathway/BioSystem: Translation factors
Pssm-ID: 444074 [Multi-domain] Cd Length: 423 Bit Score: 103.09 E-value: 2.58e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTG-----TIDKTKNNKQ-----------VLDKLQVERERGITVKAQtaslFYNCEGKQ 133
Cdd:COG5256 9 NLVVIGHVDHGKSTLVGRLLYETGaidehIIEKYEEEAEkkgkesfkfawVMDRLKEERERGVTIDLA----HKKFETDK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFE---AQLSVipVINKIDLKNADPER---VE 207
Cdd:COG5256 85 YYFTIIDAPGHRDFVKNMITGASQADAAILVVSAKDGVMGQTREHAFLARTlgiNQLIV--AVNKMDAVNYSEKRyeeVK 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 208 NQIEKV-----FDIPSDECIKISAKLGTNV------------ESVLQAIIERIPPPKVHRKnPLRALVFDStfdqYrgVI 270
Cdd:COG5256 163 EEVSKLlkmvgYKVDKIPFIPVSAWKGDNVvkksdnmpwyngPTLLEALDNLKEPEKPVDK-PLRIPIQDV----Y--SI 235
|
250 260
....*....|....*....|...
gi 1064244180 271 ANVALF------DGVVSKGDKIV 287
Cdd:COG5256 236 SGIGTVpvgrveTGVLKVGDKVV 258
|
|
| EF-G_bact |
cd04170 |
Elongation factor G (EF-G) family; Translocation is mediated by EF-G (also called translocase). ... |
70-217 |
1.48e-22 |
|
Elongation factor G (EF-G) family; Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group contains only bacterial members.
Pssm-ID: 206733 [Multi-domain] Cd Length: 268 Bit Score: 97.66 E-value: 1.48e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDK---TKNNKQVLDKLQVERERGITVKAQTASLFYNceGKQylLNLIDTPGHVD 146
Cdd:cd04170 1 NIALVGHSGSGKTTLAEALLYATGAIDRlgrVEDGNTVSDYDPEEKKRKMSIETSVAPLEWN--GHK--INLIDTPGYAD 76
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1064244180 147 FSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLKNADPERVENQIEKVFDIP 217
Cdd:cd04170 77 FVGETLSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAKLPRIIFINKMDRARADFDKTLAALREAFGRP 147
|
|
| CysN |
COG2895 |
Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family [Inorganic ion transport and ... |
70-287 |
4.19e-22 |
|
Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family [Inorganic ion transport and metabolism]; Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family is part of the Pathway/BioSystem: Cysteine biosynthesis
Pssm-ID: 442140 [Multi-domain] Cd Length: 430 Bit Score: 99.39 E-value: 4.19e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTI----------DKTKNNKQ------VLDKLQVERERGITVkaQTASLFYNCEGKQ 133
Cdd:COG2895 19 RFITCGSVDDGKSTLIGRLLYDTKSIfedqlaalerDSKKRGTQeidlalLTDGLQAEREQGITI--DVAYRYFSTPKRK 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLlnLIDTPGHVDFsyevSRSL----SACQGVLLVVDANEGIQAQTVANFFLAfeAQL---SVIPVINKIDLKNADPERV 206
Cdd:COG2895 97 FI--IADTPGHEQY----TRNMvtgaSTADLAILLIDARKGVLEQTRRHSYIA--SLLgirHVVVAVNKMDLVDYSEEVF 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 207 EnQIEKVF-------DIPSDECIKISAKLGTNV------------ESVLQAiIERIPPPKVHRKNPLRALV-----FDST 262
Cdd:COG2895 169 E-EIVADYrafaaklGLEDITFIPISALKGDNVversenmpwydgPTLLEH-LETVEVAEDRNDAPFRFPVqyvnrPNLD 246
|
250 260
....*....|....*....|....*
gi 1064244180 263 FDQYRGVIAnvalfDGVVSKGDKIV 287
Cdd:COG2895 247 FRGYAGTIA-----SGTVRVGDEVV 266
|
|
| PRK12317 |
PRK12317 |
elongation factor 1-alpha; Reviewed |
70-287 |
3.45e-21 |
|
elongation factor 1-alpha; Reviewed
Pssm-ID: 237055 [Multi-domain] Cd Length: 425 Bit Score: 96.53 E-value: 3.45e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDK----------TKNNKQ------VLDKLQVERERGITVKAQtaslFYNCEGKQ 133
Cdd:PRK12317 8 NLAVIGHVDHGKSTLVGRLLYETGAIDEhiieelreeaKEKGKEsfkfawVMDRLKEERERGVTIDLA----HKKFETDK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANE--GIQAQTVANFFLAFE---AQLSVipVINKIDLKNADPER--- 205
Cdd:PRK12317 84 YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDagGVMPQTREHVFLARTlgiNQLIV--AINKMDAVNYDEKRyee 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 206 VENQIEKV-----FDIPSDECIKISAKLGTNV------------ESVLQAIIERIPPPKVHRKnPLRALVFDStfdqYrg 268
Cdd:PRK12317 162 VKEEVSKLlkmvgYKPDDIPFIPVSAFEGDNVvkksenmpwyngPTLLEALDNLKPPEKPTDK-PLRIPIQDV----Y-- 234
|
250 260
....*....|....*....|....*
gi 1064244180 269 VIANVALF------DGVVSKGDKIV 287
Cdd:PRK12317 235 SISGVGTVpvgrveTGVLKVGDKVV 259
|
|
| SelB |
cd04171 |
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; ... |
76-241 |
6.38e-19 |
|
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea.
Pssm-ID: 206734 [Multi-domain] Cd Length: 170 Bit Score: 84.58 E-value: 6.38e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLadrLLELTGtIDKtknnkqvlDKLQVERERGITVKAQTASLFYNCEGKqylLNLIDTPGHVDFSYEVSRSL 155
Cdd:cd04171 7 HIDHGKTTL---IKALTG-IET--------DRLPEEKKRGITIDLGFAYLDLPDGKR---LGFIDVPGHEKFVKNMLAGA 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 156 SACQGVLLVVDANEGIQAQTVANF----FLAFEaqlSVIPVINKIDLknADPERVENQIEKV------FDIPSDECIKIS 225
Cdd:cd04171 72 GGIDAVLLVVAADEGIMPQTREHLeileLLGIK---KGLVVLTKADL--VDEDRLELVEEEIlellagTFLADAPIFPVS 146
|
170
....*....|....*.
gi 1064244180 226 AKLGTNVESVLQAIIE 241
Cdd:cd04171 147 SVTGEGIEELKNYLDE 162
|
|
| Ras_like_GTPase |
cd00882 |
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ... |
73-241 |
8.92e-19 |
|
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.
Pssm-ID: 206648 [Multi-domain] Cd Length: 161 Bit Score: 83.66 E-value: 8.92e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 73 IVAHVDHGKSTLADRLLELTGTIdktknnkqvldklqVERERGITVKAQTASLFYncEGKQYLLNLIDTPGHVDFSYEVS 152
Cdd:cd00882 2 VVGRGGVGKSSLLNALLGGEVGE--------------VSDVPGTTRDPDVYVKEL--DKGKVKLVLVDTPGLDEFGGLGR 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 153 RSLSA-----CQGVLLVVDANEGIQAQTVANFFLA--FEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSDECIKIS 225
Cdd:cd00882 66 EELARlllrgADLILLVVDSTDRESEEDAKLLILRrlRKEGIPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVS 145
|
170
....*....|....*.
gi 1064244180 226 AKLGTNVESVLQAIIE 241
Cdd:cd00882 146 AKTGEGVDELFEKLIE 161
|
|
| selB |
TIGR00475 |
selenocysteine-specific elongation factor SelB; In prokaryotes, the incorporation of ... |
70-317 |
1.64e-18 |
|
selenocysteine-specific elongation factor SelB; In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes. [Protein synthesis, Translation factors]
Pssm-ID: 129567 [Multi-domain] Cd Length: 581 Bit Score: 89.16 E-value: 1.64e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADrllELTGTidktknnkqVLDKLQVERERGITVKAQTASLFYNcegkQYLLNLIDTPGHVDFSY 149
Cdd:TIGR00475 2 IIATAGHVDHGKTTLLK---ALTGI---------AADRLPEEKKRGMTIDLGFAYFPLP----DYRLGFIDVPGHEKFIS 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 150 EVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQL-SVIPVINKIDLKN-ADPERVENQIEKVFD----IPSDECIK 223
Cdd:TIGR00475 66 NAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIpHTIVVITKADRVNeEEIKRTEMFMKQILNsyifLKNAKIFK 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 224 ISAKLGTNVESV---LQAIIERIPPPKVHRknPLRaLVFDSTFD-QYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNE 299
Cdd:TIGR00475 146 TSAKTGQGIGELkkeLKNLLESLDIKRIQK--PLR-MAIDRAFKvKGAGTVVTGTAFSGEVKVGDNLRLLPINHEVRVKA 222
|
250
....*....|....*...
gi 1064244180 300 VGVLNpneQPTHKLYAGQ 317
Cdd:TIGR00475 223 IQAQN---QDVEIAYAGQ 237
|
|
| eif2g_arch |
TIGR03680 |
translation initiation factor 2 subunit gamma; This model represents the archaeal translation ... |
70-286 |
1.19e-17 |
|
translation initiation factor 2 subunit gamma; This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Pssm-ID: 274720 [Multi-domain] Cd Length: 406 Bit Score: 85.49 E-value: 1.19e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLAdrlLELTGTIdktknnkqvLDKLQVERERGITVKAQTA-SLFYNCEGKQYL------------- 135
Cdd:TIGR03680 6 NIGMVGHVDHGKTTLT---KALTGVW---------TDTHSEELKRGISIRLGYAdAEIYKCPECDGPecyttepvcpncg 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 136 --------LNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGI-QAQTVANfFLAFEA--QLSVIPVINKIDLknADPE 204
Cdd:TIGR03680 74 setellrrVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCpQPQTKEH-LMALEIigIKNIVIVQNKIDL--VSKE 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 205 R-VEN--QIEKVFD--IPSD-ECIKISAKLGTNVESVLQAIIERIPPPKVHRKNPLRALV---FD-----STFDQYRGVI 270
Cdd:TIGR03680 151 KaLENyeEIKEFVKgtVAENaPIIPVSALHNANIDALLEAIEKFIPTPERDLDKPPLMYVarsFDvnkpgTPPEKLKGGV 230
|
250
....*....|....*.
gi 1064244180 271 ANVALFDGVVSKGDKI 286
Cdd:TIGR03680 231 IGGSLIQGKLKVGDEI 246
|
|
| EF1_alpha |
cd01883 |
Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent ... |
70-232 |
1.47e-17 |
|
Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.
Pssm-ID: 206670 [Multi-domain] Cd Length: 219 Bit Score: 81.77 E-value: 1.47e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDKT----------KNNKQ------VLDKLQVERERGITVKAQTASLfyncEGKQ 133
Cdd:cd01883 1 NLVVIGHVDAGKSTLTGHLLYKLGGVDKRtiekyekeakEMGKEsfkyawVLDKLKEERERGVTIDVGLAKF----ETEK 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPGHVDFsyeVSRSLS-ACQG--VLLVVDANEG-------IQAQTVANFFLAFEAQLS-VIPVINKIDLK--N 200
Cdd:cd01883 77 YRFTIIDAPGHRDF---VKNMITgASQAdvAVLVVSARKGefeagfeKGGQTREHALLARTLGVKqLIVAVNKMDDVtvN 153
|
170 180 190 200
....*....|....*....|....*....|....*....|
gi 1064244180 201 ADPERVENQIEKV--------FDIPSDECIKISAKLGTNV 232
Cdd:cd01883 154 WSQERYDEIKKKVspflkkvgYNPKDVPFIPISGFTGDNL 193
|
|
| SelB_euk |
cd01889 |
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; ... |
70-250 |
4.00e-17 |
|
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea.
Pssm-ID: 206676 [Multi-domain] Cd Length: 192 Bit Score: 79.72 E-value: 4.00e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTidktknnkQVLDKLQVERERGITV----------KAQTASLFYNCEGKQYLLNLI 139
Cdd:cd01889 2 NVGLLGHVDSGKTSLAKALSEIAST--------AAFDKNPQSQERGITLdlgfssfevdKPKHLEDNENPQIENYQITLV 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 140 DTPGHVDFSYEVsrsLSACQ---GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDLknADPERVENQIEKVFDI 216
Cdd:cd01889 74 DCPGHASLIRTI---IGGAQiidLMLLVVDAKKGIQTQTAECLVIGELLCKPLIVVLNKIDL--IPEEERKRKIEKMKKR 148
|
170 180 190 200
....*....|....*....|....*....|....*....|....
gi 1064244180 217 ----------PSDECIKISAKLGTNVESVLQAIIERIPPPKVHR 250
Cdd:cd01889 149 lqktlektrlKDSPIIPVSAKPGEGEAELGGELKNLIVLPLINL 192
|
|
| small_GTP |
TIGR00231 |
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ... |
73-242 |
9.03e-17 |
|
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model. [Unknown function, General]
Pssm-ID: 272973 [Multi-domain] Cd Length: 162 Bit Score: 78.18 E-value: 9.03e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 73 IVAHVDHGKSTLADRLLELTGTIdktknnkqvldklqVERERGITVKAQTASLFYNceGKQYLLNLIDTPGHVDFSY--- 149
Cdd:TIGR00231 6 IVGHPNVGKSTLLNSLLGNKGSI--------------TEYYPGTTRNYVTTVIEED--GKTYKFNLLDTAGQEDYDAirr 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 150 ----EVSRSLSACQGVLLVVDANEGIQAQTVANFFLAfEAQLSVIPVINKIDLKNAD-PERVENQIEKVFDIPSdecIKI 224
Cdd:TIGR00231 70 lyypQVERSLRVFDIVILVLDVEEILEKQTKEIIHHA-DSGVPIILVGNKIDLKDADlKTHVASEFAKLNGEPI---IPL 145
|
170
....*....|....*...
gi 1064244180 225 SAKLGTNVESvLQAIIER 242
Cdd:TIGR00231 146 SAETGKNIDS-AFKIVEA 162
|
|
| InfB |
COG0532 |
Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]; ... |
76-291 |
1.15e-15 |
|
Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]; Translation initiation factor IF-2, a GTPase is part of the Pathway/BioSystem: Translation factors
Pssm-ID: 440298 [Multi-domain] Cd Length: 502 Bit Score: 80.06 E-value: 1.15e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLADrlleltgTIDKTKnnkqVldklqVERE-RGIT--VKAqtaslfYNCEGKQYLLNLIDTPGHVDFSYEVS 152
Cdd:COG0532 12 HVDHGKTSLLD-------AIRKTN----V-----AAGEaGGITqhIGA------YQVETNGGKITFLDTPGHEAFTAMRA 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 153 RSLSACQGVLLVVDANEGIQAQTV-A-NFflAFEAQLSVIPVINKIDLKNADPERVENQIEKvFDIPSDE------CIKI 224
Cdd:COG0532 70 RGAQVTDIVILVVAADDGVMPQTIeAiNH--AKAAGVPIIVAINKIDKPGANPDRVKQELAE-HGLVPEEwggdtiFVPV 146
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 225 SAKLGTNV----ESV-LQAIIERIpppKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHT 291
Cdd:COG0532 147 SAKTGEGIdellEMIlLQAEVLEL---KANPDRPARGTVIEAKLDKGRGPVATVLVQNGTLKVGDIVVAGTA 215
|
|
| PLN03127 |
PLN03127 |
Elongation factor Tu; Provisional |
14-333 |
2.56e-15 |
|
Elongation factor Tu; Provisional
Pssm-ID: 178673 [Multi-domain] Cd Length: 447 Bit Score: 78.71 E-value: 2.56e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 14 ALAPRATGAALLVAPGPRSAPTLGAAPESwATDRLYSSAEFKEKLDMSRFPVENIR-----NFSIVAHVDHGKSTLADRL 88
Cdd:PLN03127 3 SVVLRNPNSKRLLPFSSQIYCACRGSAPS-TSASISAADDRQSPSPWWRSMATFTRtkphvNVGTIGHVDHGKTTLTAAI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 89 LELTGTIDKTKNNK-QVLDKLQVERERGITVkaQTASLFYNCEGKQYllNLIDTPGHVDFSYEVSRSLSACQGVLLVVDA 167
Cdd:PLN03127 82 TKVLAEEGKAKAVAfDEIDKAPEEKARGITI--ATAHVEYETAKRHY--AHVDCPGHADYVKNMITGAAQMDGGILVVSA 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 168 NEGIQAQTVANFFLAFEAQL-SVIPVINKIDLKNaDPERVE------NQIEKVFDIPSDEcIKI------SAKLGTNVE- 233
Cdd:PLN03127 158 PDGPMPQTKEHILLARQVGVpSLVVFLNKVDVVD-DEELLElvemelRELLSFYKFPGDE-IPIirgsalSALQGTNDEi 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 234 ------SVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGD--KIVSAHTQKTYEVNEVGVlnp 305
Cdd:PLN03127 236 gknailKLMDAVDEYIPEPVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEevEIVGLRPGGPLKTTVTGV--- 312
|
330 340 350
....*....|....*....|....*....|....
gi 1064244180 306 nEQPTHKLYAGQ----VGYLIAGMK--DVTEAQI 333
Cdd:PLN03127 313 -EMFKKILDQGQagdnVGLLLRGLKreDVQRGQV 345
|
|
| SelB |
COG3276 |
Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure ... |
76-250 |
3.89e-15 |
|
Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure and biogenesis]; Selenocysteine-specific translation elongation factor SelB is part of the Pathway/BioSystem: Translation factors
Pssm-ID: 442507 [Multi-domain] Cd Length: 630 Bit Score: 78.80 E-value: 3.89e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLadrLLELTGtIDkTknnkqvlDKLQVERERGITVKAQTASLFYNCeGKQylLNLIDTPGHVDFsyeVSRSL 155
Cdd:COG3276 8 HIDHGKTTL---VKALTG-ID-T-------DRLKEEKKRGITIDLGFAYLPLPD-GRR--LGFVDVPGHEKF---IKNML 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 156 SACQG---VLLVVDANEGIQAQTVANF----FLAFEaQLSVipVINKIDLknADPERVENQIEKVFDIPSD------ECI 222
Cdd:COG3276 70 AGAGGidlVLLVVAADEGVMPQTREHLaildLLGIK-RGIV--VLTKADL--VDEEWLELVEEEIRELLAGtfledaPIV 144
|
170 180 190
....*....|....*....|....*....|.
gi 1064244180 223 KISAKLGTNVE---SVLQAIIERIPPPKVHR 250
Cdd:COG3276 145 PVSAVTGEGIDelrAALDALAAAVPARDADG 175
|
|
| PRK04000 |
PRK04000 |
translation initiation factor IF-2 subunit gamma; Validated |
70-286 |
5.03e-15 |
|
translation initiation factor IF-2 subunit gamma; Validated
Pssm-ID: 235194 [Multi-domain] Cd Length: 411 Bit Score: 77.58 E-value: 5.03e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLAdrlLELTGTidKTknnkqvlDKLQVERERGITVK---AQTAslFY---NCEGKQYL-------- 135
Cdd:PRK04000 11 NIGMVGHVDHGKTTLV---QALTGV--WT-------DRHSEELKRGITIRlgyADAT--IRkcpDCEEPEAYttepkcpn 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 136 ----------LNLIDTPGHvdfsyEV--SRSLSAC---QGVLLVVDANEGI-QAQTVANFfLAFEA--QLSVIPVINKID 197
Cdd:PRK04000 77 cgsetellrrVSFVDAPGH-----ETlmATMLSGAalmDGAILVIAANEPCpQPQTKEHL-MALDIigIKNIVIVQNKID 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 198 LknADPER-VEN--QI---------EKVFDIPsdecikISAKLGTNVESVLQAIIERIPPPKVHRKNPLRALV---FD-- 260
Cdd:PRK04000 151 L--VSKERaLENyeQIkefvkgtvaENAPIIP------VSALHKVNIDALIEAIEEEIPTPERDLDKPPRMYVarsFDvn 222
|
250 260 270
....*....|....*....|....*....|
gi 1064244180 261 ---STFDQYR-GVIANvALFDGVVSKGDKI 286
Cdd:PRK04000 223 kpgTPPEKLKgGVIGG-SLIQGVLKVGDEI 251
|
|
| PTZ00141 |
PTZ00141 |
elongation factor 1- alpha; Provisional |
70-300 |
5.78e-15 |
|
elongation factor 1- alpha; Provisional
Pssm-ID: 185474 [Multi-domain] Cd Length: 446 Bit Score: 77.48 E-value: 5.78e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDKTKNNK----------------QVLDKLQVERERGITVKAQTaslfYNCEGKQ 133
Cdd:PTZ00141 9 NLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKfekeaaemgkgsfkyaWVLDKLKAERERGITIDIAL----WKFETPK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGI-------QAQTVANFFLAFeaQLSV---IPVINKIDLK--NA 201
Cdd:PTZ00141 85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEfeagiskDGQTREHALLAF--TLGVkqmIVCINKMDDKtvNY 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 202 DPER-------VENQIEKV-FDIPSDECIKISAKLGTNV------------ESVLQAiIERIPPPKVHRKNPLRALVFDS 261
Cdd:PTZ00141 163 SQERydeikkeVSAYLKKVgYNPEKVPFIPISGWQGDNMieksdnmpwykgPTLLEA-LDTLEPPKRPVDKPLRLPLQDV 241
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 1064244180 262 tfdqYR-GVIANVA---LFDGVVSKGDKIVSAHTQKTYEVNEV 300
Cdd:PTZ00141 242 ----YKiGGIGTVPvgrVETGILKPGMVVTFAPSGVTTEVKSV 280
|
|
| prfC |
PRK00741 |
peptide chain release factor 3; Provisional |
69-218 |
7.89e-15 |
|
peptide chain release factor 3; Provisional
Pssm-ID: 179105 [Multi-domain] Cd Length: 526 Bit Score: 77.48 E-value: 7.89e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 69 RNFSIVAHVDHGKSTLADRLL------ELTGTIDKTKNNKQVL-DKLQVERERGITVkaqTASL--FyncEGKQYLLNLI 139
Cdd:PRK00741 11 RTFAIISHPDAGKTTLTEKLLlfggaiQEAGTVKGRKSGRHATsDWMEMEKQRGISV---TSSVmqF---PYRDCLINLL 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 140 DTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVAnfflAFE-AQLSVIPV---INKIDLKNADPERVENQIEKVFD 215
Cdd:PRK00741 85 DTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRK----LMEvCRLRDTPIftfINKLDRDGREPLELLDEIEEVLG 160
|
...
gi 1064244180 216 IPS 218
Cdd:PRK00741 161 IAC 163
|
|
| cysN |
PRK05124 |
sulfate adenylyltransferase subunit 1; Provisional |
77-287 |
5.33e-13 |
|
sulfate adenylyltransferase subunit 1; Provisional
Pssm-ID: 235349 [Multi-domain] Cd Length: 474 Bit Score: 71.48 E-value: 5.33e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 77 VDHGKSTLADRLLELTGTI----------DKTKNNKQ--------VLDKLQVERERGITVkaQTASLFYNCEGKQYLlnL 138
Cdd:PRK05124 36 VDDGKSTLIGRLLHDTKQIyedqlaslhnDSKRHGTQgekldlalLVDGLQAEREQGITI--DVAYRYFSTEKRKFI--I 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 139 IDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAfeAQLS---VIPVINKIDLKNADPERVEN------- 208
Cdd:PRK05124 112 ADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIA--TLLGikhLVVAVNKMDLVDYSEEVFERiredylt 189
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 209 ---QIEKVFDIpsdECIKISAKLGTNV------------ESVLQaIIERIPPPKVHRKNPLRALVfdstfdQY------- 266
Cdd:PRK05124 190 faeQLPGNLDI---RFVPLSALEGDNVvsqsesmpwysgPTLLE-VLETVDIQRVVDAQPFRFPV------QYvnrpnld 259
|
250 260
....*....|....*....|..
gi 1064244180 267 -RGVIANVAlfDGVVSKGDKIV 287
Cdd:PRK05124 260 fRGYAGTLA--SGVVKVGDRVK 279
|
|
| EngA2 |
cd01895 |
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ... |
66-241 |
5.33e-13 |
|
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Pssm-ID: 206682 [Multi-domain] Cd Length: 174 Bit Score: 67.46 E-value: 5.33e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRnFSIVAHVDHGKSTLADRLLeltgtidktkNNKQVLdklqVERERGITVKAQTASLFYNceGKQYLLnlIDTPG-- 143
Cdd:cd01895 1 DPIK-IAIIGRPNVGKSSLLNALL----------GEERVI----VSDIAGTTRDSIDVPFEYD--GQKYTL--IDTAGir 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 144 -------HVDFsYEVSRSLSA---CQGVLLVVDANEGI--QAQTVANFflAFEAQLSVIPVINKIDLKNADPER---VEN 208
Cdd:cd01895 62 kkgkvteGIEK-YSVLRTLKAierADVVLLVLDASEGIteQDLRIAGL--ILEEGKALIIVVNKWDLVEKDEKTmkeFEK 138
|
170 180 190
....*....|....*....|....*....|....*..
gi 1064244180 209 QIEKVF----DIPsdeCIKISAKLGTNVESVLQAIIE 241
Cdd:cd01895 139 ELRRKLpfldYAP---IVFISALTGQGVDKLFDAIKE 172
|
|
| Era_like |
cd00880 |
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ... |
80-241 |
7.99e-13 |
|
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.
Pssm-ID: 206646 [Multi-domain] Cd Length: 161 Bit Score: 66.50 E-value: 7.99e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLLeltgtidktknNKQVLDklqVERERGITVKAQTASLFYNCEGKqylLNLIDTPGHVD-------FSYEVS 152
Cdd:cd00880 9 GKSSLLNALL-----------GQNVGI---VSPIPGTTRDPVRKEWELLPLGP---VVLIDTPGLDEegglgreRVEEAR 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 153 RSLSACQGVLLVVDA--NEGIQAQTVANFFlafEAQLSVIPVINKIDLKNADPERVENQIEKVFDIPSDECIKISAKLGT 230
Cdd:cd00880 72 QVADRADLVLLVVDSdlTPVEEEAKLGLLR---ERGKPVLLVLNKIDLVPESEEEELLRERKLELLPDLPVIAVSALPGE 148
|
170
....*....|.
gi 1064244180 231 NVESVLQAIIE 241
Cdd:cd00880 149 GIDELRKKIAE 159
|
|
| eIF2_gamma |
cd01888 |
Gamma subunit of initiation factor 2 (eIF2 gamma); eIF2 is a heterotrimeric translation ... |
70-247 |
9.18e-13 |
|
Gamma subunit of initiation factor 2 (eIF2 gamma); eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the selenocysteine-specific elongation factor from eubacteria. The translational factor components of the ternary complex, IF2 in eubacteria and eIF2 in eukaryotes are not the same protein (despite their unfortunately similar names). Both factors are GTPases; however, eubacterial IF-2 is a single polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is a member of the same family as eubacterial IF2, but the two proteins are only distantly related. This family includes translation initiation, elongation, and release factors.
Pssm-ID: 206675 [Multi-domain] Cd Length: 197 Bit Score: 67.29 E-value: 9.18e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLadrLLELTGTidKTKNNKQvldklqvERERGITVKAQTA-SLFY-------------------NC 129
Cdd:cd01888 2 NIGTIGHVAHGKTTL---VKALSGV--WTVRHKE-------ELKRNITIKLGYAnAKIYkcpncgcprpydtpececpGC 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 130 EGKQYLL---NLIDTPGHvdfsyEV--SRSLSAC---QGVLLVVDANEGI-QAQTVANFF-LAFEAQLSVIPVINKIDLk 199
Cdd:cd01888 70 GGETKLVrhvSFVDCPGH-----EIlmATMLSGAavmDGALLLIAANEPCpQPQTSEHLAaLEIMGLKHIIILQNKIDL- 143
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 1064244180 200 nADPERVENQIEKV---------FDIPsdeCIKISAKLGTNVESVLQAIIERIPPPK 247
Cdd:cd01888 144 -VKEEQALENYEQIkefvkgtiaENAP---IIPISAQLKYNIDVLCEYIVKKIPTPP 196
|
|
| PRK05506 |
PRK05506 |
bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional |
77-300 |
1.00e-12 |
|
bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Pssm-ID: 180120 [Multi-domain] Cd Length: 632 Bit Score: 71.11 E-value: 1.00e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 77 VDHGKSTLADRLL---------ELT---------GTIDKTKNNKQVLDKLQVERERGITVkaQTASLFYNCEGKQYLLnl 138
Cdd:PRK05506 33 VDDGKSTLIGRLLydskmifedQLAalerdskkvGTQGDEIDLALLVDGLAAEREQGITI--DVAYRYFATPKRKFIV-- 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 139 IDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAfeAQLS---VIPVINKIDLKNADPERVEnQIEKVF- 214
Cdd:PRK05506 109 ADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIA--SLLGirhVVLAVNKMDLVDYDQEVFD-EIVADYr 185
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 215 ------DIPSDECIKISAKLGTNV------------------------ESVLQAIIERIPPPKVHRKNplralvfdstfD 264
Cdd:PRK05506 186 afaaklGLHDVTFIPISALKGDNVvtrsarmpwyegpsllehletveiASDRNLKDFRFPVQYVNRPN-----------L 254
|
250 260 270
....*....|....*....|....*....|....*.
gi 1064244180 265 QYRGVIANVAlfDGVVSKGDKIVSAHTQKTYEVNEV 300
Cdd:PRK05506 255 DFRGFAGTVA--SGVVRPGDEVVVLPSGKTSRVKRI 288
|
|
| EF-Tu |
TIGR00485 |
translation elongation factor TU; This model models orthologs of translation elongation factor ... |
55-338 |
1.06e-12 |
|
translation elongation factor TU; This model models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation. [Protein synthesis, Translation factors]
Pssm-ID: 129576 [Multi-domain] Cd Length: 394 Bit Score: 70.19 E-value: 1.06e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 55 KEKLDMSRFPVenirNFSIVAHVDHGKSTLA---DRLLELTGTIDKTKNNKqvLDKLQVERERGITVkaQTASLFYNCEG 131
Cdd:TIGR00485 3 KEKFERTKPHV----NVGTIGHVDHGKTTLTaaiTTVLAKEGGAAARAYDQ--IDNAPEEKARGITI--NTAHVEYETET 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 132 KQYLlnLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKNaDPERVENQI 210
Cdd:TIGR00485 75 RHYA--HVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVfLNKCDMVD-DEELLELVE 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 211 EKV------FDIPSDEC--IKISA--------KLGTNVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVA 274
Cdd:TIGR00485 152 MEVrellsqYDFPGDDTpiIRGSAlkalegdaEWEAKILELMDAVDEYIPTPEREIDKPFLLPIEDVFSITGRGTVVTGR 231
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1064244180 275 LFDGVVSKGDKIVSAHTQKTYEVNEVGVlnpnEQPTHKLYAGQ----VGYLIAGMKDvTEAQIGDTLC 338
Cdd:TIGR00485 232 VERGIIKVGEEVEIVGLKDTRKTTVTGV----EMFRKELDEGRagdnVGLLLRGIKR-EEIERGMVLA 294
|
|
| PRK00093 |
PRK00093 |
GTP-binding protein Der; Reviewed |
66-250 |
4.16e-12 |
|
GTP-binding protein Der; Reviewed
Pssm-ID: 234628 [Multi-domain] Cd Length: 435 Bit Score: 68.54 E-value: 4.16e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 66 ENIRnFSIVAHVDHGKSTLADRLLeltgtidktkNNKQVLdklqVERERGIT---VkaqtaSLFYNCEGKQYLLnlIDTP 142
Cdd:PRK00093 172 EPIK-IAIIGRPNVGKSSLINALL----------GEERVI----VSDIAGTTrdsI-----DTPFERDGQKYTL--IDTA 229
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 143 G-----HVDFS---YEVSRSLSA---CQGVLLVVDANEGI--QAQTVANFflAFEAQLSVIPVINKIDLKNADP-ERVEN 208
Cdd:PRK00093 230 GirrkgKVTEGvekYSVIRTLKAierADVVLLVIDATEGIteQDLRIAGL--ALEAGRALVIVVNKWDLVDEKTmEEFKK 307
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 209 QIEKVF----DIPSdecIKISAKLGTNVESVLQAIIE-------RIPPPKVHR 250
Cdd:PRK00093 308 ELRRRLpfldYAPI---VFISALTGQGVDKLLEAIDEayenanrRISTSVLNR 357
|
|
| Der |
COG1160 |
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis]; |
127-244 |
6.05e-12 |
|
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
Pssm-ID: 440774 [Multi-domain] Cd Length: 438 Bit Score: 68.13 E-value: 6.05e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 127 YNCEGKQYLLnlIDTPG-----HVD-----FSyeVSRSLSA---CQGVLLVVDANEGIQAQ--TVANffLAFEAQLSVIP 191
Cdd:COG1160 218 FERDGKKYTL--IDTAGirrkgKVDegiekYS--VLRTLRAierADVVLLVIDATEGITEQdlKIAG--LALEAGKALVI 291
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1064244180 192 VINKIDL---KNADPERVENQIEKVF----DIPsdeCIKISAKLGTNVESVLQAIIE-------RIP 244
Cdd:COG1160 292 VVNKWDLvekDRKTREELEKEIRRRLpfldYAP---IVFISALTGQGVDKLLEAVDEvyesankRIS 355
|
|
| PLN03126 |
PLN03126 |
Elongation factor Tu; Provisional |
14-328 |
7.06e-12 |
|
Elongation factor Tu; Provisional
Pssm-ID: 215592 [Multi-domain] Cd Length: 478 Bit Score: 68.10 E-value: 7.06e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 14 ALAPRATGAALLVAPGPRSAP--TLGAAPESWATDRLYSSAEFKEKLDMSRFPVENIR--------------------NF 71
Cdd:PLN03126 5 ASAASSSSSLLLPSSSSSSPSssTFSFKSTSGKLKSLTLSSSFLSPFSTTTTSTSQRRrrsftvraargkferkkphvNI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 72 SIVAHVDHGKSTLADRLLELTGTIDKTKNNK-QVLDKLQVERERGITVkaQTASLFYNCEGKQYLLnlIDTPGHVDFSYE 150
Cdd:PLN03126 85 GTIGHVDHGKTTLTAALTMALASMGGSAPKKyDEIDAAPEERARGITI--NTATVEYETENRHYAH--VDCPGHADYVKN 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 151 VSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQL-SVIPVINKIDLKNADP--ERVENQIEKV---FDIPSDECIKI 224
Cdd:PLN03126 161 MITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVpNMVVFLNKQDQVDDEEllELVELEVRELlssYEFPGDDIPII 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 225 SA---------------KLGTN-----VESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGD 284
Cdd:PLN03126 241 SGsallalealmenpniKRGDNkwvdkIYELMDAVDSYIPIPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVKVGE 320
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 1064244180 285 KIVSAHTQKTYEVNEVGVLNPNEQPTHKLYAGQVGYLIAGMKDV 328
Cdd:PLN03126 321 TVDIVGLRETRSTTVTGVEMFQKILDEALAGDNVGLLLRGIQKA 364
|
|
| Gem1 |
COG1100 |
GTPase SAR1 family domain [General function prediction only]; |
80-243 |
1.51e-11 |
|
GTPase SAR1 family domain [General function prediction only];
Pssm-ID: 440717 [Multi-domain] Cd Length: 177 Bit Score: 63.46 E-value: 1.51e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLLEltGTIDktknnkqvldklqvERERGITVKAQTASLFYNCEGKQYLLNLIDTPGHVDFSYE---VSRSLS 156
Cdd:COG1100 15 GKTSLVNRLVG--DIFS--------------LEKYLSTNGVTIDKKELKLDGLDVDLVIWDTPGQDEFRETrqfYARQLT 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 157 ACQGVLLVVDaneGIQAQTVANFFLAFEA------QLSVIPVINKIDLknADPERVENQ---IEKVFDIPSDECIKISAK 227
Cdd:COG1100 79 GASLYLFVVD---GTREETLQSLYELLESlrrlgkKSPIILVLNKIDL--YDEEEIEDEerlKEALSEDNIVEVVATSAK 153
|
170
....*....|....*.
gi 1064244180 228 LGTNVESVLQAIIERI 243
Cdd:COG1100 154 TGEGVEELFAALAEIL 169
|
|
| PRK12736 |
PRK12736 |
elongation factor Tu; Reviewed |
55-294 |
3.81e-11 |
|
elongation factor Tu; Reviewed
Pssm-ID: 237184 [Multi-domain] Cd Length: 394 Bit Score: 65.35 E-value: 3.81e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 55 KEKLDMSRFPVenirNFSIVAHVDHGKSTladrlleLTGTIDKTKNNKQV--------LDKLQVERERGITVkaQTASLF 126
Cdd:PRK12736 3 KEKFDRSKPHV----NIGTIGHVDHGKTT-------LTAAITKVLAERGLnqakdydsIDAAPEEKERGITI--NTAHVE 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 127 YNCEGKQYLlnLIDTPGHVDfsYEVSRSLSACQ--GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKNaDP 203
Cdd:PRK12736 70 YETEKRHYA--HVDCPGHAD--YVKNMITGAAQmdGAILVVAATDGPMPQTREHILLARQVGVPYLVVfLNKVDLVD-DE 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 204 ER---VENQIEKV---FDIPSDEC--IKISA--------KLGTNVESVLQAIIERIPPPKVHRKNPLRALVFDSTFDQYR 267
Cdd:PRK12736 145 ELlelVEMEVRELlseYDFPGDDIpvIRGSAlkalegdpKWEDAIMELMDAVDEYIPTPERDTDKPFLMPVEDVFTITGR 224
|
250 260 270
....*....|....*....|....*....|
gi 1064244180 268 GVIANVALFDGVVSKGD--KIVSAH-TQKT 294
Cdd:PRK12736 225 GTVVTGRVERGTVKVGDevEIVGIKeTQKT 254
|
|
| Era |
COG1159 |
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis]; |
138-245 |
8.59e-11 |
|
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
Pssm-ID: 440773 [Multi-domain] Cd Length: 290 Bit Score: 63.08 E-value: 8.59e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 138 LIDTPG-H----------VDFsyeVSRSLSACQGVLLVVDANEGIQAQTvaNFFLAFEAQLS--VIPVINKIDLknADPE 204
Cdd:COG1159 55 FVDTPGiHkpkrklgrrmNKA---AWSALEDVDVILFVVDATEKIGEGD--EFILELLKKLKtpVILVINKIDL--VKKE 127
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1064244180 205 RVENQIEKVFD-IPSDECIKISAKLGTNVESVLQAIIERIPP 245
Cdd:COG1159 128 ELLPLLAEYSElLDFAEIVPISALKGDNVDELLDEIAKLLPE 169
|
|
| EFG_III-like |
cd16257 |
Domain III of Elongation factor G (EF-G) and related proteins; Bacterial Elongation factor G ... |
355-428 |
1.32e-10 |
|
Domain III of Elongation factor G (EF-G) and related proteins; Bacterial Elongation factor G (EF-G) and related proteins play a role in translation and share a similar domain architecture. Elongation factor EFG participates in the elongation phase during protein biosynthesis on the ribosome by stimulating translocation. Its functional cycles depend on GTP binding and its hydrolysis. Domain III is involved in the activation of GTP hydrolysis. This domain III, which is different from domain III in EF-TU and related elongation factors, is found in several translation factors, like bacterial release factors RF3, elongation factor 4, elongation factor 2, GTP-binding protein BipA and tetracycline resistance protein Tet.
Pssm-ID: 293914 [Multi-domain] Cd Length: 71 Bit Score: 57.36 E-value: 1.32e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 355 PMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDSSlalGAGWRLGFLGLLHMEVFNQRLEQEYNASVILT 428
Cdd:cd16257 1 PVVFVTVEVKNPLDQEKLLEGLERLSEEDPALQVYREES---TGEFILSGLGELHLEIIVARLEREYGVELVVS 71
|
|
| aIF-2 |
TIGR00491 |
translation initiation factor aIF-2/yIF-2; This model describes archaeal and eukaryotic ... |
72-289 |
2.43e-10 |
|
translation initiation factor aIF-2/yIF-2; This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; the alignment generated by this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region. [Protein synthesis, Translation factors]
Pssm-ID: 273104 [Multi-domain] Cd Length: 591 Bit Score: 63.30 E-value: 2.43e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 72 SIVAHVDHGKSTLADRLL----------ELTGTIDKTKNNKQVLDKLQVERERGITVKAQTASLFYncegkqyllnlIDT 141
Cdd:TIGR00491 8 VVLGHVDHGKTTLLDKIRgtavvkkeagGITQHIGASEVPTDVIEKICGDLLKSFKIKLKIPGLLF-----------IDT 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 142 PGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL-----------------KNADP- 203
Cdd:TIGR00491 77 PGHEAFTNLRKRGGALADIAILVVDINEGFKPQTLEALNILRSRKTPFVVAANKIDRipgwkshegypflesinKQEQRv 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 204 -----ERVENQI-------------EKVFDIPSDEC-IKISAKLGTNVESVLQAII--------ERIpppKVHRKNPLRA 256
Cdd:TIGR00491 157 rqnldKQVYNLViqlaeqgfnaerfDRIRDFTKTVAiIPVSAKTGEGIPELLAILAglaqnyleNKL---KLAIEGPAKG 233
|
250 260 270
....*....|....*....|....*....|...
gi 1064244180 257 LVFDSTFDQYRGVIANVALFDGVVSKGDKIVSA 289
Cdd:TIGR00491 234 TILEVKEEQGLGYTIDAVIYDGILRKGDIIVLA 266
|
|
| EF_Tu |
cd01884 |
Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes ... |
76-246 |
2.45e-10 |
|
Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Pssm-ID: 206671 [Multi-domain] Cd Length: 195 Bit Score: 60.29 E-value: 2.45e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLAD---RLLELTGtIDKTKNNKQVlDKLQVERERGITVkaQTASLFYNCEGKQYllNLIDTPGHVDFsyeVS 152
Cdd:cd01884 10 HVDHGKTTLTAaitKVLAKKG-GAKAKKYDEI-DKAPEEKARGITI--NTAHVEYETANRHY--AHVDCPGHADY---IK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 153 RSLS-ACQ--GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKnADPERVE------NQIEKVFDIPSDEC- 221
Cdd:cd01884 81 NMITgAAQmdGAILVVSATDGPMPQTREHLLLARQVGVPYIVVfLNKADMV-DDEELLElvemevRELLSKYGFDGDDTp 159
|
170 180 190
....*....|....*....|....*....|....*.
gi 1064244180 222 -IKISA---------KLGTN-VESVLQAIIERIPPP 246
Cdd:cd01884 160 iVRGSAlkalegddpNKWVDkILELLDALDSYIPTP 195
|
|
| GTP_EFTU_D2 |
pfam03144 |
Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this ... |
268-338 |
4.42e-10 |
|
Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to pfam03143, and in fact has weak sequence matches to this domain.
Pssm-ID: 427163 [Multi-domain] Cd Length: 73 Bit Score: 56.12 E-value: 4.42e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 268 GVIANVALFDGVVSKGDKI--VSAHTQKTYEVNEVGVLNPNEQPTHKLYAGQVGYLIAGMKDVTEAQIGDTLC 338
Cdd:pfam03144 1 GTVATGRVESGTLKKGDKVriLPNGTGKKKIVTRVTSLLMFHAPLREAVAGDNAGLILAGVGLEDIRVGDTLT 73
|
|
| PLN00043 |
PLN00043 |
elongation factor 1-alpha; Provisional |
70-197 |
8.49e-10 |
|
elongation factor 1-alpha; Provisional
Pssm-ID: 165621 [Multi-domain] Cd Length: 447 Bit Score: 61.26 E-value: 8.49e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLLELTGTIDK----------TKNNKQ------VLDKLQVERERGITVKAQtaslFYNCEGKQ 133
Cdd:PLN00043 9 NIVVIGHVDSGKSTTTGHLIYKLGGIDKrvierfekeaAEMNKRsfkyawVLDKLKAERERGITIDIA----LWKFETTK 84
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 134 YLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEG-------IQAQTVANFFLAFEAQL-SVIPVINKID 197
Cdd:PLN00043 85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGgfeagisKDGQTREHALLAFTLGVkQMICCCNKMD 156
|
|
| era |
PRK00089 |
GTPase Era; Reviewed |
80-245 |
1.71e-09 |
|
GTPase Era; Reviewed
Pssm-ID: 234624 [Multi-domain] Cd Length: 292 Bit Score: 59.29 E-value: 1.71e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLLeltGT---IdktknnkqVLDKLQVERER--GItvkaqtaslfYNCEGKQYLLnlIDTPG-H--------- 144
Cdd:PRK00089 17 GKSTLLNALV---GQkisI--------VSPKPQTTRHRirGI----------VTEDDAQIIF--VDTPGiHkpkralnra 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 145 -VDFsyeVSRSLSACQGVLLVVDANEGIQAQTvaNFFLAF--EAQLSVIPVINKIDLKNaDPERVENQIEKVFD-IPSDE 220
Cdd:PRK00089 74 mNKA---AWSSLKDVDLVLFVVDADEKIGPGD--EFILEKlkKVKTPVILVLNKIDLVK-DKEELLPLLEELSElMDFAE 147
|
170 180
....*....|....*....|....*
gi 1064244180 221 CIKISAKLGTNVESVLQAIIERIPP 245
Cdd:PRK00089 148 IVPISALKGDNVDELLDVIAKYLPE 172
|
|
| EFG_mtEFG_C |
cd03713 |
EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational ... |
471-547 |
3.03e-09 |
|
EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. No clear phenotype has been found for mutants in the yeast homologue of mtEFG2, MEF2.
Pssm-ID: 239683 [Multi-domain] Cd Length: 78 Bit Score: 53.69 E-value: 3.03e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1064244180 471 EPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIfIDQNRVMLKYLFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQ 547
Cdd:cd03713 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTE-SRGGWKVIKAEVPLAEM-FGYSTDLRSLTQGRGSFTMEFSHYE 75
|
|
| PRK10512 |
PRK10512 |
selenocysteinyl-tRNA-specific translation factor; Provisional |
76-346 |
1.13e-08 |
|
selenocysteinyl-tRNA-specific translation factor; Provisional
Pssm-ID: 182508 [Multi-domain] Cd Length: 614 Bit Score: 58.14 E-value: 1.13e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLadrLLELTGtIDKtknnkqvlDKLQVERERGITVKAQTAslfYNCEGKQYLLNLIDTPGHVDFsyeVSRSL 155
Cdd:PRK10512 8 HVDHGKTTL---LQAITG-VNA--------DRLPEEKKRGMTIDLGYA---YWPQPDGRVLGFIDVPGHEKF---LSNML 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 156 SACQGV---LLVVDANEGIQAQT---VANFFLAFEAQLSVipVINKIDLknADPER---VENQIEKV---FDIPSDECIK 223
Cdd:PRK10512 70 AGVGGIdhaLLVVACDDGVMAQTrehLAILQLTGNPMLTV--ALTKADR--VDEARiaeVRRQVKAVlreYGFAEAKLFV 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 224 ISAKLGTNVESV---LQAIIERIPPPkvHRKnpLRaLVFDSTFdQYRG---VIANVALfDGVVSKGDKIVSAHTQKTYEV 297
Cdd:PRK10512 146 TAATEGRGIDALrehLLQLPEREHAA--QHR--FR-LAIDRAF-TVKGaglVVTGTAL-SGEVKVGDTLWLTGVNKPMRV 218
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 298 NEvgvLNPNEQPTHKLYAGQ-VGYLIAGmkDVTEAQI--GDTLcLHKQPVEP 346
Cdd:PRK10512 219 RG---LHAQNQPTEQAQAGQrIALNIAG--DAEKEQInrGDWL-LADAPPEP 264
|
|
| trmE |
cd04164 |
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ... |
134-243 |
1.42e-08 |
|
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Pssm-ID: 206727 [Multi-domain] Cd Length: 159 Bit Score: 54.42 E-value: 1.42e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPG------HVdfsyE---VSRSLSACQG---VLLVVDANEGIQAQTVAnfFLAFEAQLSVIPVINKIDLKNA 201
Cdd:cd04164 51 IPVRLIDTAGlretedEI----EkigIERAREAIEEadlVLLVVDASEGLDEEDLE--ILELPAKKPVIVVLNKSDLLSD 124
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1064244180 202 DPERvenqiekvFDIPSDECIKISAKLGTNVESVLQAIIERI 243
Cdd:cd04164 125 AEGI--------SELNGKPIIAISAKTGEGIDELKEALLELA 158
|
|
| PRK00049 |
PRK00049 |
elongation factor Tu; Reviewed |
76-226 |
2.61e-08 |
|
elongation factor Tu; Reviewed
Pssm-ID: 234596 [Multi-domain] Cd Length: 396 Bit Score: 56.35 E-value: 2.61e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTLAdrlLELTGTIDKTKNNKQV----LDKLQVERERGITVkaQTASLFYNCEGKQYllNLIDTPGHVDFsyeV 151
Cdd:PRK00049 20 HVDHGKTTLT---AAITKVLAKKGGAEAKaydqIDKAPEEKARGITI--NTAHVEYETEKRHY--AHVDCPGHADY---V 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 152 SRSLS-ACQ--GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKNaDPER---VENQIEKV---FDIPSDEC 221
Cdd:PRK00049 90 KNMITgAAQmdGAILVVSAADGPMPQTREHILLARQVGVPYIVVfLNKCDMVD-DEELlelVEMEVRELlskYDFPGDDT 168
|
....*..
gi 1064244180 222 --IKISA 226
Cdd:PRK00049 169 piIRGSA 175
|
|
| tufA |
CHL00071 |
elongation factor Tu |
70-286 |
3.10e-08 |
|
elongation factor Tu
Pssm-ID: 177010 [Multi-domain] Cd Length: 409 Bit Score: 56.12 E-value: 3.10e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTladrlleLTGTIDKT---KNNKQVLDKLQV-----ERERGITVKaqTASLFYNCEGKQYllNLIDT 141
Cdd:CHL00071 14 NIGTIGHVDHGKTT-------LTAAITMTlaaKGGAKAKKYDEIdsapeEKARGITIN--TAHVEYETENRHY--AHVDC 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 142 PGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKNaDPERVE------NQIEKVF 214
Cdd:CHL00071 83 PGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVfLNKEDQVD-DEELLElvelevRELLSKY 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 215 DIPSDE--CIKISA-------------KLGTN--VESVLQ---AIIERIPPPKVHRKNPLRALVFDSTFDQYRGVIANVA 274
Cdd:CHL00071 162 DFPGDDipIVSGSAllalealtenpkiKRGENkwVDKIYNlmdAVDSYIPTPERDTDKPFLMAIEDVFSITGRGTVATGR 241
|
250
....*....|..
gi 1064244180 275 LFDGVVSKGDKI 286
Cdd:CHL00071 242 IERGTVKVGDTV 253
|
|
| PRK12735 |
PRK12735 |
elongation factor Tu; Reviewed |
55-247 |
3.50e-08 |
|
elongation factor Tu; Reviewed
Pssm-ID: 183708 [Multi-domain] Cd Length: 396 Bit Score: 56.00 E-value: 3.50e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 55 KEKLDMSRFPVenirNFSIVAHVDHGKSTladrlleLTGTIDKTKNNK--------QVLDKLQVERERGITVkaQTASLF 126
Cdd:PRK12735 3 KEKFERTKPHV----NVGTIGHVDHGKTT-------LTAAITKVLAKKgggeakayDQIDNAPEEKARGITI--NTSHVE 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 127 YNCEGKQYllNLIDTPGHVDFsyeVSRSLS-ACQ--GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV-INKIDLKNaD 202
Cdd:PRK12735 70 YETANRHY--AHVDCPGHADY---VKNMITgAAQmdGAILVVSAADGPMPQTREHILLARQVGVPYIVVfLNKCDMVD-D 143
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1064244180 203 PER---VENQIEKV---FDIPSDEC--IKISAKLGTN----------VESVLQAIIERIPPPK 247
Cdd:PRK12735 144 EELlelVEMEVRELlskYDFPGDDTpiIRGSALKALEgdddeeweakILELMDAVDSYIPEPE 206
|
|
| PRK04004 |
PRK04004 |
translation initiation factor IF-2; Validated |
73-287 |
3.94e-08 |
|
translation initiation factor IF-2; Validated
Pssm-ID: 235195 [Multi-domain] Cd Length: 586 Bit Score: 56.34 E-value: 3.94e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 73 IVA---HVDHGKSTLADRlleltgtIDKTKnnkqVldklqVERERG-IT------------VKAQTASLFYNCEGKQYL- 135
Cdd:PRK04004 8 IVVvlgHVDHGKTTLLDK-------IRGTA----V-----AAKEAGgITqhigatevpidvIEKIAGPLKKPLPIKLKIp 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 136 -LNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVanfflafEA----QLSVIPVI---NKIDL--------- 198
Cdd:PRK04004 72 gLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTI-------EAinilKRRKTPFVvaaNKIDRipgwksted 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 199 ------KNADPERVENQIE-KVFDI---------PSDE------------CIKISAKLGTNVESVLQAII--------ER 242
Cdd:PRK04004 145 apflesIEKQSQRVQQELEeKLYELigqlselgfSADRfdrvkdftktvaIVPVSAKTGEGIPDLLMVLAglaqryleER 224
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 1064244180 243 IpppKVHRKNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIV 287
Cdd:PRK04004 225 L---KIDVEGPGKGTVLEVKEERGLGTTIDVILYDGTLRKGDTIV 266
|
|
| TufA |
COG0050 |
Translation elongation factor EF-Tu, a GTPase [Translation, ribosomal structure and biogenesis] ... |
76-207 |
5.82e-08 |
|
Translation elongation factor EF-Tu, a GTPase [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-Tu, a GTPase is part of the Pathway/BioSystem: Translation factors
Pssm-ID: 439820 [Multi-domain] Cd Length: 396 Bit Score: 55.16 E-value: 5.82e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 76 HVDHGKSTL--AdrlleLTGTIDKTKNNKQV----LDKLQVERERGITVkaQTASLFYNCEGKQYllNLIDTPGHVDFsy 149
Cdd:COG0050 20 HVDHGKTTLtaA-----ITKVLAKKGGAKAKaydqIDKAPEEKERGITI--NTSHVEYETEKRHY--AHVDCPGHADY-- 88
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 150 eVSRSLS-ACQ--GVLLVVDANEGIQAQTVANFFLAfeAQLSV--IPV-INKIDLKNaDPERVE 207
Cdd:COG0050 89 -VKNMITgAAQmdGAILVVSATDGPMPQTREHILLA--RQVGVpyIVVfLNKCDMVD-DEELLE 148
|
|
| MnmE |
COG0486 |
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ... |
134-243 |
6.99e-08 |
|
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal structure and biogenesis]; tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE is part of the Pathway/BioSystem: tRNA modification
Pssm-ID: 440253 [Multi-domain] Cd Length: 448 Bit Score: 55.07 E-value: 6.99e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPG------HVdfsyE---VSRSLSACQG---VLLVVDANEGIQAQTVAnfFLAFEAQLSVIPVINKIDLKNA 201
Cdd:COG0486 261 IPVRLIDTAGlretedEV----EkigIERAREAIEEadlVLLLLDASEPLTEEDEE--ILEKLKDKPVIVVLNKIDLPSE 334
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1064244180 202 DPERVEnqiekvfDIPSDECIKISAKLGTNVESVLQAIIERI 243
Cdd:COG0486 335 ADGELK-------SLPGEPVIAISAKTGEGIDELKEAILELV 369
|
|
| trmE |
PRK05291 |
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE; |
134-243 |
9.03e-08 |
|
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
Pssm-ID: 235392 [Multi-domain] Cd Length: 449 Bit Score: 54.73 E-value: 9.03e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPG------HVdfsyE---VSRSLSACQG---VLLVVDANEGIQAQTVANFFLafEAQLSVIPVINKIDLKNA 201
Cdd:PRK05291 263 IPLRLIDTAGiretddEV----EkigIERSREAIEEadlVLLVLDASEPLTEEDDEILEE--LKDKPVIVVLNKADLTGE 336
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1064244180 202 DPERVENqiekvfdipSDECIKISAKLGTNVESVLQAIIERI 243
Cdd:PRK05291 337 IDLEEEN---------GKPVIRISAKTGEGIDELREAIKELA 369
|
|
| PTZ00327 |
PTZ00327 |
eukaryotic translation initiation factor 2 gamma subunit; Provisional |
70-286 |
2.22e-07 |
|
eukaryotic translation initiation factor 2 gamma subunit; Provisional
Pssm-ID: 240362 [Multi-domain] Cd Length: 460 Bit Score: 53.85 E-value: 2.22e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADrllELTGTidKTKNNKQvldklqvERERGITVKA--QTASLF----------Y---------- 127
Cdd:PTZ00327 36 NIGTIGHVAHGKSTVVK---ALSGV--KTVRFKR-------EKVRNITIKLgyANAKIYkcpkcprptcYqsygsskpdn 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 128 ----NCEGKQYLL---NLIDTPGHvDFSyeVSRSLS-AC--QGVLLVVDANEGI-QAQTVANFFLAFEAQLSVIPVI-NK 195
Cdd:PTZ00327 104 ppcpGCGHKMTLKrhvSFVDCPGH-DIL--MATMLNgAAvmDAALLLIAANESCpQPQTSEHLAAVEIMKLKHIIILqNK 180
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 196 IDL-KNADPERVENQIEKVFDIPSDE---CIKISAKLGTNVESVLQAIIERIPPPKVHRKNPLRALV---FD-----STF 263
Cdd:PTZ00327 181 IDLvKEAQAQDQYEEIRNFVKGTIADnapIIPISAQLKYNIDVVLEYICTQIPIPKRDLTSPPRMIVirsFDvnkpgEDI 260
|
250 260
....*....|....*....|...
gi 1064244180 264 DQYRGVIANVALFDGVVSKGDKI 286
Cdd:PTZ00327 261 ENLKGGVAGGSILQGVLKVGDEI 283
|
|
| Era |
cd04163 |
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ... |
80-241 |
3.27e-07 |
|
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Pssm-ID: 206726 [Multi-domain] Cd Length: 168 Bit Score: 50.54 E-value: 3.27e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLLELTGTIdktknnkqVLDKLQVERER--GItvkaqtaslfYNCEGKQYLLnlIDTPG-HVDFS-------Y 149
Cdd:cd04163 15 GKSTLLNALVGQKISI--------VSPKPQTTRNRirGI----------YTDDDAQIIF--VDTPGiHKPKKklgermvK 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 150 EVSRSLSACQGVLLVVDANEGI--QAQTVANffLAFEAQLSVIPVINKIDLKNaDPERVENQIEKVFD-IPSDECIKISA 226
Cdd:cd04163 75 AAWSALKDVDLVLFVVDASEWIgeGDEFILE--LLKKSKTPVILVLNKIDLVK-DKEDLLPLLEKLKElHPFAEIFPISA 151
|
170
....*....|....*
gi 1064244180 227 KLGTNVESVLQAIIE 241
Cdd:cd04163 152 LKGENVDELLEYIVE 166
|
|
| MnmE_helical |
pfam12631 |
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ... |
134-241 |
3.98e-07 |
|
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An N-terminal domain, a helical domain and a GTPase domain which is nested within the helical domain. This family represents the helical domain.
Pssm-ID: 463649 [Multi-domain] Cd Length: 326 Bit Score: 52.48 E-value: 3.98e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 134 YLLNLIDTPG------HVdfsyE---VSRSLSACQG---VLLVVDANEGIQAQTvANFFLAFEAQLSVIPVINKIDLKNA 201
Cdd:pfam12631 142 IPLRLIDTAGiretddEV----EkigIERAREAIEEadlVLLVLDASRPLDEED-LEILELLKDKKPIIVVLNKSDLLGE 216
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 1064244180 202 DPERVENqiekvfdiPSDECIKISAKLGTNVESVLQAIIE 241
Cdd:pfam12631 217 IDELEEL--------KGKPVLAISAKTGEGLDELEEAIKE 248
|
|
| HflX |
cd01878 |
HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment ... |
161-243 |
2.52e-06 |
|
HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Pssm-ID: 206666 [Multi-domain] Cd Length: 204 Bit Score: 48.61 E-value: 2.52e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 161 VLLVVDA---NEGIQAQTVANFfLAfEAQLSVIPVI---NKIDLknADPERVENQIEKvfdiPSDECIKISAKLGTNVES 234
Cdd:cd01878 124 LLHVVDAsdpDREEQIETVEEV-LK-ELGADDIPIIlvlNKIDL--LDDEELEERLRA----GRPDAVFISAKTGEGLDL 195
|
....*....
gi 1064244180 235 VLQAIIERI 243
Cdd:cd01878 196 LKEAIEELL 204
|
|
| Translation_Factor_II_like |
cd01342 |
Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of ... |
254-338 |
7.49e-06 |
|
Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of three structural domains. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E. coli IF-2 to 30S subunits.
Pssm-ID: 293888 [Multi-domain] Cd Length: 80 Bit Score: 44.18 E-value: 7.49e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 254 LRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVlnpNEQPTHKLYAGQVGYLiaGMKDVTEAQI 333
Cdd:cd01342 1 LVMQVFKVFYIPGRGRVAGGRVESGTLKVGDEIRILPKGITGRVTSIER---FHEEVDEAKAGDIVGI--GILGVKDILT 75
|
....*
gi 1064244180 334 GDTLC 338
Cdd:cd01342 76 GDTLT 80
|
|
| YihA_EngB |
cd01876 |
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ... |
126-243 |
8.00e-06 |
|
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Pssm-ID: 206665 [Multi-domain] Cd Length: 170 Bit Score: 46.35 E-value: 8.00e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 126 FYNCEGKQYLlnlIDTPG----------HVDFSYEVSRSLSACQ---GVLLVVDANEGIQAQTVANFFLAFEAQLSVIPV 192
Cdd:cd01876 40 FFNVGDKFRL---VDLPGygyakvskevREKWGKLIEEYLENREnlkGVVLLIDARHGPTPIDLEMLEFLEELGIPFLIV 116
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 193 INKID-LKNADPERVENQIEKVFD--IPSDECIKISAKLGTNVESVLQAIIERI 243
Cdd:cd01876 117 LTKADkLKKSELAKVLKKIKEELNlfNILPPVILFSSKKGTGIDELRALIAEWL 170
|
|
| EFG_mtEFG_II |
cd04088 |
Domain II of bacterial elongation factor G and C-terminal domain of mitochondrial Elongation ... |
254-338 |
3.50e-05 |
|
Domain II of bacterial elongation factor G and C-terminal domain of mitochondrial Elongation factors G1 and G2; This family represents the domain II of bacterial Elongation factor G (EF-G)and mitochondrial Elongation factors G1 (mtEFG1) and G2 (mtEFG2). During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. mtEFG1 and mtEFG2 show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. No clear phenotype has been found for mutants in the yeast homolog of mtEFG2, MEF2.
Pssm-ID: 293905 [Multi-domain] Cd Length: 83 Bit Score: 42.51 E-value: 3.50e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 254 LRALVFDSTFDQYRGVIANVALFDGVVSKGDKIVSAHTQKTYEVNEVGVLNPNEQ-PTHKLYAGQVGyLIAGMKDvteAQ 332
Cdd:cd04088 1 FSALVFKTMADPFVGKLTFFRVYSGTLKSGSTVYNSTKGKKERVGRLLRMHGKKReEVEELGAGDIG-AVVGLKD---TR 76
|
....*.
gi 1064244180 333 IGDTLC 338
Cdd:cd04088 77 TGDTLC 82
|
|
| MMR_HSR1 |
pfam01926 |
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ... |
80-195 |
4.23e-05 |
|
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.
Pssm-ID: 460387 [Multi-domain] Cd Length: 113 Bit Score: 42.99 E-value: 4.23e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLleltgtidkTKNNKQVLDKLqvererGITVKAQTASLFYNceGKQYLLnlIDTPGHVDFSYE---VSRSLS 156
Cdd:pfam01926 11 GKSTLINAL---------TGAKAIVSDYP------GTTRDPNEGRLELK--GKQIIL--VDTPGLIEGASEgegLGRAFL 71
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1064244180 157 A---CQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINK 195
Cdd:pfam01926 72 AiieADLILFVVDSEEGITPLDEELLELLRENKKPIILVLNK 113
|
|
| YeeP |
COG3596 |
Predicted GTPase [General function prediction only]; |
135-267 |
8.08e-05 |
|
Predicted GTPase [General function prediction only];
Pssm-ID: 442815 [Multi-domain] Cd Length: 318 Bit Score: 45.14 E-value: 8.08e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 135 LLNLIDTPGHVDFSY------EVSRSLSACQGVLLVVDANEgIQAQTVANFFLAFEAQLSVIP---VINKIDLknADPER 205
Cdd:COG3596 89 GLVLLDTPGLGEVNErdreyrELRELLPEADLILWVVKADD-RALATDEEFLQALRAQYPDPPvlvVLTQVDR--LEPER 165
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 206 VEN-------------------QIEKVFDIPSDECIKISAKL---GTNVESVLQAIIERIPPPKVHRknpLRALVFDSTF 263
Cdd:COG3596 166 EWDppynwpsppkeqnirraleAIAEQLGVPIDRVIPVSAAEdrtGYGLEELVDALAEALPEAKRSR---LARLLRAKAI 242
|
....
gi 1064244180 264 DQYR 267
Cdd:COG3596 243 DRYT 246
|
|
| SR_beta |
cd04105 |
Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms ... |
117-212 |
3.37e-04 |
|
Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP); Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this type of cancer.
Pssm-ID: 206691 [Multi-domain] Cd Length: 202 Bit Score: 42.31 E-value: 3.37e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 117 TVKAQTAS--LFYNCEGKQYLLNLIDTPGHVDFSYEVSRSLS-ACQGVLLVVDAnEGIQ--AQTVANF----FLAFEAQL 187
Cdd:cd04105 28 TVTSIEPNvaSFYSNSSKGKKLTLVDVPGHEKLRDKLLEYLKaSLKAIVFVVDS-ATFQknIRDVAEFlydiLTDLEKIK 106
|
90 100
....*....|....*....|....*....
gi 1064244180 188 SVIPVI---NKIDLKNA-DPERVENQIEK 212
Cdd:cd04105 107 NKIPILiacNKQDLFTAkPAKKIKELLEK 135
|
|
| BipA_TypA_C |
cd03710 |
BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of ... |
471-517 |
3.95e-04 |
|
BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secretion.
Pssm-ID: 239681 [Multi-domain] Cd Length: 79 Bit Score: 39.41 E-value: 3.95e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 1064244180 471 EPVVLGTIITPDEYTGKIMMLCEARRAVQKNMIFIDQNRVMLKYLFP 517
Cdd:cd03710 1 EPIEELTIDVPEEYSGAVIEKLGKRKGEMVDMEPDGNGRTRLEFKIP 47
|
|
| YqeH |
cd01855 |
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ... |
161-247 |
4.05e-04 |
|
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Pssm-ID: 206748 [Multi-domain] Cd Length: 191 Bit Score: 41.87 E-value: 4.05e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 161 VLLVVDanegiqaqtVANFFLAFEAQL-------SVIPVINKIDL--KNADPERVENQIEKVF---DIPSDECIKISAKL 228
Cdd:cd01855 37 VVHVVD---------IFDFPGSLIPGLaeligakPVILVGNKIDLlpKDVKPNRLKQWVKKRLkigGLKIKDVILVSAKK 107
|
90
....*....|....*....
gi 1064244180 229 GTNVESVLQAIIERIPPPK 247
Cdd:cd01855 108 GWGVEELIEEIKKLAKYRG 126
|
|
| PRK09518 |
PRK09518 |
bifunctional cytidylate kinase/GTPase Der; Reviewed |
130-248 |
4.34e-04 |
|
bifunctional cytidylate kinase/GTPase Der; Reviewed
Pssm-ID: 236546 [Multi-domain] Cd Length: 712 Bit Score: 43.24 E-value: 4.34e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 130 EGKQYLLnlIDTPG----------HVDFSYEVSRS-LSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL 198
Cdd:PRK09518 496 DGEDWLF--IDTAGikrrqhkltgAEYYSSLRTQAaIERSELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDL 573
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 1064244180 199 KNADP-ERVENQIEKVFD-IPSDECIKISAKLGTNVESVLQAIIE-------RIPPPKV 248
Cdd:PRK09518 574 MDEFRrQRLERLWKTEFDrVTWARRVNLSAKTGWHTNRLAPAMQEaleswdqRIPTGKL 632
|
|
| Ras |
pfam00071 |
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop ... |
128-244 |
4.99e-04 |
|
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.
Pssm-ID: 425451 [Multi-domain] Cd Length: 162 Bit Score: 40.96 E-value: 4.99e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 128 NCEGKQYLLNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLS-VIPVI---NKIDLKNA-- 201
Cdd:pfam00071 42 EVDGKTVKLQIWDTAGQERFRALRPLYYRGADGFLLVYDITSRDSFENVKKWVEEILRHADeNVPIVlvgNKCDLEDQrv 121
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 1064244180 202 -DPERVEnQIEKVFDIPSDECikiSAKLGTNVESVLQAIIERIP 244
Cdd:pfam00071 122 vSTEEGE-ALAKELGLPFMET---SAKTNENVEEAFEELAREIL 161
|
|
| DLP_2 |
cd09912 |
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The ... |
70-228 |
6.28e-04 |
|
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.
Pssm-ID: 206739 [Multi-domain] Cd Length: 180 Bit Score: 40.99 E-value: 6.28e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 70 NFSIVAHVDHGKSTLADRLL--ELTGT-IDKTKNNKQVldkLQVERERGITvkaqtaslfyncegkqyllnLIDTPG--- 143
Cdd:cd09912 2 LLAVVGEFSAGKSTLLNALLgeEVLPTgVTPTTAVITV---LRYGLLKGVV--------------------LVDTPGlns 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 144 HVDFSYEVSRS-LSACQGVLLVVDANegiQAQTVANF-FLAFEAQLSVIP---VINKIDLKNADPERVENQIEKVFDIPS 218
Cdd:cd09912 59 TIEHHTEITESfLPRADAVIFVLSAD---QPLTESEReFLKEILKWSGKKiffVLNKIDLLSEEELEEVLEYSREELGVL 135
|
170
....*....|....*.
gi 1064244180 219 DECIK------ISAKL 228
Cdd:cd09912 136 ELGGGeprifpVSAKE 151
|
|
| Obg |
cd01898 |
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress ... |
158-243 |
6.32e-04 |
|
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Pssm-ID: 206685 [Multi-domain] Cd Length: 170 Bit Score: 40.87 E-value: 6.32e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 158 CQGVLLVVDANEGIQAqtVANFFL------AFEAQLS---VIPVINKIDLkNADPERVENQIEKVFDIPSDECIKISAKL 228
Cdd:cd01898 79 TRVLLHVIDLSGEDDP--VEDYETirneleAYNPGLAekpRIVVLNKIDL-LDAEERFEKLKELLKELKGKKVFPISALT 155
|
90
....*....|....*
gi 1064244180 229 GTNVESVLQAIIERI 243
Cdd:cd01898 156 GEGLDELLKKLAKLL 170
|
|
| PRK14845 |
PRK14845 |
translation initiation factor IF-2; Provisional |
136-287 |
9.77e-04 |
|
translation initiation factor IF-2; Provisional
Pssm-ID: 237833 [Multi-domain] Cd Length: 1049 Bit Score: 42.56 E-value: 9.77e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 136 LNLIDTPGHVDFSYEVSRSLSACQGVLLVVDANEGIQAQTVANFFLAFEAQLSVIPVINKIDL---------------KN 200
Cdd:PRK14845 528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKIDLipgwnisedepfllnFN 607
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 201 ADPERVENQIE---------------------KVFDIPSDECI-KISAKLGTNVESVLQAII--------ERIpppKVHR 250
Cdd:PRK14845 608 EQDQHALTELEiklyeligklyelgfdadrfdRVQDFTRTVAIvPVSAKTGEGIPELLMMVAglaqkyleERL---KLNV 684
|
170 180 190
....*....|....*....|....*....|....*..
gi 1064244180 251 KNPLRALVFDSTFDQYRGVIANVALFDGVVSKGDKIV 287
Cdd:PRK14845 685 EGYAKGTILEVKEEKGLGTTIDAIIYDGTLRRGDTIV 721
|
|
| EFG_III |
cd16262 |
Domain III of Elongation Factor G (EFG); This model represents domain III of bacterial ... |
354-430 |
1.01e-03 |
|
Domain III of Elongation Factor G (EFG); This model represents domain III of bacterial Elongation factor G (EF-G), and mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2), which play an important role during peptide synthesis and tRNA site changes. In bacteria, this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. mtEFG1 and mtEFG2 show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects, and a tendency to lose mitochondrial DNA. No clear phenotype has been found for mutants of the yeast homolog of mtEFG2, MEF2.
Pssm-ID: 293919 [Multi-domain] Cd Length: 76 Bit Score: 38.21 E-value: 1.01e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1064244180 354 KPMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRD--SSLALGAGwrlgfLGLLHMEVFNQRLEQEYNASVILTTP 430
Cdd:cd16262 2 EPVISLAIEPKTKADEDKLSKALARLAEEDPTLRVSRDeeTGQTILSG-----MGELHLEIIVERLKREYGVEVEVGKP 75
|
|
| Der |
COG1160 |
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis]; |
80-246 |
1.24e-03 |
|
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
Pssm-ID: 440774 [Multi-domain] Cd Length: 438 Bit Score: 41.55 E-value: 1.24e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLlelTGT---IdktknnkqvldklqVERERGIT--VKAQTASLfyncEGKQYLLnlIDTPGHVD-----FSY 149
Cdd:COG1160 14 GKSTLFNRL---TGRrdaI--------------VDDTPGVTrdRIYGEAEW----GGREFTL--IDTGGIEPddddgLEA 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 150 EVSR-SLSACQG---VLLVVDANEGIQA--QTVANffLAFEAQLSVIPVINKIDLKNADPErvenqiekVFDIPS---DE 220
Cdd:COG1160 71 EIREqAELAIEEadvILFVVDGRAGLTPldEEIAK--LLRRSGKPVILVVNKVDGPKREAD--------AAEFYSlglGE 140
|
170 180
....*....|....*....|....*.
gi 1064244180 221 CIKISAKLGTNVESVLQAIIERIPPP 246
Cdd:COG1160 141 PIPISAEHGRGVGDLLDAVLELLPEE 166
|
|
| NOG |
cd01897 |
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ... |
189-242 |
1.40e-03 |
|
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Pssm-ID: 206684 [Multi-domain] Cd Length: 167 Bit Score: 39.85 E-value: 1.40e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 189 VIPVINKIDLKNADPervENQIEKVFDIPSDECIKISAKLGTNVESVLQAIIER 242
Cdd:cd01897 115 VIVVLNKIDLLTEED---LSEIEKELEKEGEEVIKISTLTEEGVDELKNKACEL 165
|
|
| Arf_Arl |
cd00878 |
ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases; Arf (ADP-ribosylation factor)/Arl ... |
158-242 |
2.99e-03 |
|
ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases; Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions.
Pssm-ID: 206644 [Multi-domain] Cd Length: 158 Bit Score: 38.71 E-value: 2.99e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 158 CQGVLLVVDANEGIQAQTVANFFLAF--EAQLSVIPVI---NKIDLKNADPERvenQIEKVFDIPSD-----ECIKISAK 227
Cdd:cd00878 67 TDGLIFVVDSSDRERIEEAKNELHKLlnEEELKGAPLLilaNKQDLPGALTES---ELIELLGLESIkgrrwHIQPCSAV 143
|
90
....*....|....*
gi 1064244180 228 LGTNVESVLQAIIER 242
Cdd:cd00878 144 TGDGLDEGLDWLIEQ 158
|
|
| obgE |
PRK12299 |
GTPase CgtA; Reviewed |
192-243 |
3.18e-03 |
|
GTPase CgtA; Reviewed
Pssm-ID: 237048 [Multi-domain] Cd Length: 335 Bit Score: 40.05 E-value: 3.18e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 1064244180 192 VINKIDLKNADPERvENQIEKVFDIPSDECIKISAKLGTNVESVLQAIIERI 243
Cdd:PRK12299 277 VLNKIDLLDEEEER-EKRAALELAALGGPVFLISAVTGEGLDELLRALWELL 327
|
|
| EFG_III |
pfam14492 |
Elongation Factor G, domain III; This domain is found in Elongation Factor G. It shares a ... |
354-427 |
4.96e-03 |
|
Elongation Factor G, domain III; This domain is found in Elongation Factor G. It shares a similar structure with domain V (pfam00679). Structural studies in drosophila indicate this is domain 3.
Pssm-ID: 464188 [Multi-domain] Cd Length: 75 Bit Score: 36.30 E-value: 4.96e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1064244180 354 KPMVFAGMYPLDQSEYNNLKSAIEKLTLNDSSVTVHRDSslalGAG-WRLGFLGLLHMEVFNQRLEQEYNASVIL 427
Cdd:pfam14492 3 EPVISVAIEPKTKGDEDKLSKALNRLLEEDPTLRVERDE----ETGeTILSGMGELHLEIVVDRLKRKYGVEVEL 73
|
|
| EFG_C |
smart00838 |
Elongation factor G C-terminus; This domain includes the carboxyl terminal regions of ... |
470-547 |
5.94e-03 |
|
Elongation factor G C-terminus; This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Pssm-ID: 197906 [Multi-domain] Cd Length: 85 Bit Score: 36.33 E-value: 5.94e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 470 LEPVVLGTIITPDEYTGKIMMLCEARRAVQKNMifiDQNRVM--LKYLFPLNEIvVDFYDSLKSLSSGYASFDYEDAGYQ 547
Cdd:smart00838 2 LEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGM---EQRGGAqvIKAKVPLSEM-FGYATDLRSATQGRATWSMEFSHYE 77
|
|
| EngA1 |
cd01894 |
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ... |
80-243 |
6.05e-03 |
|
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Pssm-ID: 206681 [Multi-domain] Cd Length: 157 Bit Score: 37.80 E-value: 6.05e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLleltgtidkTKNNKQVldklqVERERGIT--VKAQTASLfyncEGKQYLLnlIDTPGHVDFS--------Y 149
Cdd:cd01894 9 GKSTLFNRL---------TGRRDAI-----VSDTPGVTrdRKYGEAEW----GGREFIL--IDTGGIEPDDegiskeirE 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 150 EVSRSLSACQGVLLVVDANEGIQA--QTVANFflAFEAQLSVIPVINKIDLKNADPERVENQ---IEKVfdipsdecIKI 224
Cdd:cd01894 69 QAEIAIEEADVILFVVDGREGLTPadEEIAKY--LRKSKKPVILVVNKIDNIKEEEEAAEFYslgFGEP--------IPI 138
|
170
....*....|....*....
gi 1064244180 225 SAKLGTNVESVLQAIIERI 243
Cdd:cd01894 139 SAEHGRGIGDLLDAILELL 157
|
|
| RF3_III |
cd16259 |
Domain III of bacterial Release Factor 3 (RF3); The class II RF3 is a member of one of two ... |
355-428 |
6.62e-03 |
|
Domain III of bacterial Release Factor 3 (RF3); The class II RF3 is a member of one of two release factor (RF) classes required for the termination of protein synthesis by the ribosome. RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the ribosome after release of the nascent polypeptide. RF3 in the GDP state binds to the ribosomal class I RF complex, followed by an exchange of GDP for GTP and release of the class I RF. Sequence comparison of class II release factors with elongation factors shows that prokaryotic RF3 is more similar to EF-G whereas eukaryotic eRF3 is more similar to eEF1A, implying that their precise function may differ.
Pssm-ID: 293916 [Multi-domain] Cd Length: 70 Bit Score: 35.69 E-value: 6.62e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1064244180 355 PMVFAGMYPLDQSEYNNLKSAIEKLTlNDSSVTVHRDSSlalGAGWRLGFLGLLHMEVFNQRLEQEYNASVILT 428
Cdd:cd16259 1 PEHFRRVRLKDPMKAKQLRKGLEQLA-EEGAVQVFRPMD---GSDPIVGAVGPLQFEVLQARLENEYGVEVVFE 70
|
|
| PRK00093 |
PRK00093 |
GTP-binding protein Der; Reviewed |
80-247 |
7.61e-03 |
|
GTP-binding protein Der; Reviewed
Pssm-ID: 234628 [Multi-domain] Cd Length: 435 Bit Score: 39.26 E-value: 7.61e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 80 GKSTLADRLlelTGTidktknnKQVLdklqVERERGIT--VKAQTASLfyncEGKQYLLnlIDTPGHV----DFSYEVSR 153
Cdd:PRK00093 13 GKSTLFNRL---TGK-------RDAI----VADTPGVTrdRIYGEAEW----LGREFIL--IDTGGIEpdddGFEKQIRE 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1064244180 154 -SLSA---CQGVLLVVDANEGIQAQ--TVANFFlaFEAQLSVIPVINKIDLKNADPERVEnqiekvFDipS---DECIKI 224
Cdd:PRK00093 73 qAELAieeADVILFVVDGRAGLTPAdeEIAKIL--RKSNKPVILVVNKVDGPDEEADAYE------FY--SlglGEPYPI 142
|
170 180
....*....|....*....|...
gi 1064244180 225 SAKLGTNVESVLQAIIERIPPPK 247
Cdd:PRK00093 143 SAEHGRGIGDLLDAILEELPEEE 165
|
|
| |
