|
Name |
Accession |
Description |
Interval |
E-value |
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
13-745 |
7.19e-129 |
|
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];
Pssm-ID: 440834 [Multi-domain] Cd Length: 835 Bit Score: 406.03 E-value: 7.19e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 13 LETSNTPMSTQEIATKIQLSRSVTSLYLNKLLEKGEVQQTGKKPVYWqLTRATTPTT----------------------- 69
Cdd:COG1221 20 LEKKSEGFTAEEIAEKLGISRNNVSHELNELVKEGKLIKINGRPVLF-LDKEAFEEQfgtklkseysfvellaekennee 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 70 --DVFRQYIGSQGSAKKAIEQCKAAMLYPPLGMPLLIHGASGVGKSFLAKLIYEYLKNEQIIGLEK-FYTFNCADYANNP 146
Cdd:COG1221 99 eeDPFDNLIGANGSLKNAIEQAKAAILYPPKGLHTLILGPTGVGKSFFAELMYEYAIEIGVLPEDApFVVFNCADYANNP 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 147 ELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEGKMVHSKVRLLFATT 226
Cdd:COG1221 179 QLLMSQLFGYVKGAFTGADKDKEGLIEKADGGILFLDEVHRLPPEGQEMLFTFMDKGIYRRLGETEKTRKANVRIIFATT 258
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 227 ENPKKVLLPTFYRRISVIVSLPNFKERPIRERIAILKNLFHREAKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQLL 306
Cdd:COG1221 259 EDPESSLLKTFLRRIPMVIKLPSLEERSLEERLELIKHFFKEEAKRLNKPIKVSKEVLKALLLYDCPGNIGQLKSDIQLA 338
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 307 CAS----------------------QLRKTLPNQP-------VVIGDATQPMIAIPLDKEVL----EEDTLSSDIFATFE 353
Cdd:COG1221 339 CAKaflnyitnkkeeieitlsdlpeNVKKGLLKLKenreeldKLSEYLEEYLIISPDTEKKLiseeDEYELPYNFYEIIE 418
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 354 ALFTKEKtpaHLKTELTQFIKYcLDDEITLENDYFLQNLVTEVQTKNKLIINQPE---QTEKPMKDVAKLL--------- 421
Cdd:COG1221 419 DKYEELK---SEGLSEEEINKI-ISKDIESYFKKLIFKLDKSNISEELLLIVVDEvivNVVEIFEEAEKKLlrynssnlf 494
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 422 ------------------KILPPTFNETVLLPVQTQLKEHYPRTVSLVKNLVSPLPEEYRFLTEVLLSVLLSGEISETIP 483
Cdd:COG1221 495 ialslhllstllrikkgkKIINPQLNEIKKKYYEEFILAAEAIKIIEEELKILIPDEEEGFILLLLIELKEEKSLSENVI 574
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 484 YQALLVAHGESTATSIQAVANKLCGTYIFDAINMPLTSSVRDIVAEVKEWLSQRDTSQGVIMLVDMGSLTQLYKSLKPQI 563
Cdd:COG1221 575 VVVVIAHGGAAASSSMAVVNLLLLEVAVAAIDDPPLEVVDVLIEEKTIVVIINKGKGGLLLLLDDGGSLFGIIIIEEEGI 654
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 564 LGELLVINNLTTAYALEIGHQLMN---------EQLFYGIAKTAEKKFKTdvqyfegfSVEKNIIVSSISGLDIAKQIKQ 634
Cdd:COG1221 655 IIVTVVIVSTTTVLEAAARKKLLEldldeiivlEELLKNPLESKKIKIST--------SKKKKIIVTTIAITTGEAGGIL 726
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 635 ICQKYLYTDIKVITLKYKDLVNTLDIAN--AEENYLKETSLILTTSYLDNHTNVASVNLLDMLDEDAGTQLmepfQNLMH 712
Cdd:COG1221 727 ILILIIELLDKDLILIIIEILLIIIKEEilEKIIEEKKEVIIIVIISIIPLIIPPIILLLALKLIILIEIL----VLLEI 802
|
810 820 830
....*....|....*....|....*....|...
gi 514908017 713 PNNIDSMINEFVHFFSKEGLSEKLEFLNPDVII 745
Cdd:COG1221 803 LIDKEKIENIIKELLSLLNIIIVLLIIDILILI 835
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
76-244 |
7.69e-49 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 169.89 E-value: 7.69e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 76 IGSQGSAKKAIEQCKAAMLYPplgMPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYanNPELLSSILFG 155
Cdd:pfam00158 2 IGESPAMQEVLEQAKRVAPTD---APVLITGESGTGKELFARAIHQLSPRAD----GPFVAVNCAAI--PEELLESELFG 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 156 HTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTENPKK-VLL 234
Cdd:pfam00158 73 HEKGAFTGADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGT-KPIKVDVRIIAATNRDLEEaVAE 151
|
170
....*....|....
gi 514908017 235 PTF----YRRISVI 244
Cdd:pfam00158 152 GRFredlYYRLNVI 165
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
39-339 |
1.95e-23 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 104.34 E-value: 1.95e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 39 YLNKLLEKGEVQQTGKKPV-YWQLTRATTPT-TDVFRQYIGSQGSAKKAIEQCKaamLYPPLGMPLLIHGASGVGKSFLA 116
Cdd:PRK10365 103 YLIKPLDFDNLQATLEKALaHTHSIDAETPAvTASQFGMVGKSPAMQHLLSEIA---LVAPSEATVLIHGDSGTGKELVA 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 117 KLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKL 196
Cdd:PRK10365 180 RAIHASSARSE----KPLVTLNCA--ALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRL 253
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 197 FQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPNFKERpiRERIAILKNLF-HRE 269
Cdd:PRK10365 254 LRAIQEREVQRVGSN-QTISVDVRLIAATHRDlAAEVNAGRFrqdlYYRLNVVaIEVPSLRQR--REDIPLLAGHFlQRF 330
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 270 AKRMTKDIN-VDEEIFTALLENDEPGNVGSLSNKVQ----LLCASQL-RKTLP----NQPVVIGDAT--QPMIAIplDKE 337
Cdd:PRK10365 331 AERNRKAVKgFTPQAMDLLIHYDWPGNIRELENAVEravvLLTGEYIsERELPlaiaSTPIPLGQSQdiQPLVEV--EKE 408
|
..
gi 514908017 338 VL 339
Cdd:PRK10365 409 VI 410
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
103-301 |
2.28e-22 |
|
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, DNA interactions]
Pssm-ID: 273817 [Multi-domain] Cd Length: 534 Bit Score: 102.10 E-value: 2.28e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 103 LIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANNpeLLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFL 182
Cdd:TIGR01817 223 LLRGESGTGKELIAKAIHYLSPRAK----RPFVKVNCAALSET--LLESELFGHEKGAFTGAIAQRKGRFELADGGTLFL 296
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 183 DEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPNFKERpiR 256
Cdd:TIGR01817 297 DEIGEISPAFQAKLLRVLQEGEFERVGGN-RTLKVDVRLVAATNRDlEEAVAKGEFradlYYRINVVpIFLPPLRER--R 373
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 514908017 257 ERIAIL-KNLFHREAKRMTKDINVDEEIFTALLENDEPGNVGSLSN 301
Cdd:TIGR01817 374 EDIPLLaEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELEN 419
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
84-248 |
2.88e-18 |
|
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Pssm-ID: 99707 [Multi-domain] Cd Length: 151 Bit Score: 82.58 E-value: 2.88e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 84 KAIEQCKAAMLYPPLGmPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANnpELLSSILFGHTkgaftg 163
Cdd:cd00009 5 EAIEALREALELPPPK-NLLLYGPPGTGKTTLARAIANELFRPG----APFLYLNASDLLE--GLVVAELFGHF------ 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 164 AESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIgeegkmVHSKVRLLFATTENPKKVLLPTFYRRISV 243
Cdd:cd00009 72 LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRI------DRENVRVIGATNRPLLGDLDRALYDRLDI 145
|
....*
gi 514908017 244 IVSLP 248
Cdd:cd00009 146 RIVIP 150
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
101-241 |
1.26e-09 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 57.38 E-value: 1.26e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNS-- 178
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLkp 79
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 514908017 179 -VLFLDEVHRLSNENQEKLFQFMDTGTFRpigeEGKMVHSKVRLLFATTENP---KKVLLPTFYRRI 241
Cdd:smart00382 80 dVLILDEITSLLDAEQEALLLLLEELRLL----LLLKSEKNLTVILTTNDEKdlgPALLRRRFDRRI 142
|
|
| PRD |
pfam00874 |
PRD domain; The PRD domain (for PTS Regulation Domain), is the phosphorylatable regulatory ... |
749-838 |
1.99e-06 |
|
PRD domain; The PRD domain (for PTS Regulation Domain), is the phosphorylatable regulatory domain found in bacterial transcriptional antiterminator such as BglG, SacY and LicT, as well as in activators such as MtlR and LevR. The PRD is phosphorylated on one or two conserved histidine residues. PRD-containing proteins are involved in the regulation of catabolic operons in Gram+ and Gram- bacteria and are often characterized by a short N-terminal effector domain that binds to either RNA (CAT-RBD for antiterminators pfam03123) or DNA (for activators), and a duplicated PRD module which is phosphorylated by the sugar phosphotransferase system (PTS) in response to the availability of carbon source. The phosphorylations modify the conformation and stability of the dimeric proteins and thereby the RNA- or DNA-binding activity of the effector domain. The structure of the LicT PRD domains has been solved in both the active (pdb:1h99) and inactive state (pdb:1tlv), revealing massive structural rearrangements upon activation.
Pssm-ID: 459973 [Multi-domain] Cd Length: 90 Bit Score: 46.48 E-value: 1.99e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 749 ENVTKNIEKRFDLTL-SGKMKFNLMMHNALMVERTMLGVEDYEVpaNLEELTINQKPFFQNAKNIFYTLEQFYRIEISNW 827
Cdd:pfam00874 1 EEIIELIEKKLGITFdDDILYIRLILHLAFAIERIKEGITIENP--LLEEIKEKYPKEFEIAKKILEILEEELGIELPED 78
|
90
....*....|.
gi 514908017 828 ELYVIYEILSS 838
Cdd:pfam00874 79 EIGYIALHFLS 89
|
|
| BglG |
COG3711 |
Transcriptional antiterminator [Transcription]; |
725-839 |
1.27e-03 |
|
Transcriptional antiterminator [Transcription];
Pssm-ID: 442925 [Multi-domain] Cd Length: 618 Bit Score: 42.54 E-value: 1.27e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 725 HFFSKEGLSEKLEFLNPDVIIKQVENVTKNIEKRFDLTLSGKMKFNLMMHNALMVERTMLGVEDYEVPANLEEltINQKP 804
Cdd:COG3711 159 LLSENDLLSLLLLKLIPEEDLELIEEIIEEAEKKLGIKLSDSIYINLTDHIAIAIKRIKKGKYIKLDNPLLWE--IKKPK 236
|
90 100 110
....*....|....*....|....*....|....*
gi 514908017 805 FFQNAKNIFYTLEQFYRIEISNWELYVIYEILSSR 839
Cdd:COG3711 237 EYEIAKEILKLIEERLGISLPEDEIGYIALHLLGA 271
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
13-745 |
7.19e-129 |
|
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];
Pssm-ID: 440834 [Multi-domain] Cd Length: 835 Bit Score: 406.03 E-value: 7.19e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 13 LETSNTPMSTQEIATKIQLSRSVTSLYLNKLLEKGEVQQTGKKPVYWqLTRATTPTT----------------------- 69
Cdd:COG1221 20 LEKKSEGFTAEEIAEKLGISRNNVSHELNELVKEGKLIKINGRPVLF-LDKEAFEEQfgtklkseysfvellaekennee 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 70 --DVFRQYIGSQGSAKKAIEQCKAAMLYPPLGMPLLIHGASGVGKSFLAKLIYEYLKNEQIIGLEK-FYTFNCADYANNP 146
Cdd:COG1221 99 eeDPFDNLIGANGSLKNAIEQAKAAILYPPKGLHTLILGPTGVGKSFFAELMYEYAIEIGVLPEDApFVVFNCADYANNP 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 147 ELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEGKMVHSKVRLLFATT 226
Cdd:COG1221 179 QLLMSQLFGYVKGAFTGADKDKEGLIEKADGGILFLDEVHRLPPEGQEMLFTFMDKGIYRRLGETEKTRKANVRIIFATT 258
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 227 ENPKKVLLPTFYRRISVIVSLPNFKERPIRERIAILKNLFHREAKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQLL 306
Cdd:COG1221 259 EDPESSLLKTFLRRIPMVIKLPSLEERSLEERLELIKHFFKEEAKRLNKPIKVSKEVLKALLLYDCPGNIGQLKSDIQLA 338
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 307 CAS----------------------QLRKTLPNQP-------VVIGDATQPMIAIPLDKEVL----EEDTLSSDIFATFE 353
Cdd:COG1221 339 CAKaflnyitnkkeeieitlsdlpeNVKKGLLKLKenreeldKLSEYLEEYLIISPDTEKKLiseeDEYELPYNFYEIIE 418
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 354 ALFTKEKtpaHLKTELTQFIKYcLDDEITLENDYFLQNLVTEVQTKNKLIINQPE---QTEKPMKDVAKLL--------- 421
Cdd:COG1221 419 DKYEELK---SEGLSEEEINKI-ISKDIESYFKKLIFKLDKSNISEELLLIVVDEvivNVVEIFEEAEKKLlrynssnlf 494
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 422 ------------------KILPPTFNETVLLPVQTQLKEHYPRTVSLVKNLVSPLPEEYRFLTEVLLSVLLSGEISETIP 483
Cdd:COG1221 495 ialslhllstllrikkgkKIINPQLNEIKKKYYEEFILAAEAIKIIEEELKILIPDEEEGFILLLLIELKEEKSLSENVI 574
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 484 YQALLVAHGESTATSIQAVANKLCGTYIFDAINMPLTSSVRDIVAEVKEWLSQRDTSQGVIMLVDMGSLTQLYKSLKPQI 563
Cdd:COG1221 575 VVVVIAHGGAAASSSMAVVNLLLLEVAVAAIDDPPLEVVDVLIEEKTIVVIINKGKGGLLLLLDDGGSLFGIIIIEEEGI 654
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 564 LGELLVINNLTTAYALEIGHQLMN---------EQLFYGIAKTAEKKFKTdvqyfegfSVEKNIIVSSISGLDIAKQIKQ 634
Cdd:COG1221 655 IIVTVVIVSTTTVLEAAARKKLLEldldeiivlEELLKNPLESKKIKIST--------SKKKKIIVTTIAITTGEAGGIL 726
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 635 ICQKYLYTDIKVITLKYKDLVNTLDIAN--AEENYLKETSLILTTSYLDNHTNVASVNLLDMLDEDAGTQLmepfQNLMH 712
Cdd:COG1221 727 ILILIIELLDKDLILIIIEILLIIIKEEilEKIIEEKKEVIIIVIISIIPLIIPPIILLLALKLIILIEIL----VLLEI 802
|
810 820 830
....*....|....*....|....*....|...
gi 514908017 713 PNNIDSMINEFVHFFSKEGLSEKLEFLNPDVII 745
Cdd:COG1221 803 LIDKEKIENIIKELLSLLNIIIVLLIIDILILI 835
|
|
| LevR |
COG3933 |
Transcriptional regulatory protein LevR, contains PRD, AAA+ and EIIA domains [Transcription]; |
21-836 |
2.68e-93 |
|
Transcriptional regulatory protein LevR, contains PRD, AAA+ and EIIA domains [Transcription];
Pssm-ID: 443134 [Multi-domain] Cd Length: 916 Bit Score: 313.21 E-value: 2.68e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 21 STQEIATKIQLSRSVTSLYLNKLLEKGEVQQTGKKPVYWQLTRATTPTTDVFR-----QYIGSQGSAKKAIEQCKAAMLY 95
Cdd:COG3933 39 LLKLLALLLLLKRLSELLLELKKLKKEKKTLKKERSLLEKKKNKLNLKEEKKEkldfkALIGLSLSLLSAAAAAKAAKPP 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 96 PPLGMPLLIHGASGVGKSFLAKLIYEYLKnEQIIGLEKFYTFNCADYANNPELLSSILFGHTKGAFTGAESEKQGLLAQA 175
Cdd:COG3933 119 PPLGLLTLLLGGTGGGKSAFAGYMYAFAA-KIAELAAPFVFFNFANAAYNPNLLLLLLFGLGGGAGGGAGADGGGLGGAA 197
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 176 NNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEGKMVHSKVRLLFATTENPKKVLLPTFYRRISVIVSLPNFKERPI 255
Cdd:COG3933 198 GAGGGLLDLLDELPLEGEEQEELFFLLGKGLFRGEGGESRSRRVRIIRATTETEESLLLTTLTRRIRIIIILPRLPILER 277
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 256 RER---IAILKNLFHREAKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQLLCASQLRKTLPNQPVVIG--DATQPMI 330
Cdd:COG3933 278 RERerlLLLLFEFEEEEIRIIKILIVLLLALLLLLLYVNNLGQLGLLKLLIKAAAAAALAKAIKEATIILRllSKLLKLL 357
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 331 AIPLDKEVLEEDTLSSDIFATFEALFTKEKTPAHLKTELTQFIKYCLDDEIT--LENDYFLQNLVTEVQTKNKLIINQPE 408
Cdd:COG3933 358 LLLLLNERLLLLELKILIEPLDIFFDSSASSDESDESEEDENLYEIIEIKKKllLELGIDEEEINIIIEIDIDVHLLKFI 437
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 409 QTEKPMKDVAKLLKILPPT---FNETVLLPVQTQLKEHYPRTV-----------------------SLVKNLVSPLPEEY 462
Cdd:COG3933 438 YDDNKNFNKEELAKIVDEDiinVVEEILELAEKKLGRKFSENFiyalslhlssfierikegkeiinPNLNEIKKKYPKEF 517
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 463 RFLTEVL------------------LSVLLS--GEISETIPYQALLVAHGESTATSIQAVANKLCGTYIFDAINMPLTSS 522
Cdd:COG3933 518 KVAKEIKelieqeldieipedevgfLTLFLVslNENNESGKVGVIVLAHGYSTASSMAEVANRLLGTNIFEAIDMPLDMS 597
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 523 VRDIVAEVKEWLSQRDTSQGVIMLVDMGSLTQLYKSLKPQILGELLVINNLTTAYALEIGHQLMNEQLFYGIAKTAEKKF 602
Cdd:COG3933 598 PEDILEKLKEYVKKIDTGKGVLLLVDMGSLTTFGEIIEEETGIPVKTIDMVSTPLVLEAGRKALLGMSLEEIYESLKNFN 677
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 603 KTDVQY---FEGFSVEKNIIVSSISGLDIAKQIKQICQKYLY---TDIKVITLKYKDLVNTL-DIANAEENYlkeTSLIL 675
Cdd:COG3933 678 PYEKIIsknKPEKNKKKAIITTCFTGEGTAVKIKDLLEKSLPedeDNIEIIPLDYLELEEFKeKIDEIFKEY---EILAI 754
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 676 TTSYLDNHTNVASVNLLDMLDEDAGTQLMEPFQNLMHPNNIDSMINEFVHFFSKEGLSEKLEFLNPDVIIKQVENVTKNI 755
Cdd:COG3933 755 VGTIDPEIPDIPFISLEDLISGEGIEKLQKLLGGELDAEEIEEINNEIIKNFSLESLIESLTILNPEKIINELEDFISRL 834
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 756 EKRFDLTLSGKMKFNLMMHNALMVERTMLGVEDYEVPaNLEELTINQKPFFQNAKNIFYTLEQFYRIEISNWELYVIYEI 835
Cdd:COG3933 835 ENLLGIKLDNDVKIGLILHIACMIERLVTGEEILTYP-NKEEFIQENESEYAVIKEAFSPIEEKYNIKIPDSEIAYIYDI 913
|
.
gi 514908017 836 L 836
Cdd:COG3933 914 L 914
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
76-244 |
7.69e-49 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 169.89 E-value: 7.69e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 76 IGSQGSAKKAIEQCKAAMLYPplgMPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYanNPELLSSILFG 155
Cdd:pfam00158 2 IGESPAMQEVLEQAKRVAPTD---APVLITGESGTGKELFARAIHQLSPRAD----GPFVAVNCAAI--PEELLESELFG 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 156 HTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTENPKK-VLL 234
Cdd:pfam00158 73 HEKGAFTGADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGT-KPIKVDVRIIAATNRDLEEaVAE 151
|
170
....*....|....
gi 514908017 235 PTF----YRRISVI 244
Cdd:pfam00158 152 GRFredlYYRLNVI 165
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
80-308 |
2.28e-35 |
|
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];
Pssm-ID: 441806 [Multi-domain] Cd Length: 418 Bit Score: 139.33 E-value: 2.28e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 80 GSAKKAIEQCKAAMLYPPLGMPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKG 159
Cdd:COG2204 135 GRSPAMQEVRRLIEKVAPSDATVLITGESGTGKELVARAIHRLSPRAD----GPFVAVNCA--AIPEELLESELFGHEKG 208
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 160 AFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTENPKK-VLLPTF- 237
Cdd:COG2204 209 AFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVLQEREFERVGGN-KPIPVDVRVIAATNRDLEElVEEGRFr 287
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 514908017 238 ---YRRISVI-VSLPNFKERpiRERIAILKNLF-HREAKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQLLCA 308
Cdd:COG2204 288 edlYYRLNVFpIELPPLRER--REDIPLLARHFlARFAAELGKPVKLSPEALEALLAYDWPGNVRELENVIERAVI 361
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
72-296 |
3.27e-29 |
|
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];
Pssm-ID: 443041 [Multi-domain] Cd Length: 448 Bit Score: 121.80 E-value: 3.27e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 72 FRQYIGSQGSAKKAIEQC-KAAmlypPLGMPLLIHGASGVGKSFLAKLIYEY--LKNEqiigleKFYTFNCAdyANNPEL 148
Cdd:COG3829 137 FDDIIGKSPAMKELLELAkRVA----KSDSTVLILGESGTGKELFARAIHNAspRRDG------PFVAVNCA--AIPENL 204
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 149 LSSILFGHTKGAFTGAESE-KQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTE 227
Cdd:COG3829 205 LESELFGYEKGAFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGT-KPIPVDVRIIAATNR 283
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 228 NPKK-VLLPTF----YRRISVI-VSLPnfkerPIRER---IAILKNLF-HREAKRMTKDIN-VDEEIFTALLENDEPGNV 296
Cdd:COG3829 284 DLEEmVEEGRFredlYYRLNVIpIHIP-----PLRERkedIPLLAEHFlEKFNKKYGKNIKgISPEALELLLAYDWPGNV 358
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
62-308 |
1.46e-28 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 121.93 E-value: 1.46e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 62 TRATTPTTDVFRQYIGSQGSAKKAIEQCKAAMlypPLGMPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCAd 141
Cdd:COG3284 310 APAGAPAPAALAALAGGDPAMRRALRRARRLA---DRDIPVLILGETGTGKELFARAIHAASPRAD----GPFVAVNCA- 381
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 142 yANNPELLSSILFGHTKGAFTGAESE-KQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGeEGKMVHSKVR 220
Cdd:COG3284 382 -AIPEELIESELFGYEPGAFTGARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLG-GTKPIPVDVR 459
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 221 LLFATTEN-PKKVLLPTF----YRRISVI-VSLPnfkerPIRER---IAILKNLFHREAKRMtKDINVDEEIFTALLEND 291
Cdd:COG3284 460 LIAATHRDlRELVAAGRFredlYYRLNGLtLTLP-----PLRERedlPALIEHLLRELAAGR-GPLRLSPEALALLAAYP 533
|
250
....*....|....*..
gi 514908017 292 EPGNVGSLSNKVQLLCA 308
Cdd:COG3284 534 WPGNVRELRNVLRTALA 550
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
39-339 |
1.95e-23 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 104.34 E-value: 1.95e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 39 YLNKLLEKGEVQQTGKKPV-YWQLTRATTPT-TDVFRQYIGSQGSAKKAIEQCKaamLYPPLGMPLLIHGASGVGKSFLA 116
Cdd:PRK10365 103 YLIKPLDFDNLQATLEKALaHTHSIDAETPAvTASQFGMVGKSPAMQHLLSEIA---LVAPSEATVLIHGDSGTGKELVA 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 117 KLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKL 196
Cdd:PRK10365 180 RAIHASSARSE----KPLVTLNCA--ALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRL 253
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 197 FQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPNFKERpiRERIAILKNLF-HRE 269
Cdd:PRK10365 254 LRAIQEREVQRVGSN-QTISVDVRLIAATHRDlAAEVNAGRFrqdlYYRLNVVaIEVPSLRQR--REDIPLLAGHFlQRF 330
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 270 AKRMTKDIN-VDEEIFTALLENDEPGNVGSLSNKVQ----LLCASQL-RKTLP----NQPVVIGDAT--QPMIAIplDKE 337
Cdd:PRK10365 331 AERNRKAVKgFTPQAMDLLIHYDWPGNIRELENAVEravvLLTGEYIsERELPlaiaSTPIPLGQSQdiQPLVEV--EKE 408
|
..
gi 514908017 338 VL 339
Cdd:PRK10365 409 VI 410
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
102-304 |
7.98e-23 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 102.62 E-value: 7.98e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYeyLKNEQIIGleKFYTFNCADYannPE-LLSSILFGHTKGAFTGAESEKQGLLAQANNSVL 180
Cdd:PRK11361 169 VLISGESGTGKELIARAIH--YNSRRAKG--PFIKVNCAAL---PEsLLESELFGHEKGAFTGAQTLRQGLFERANEGTL 241
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 181 FLDEVHRLSNENQEKLFQFMDTGTFRPIGeEGKMVHSKVRLLFATTENPKKVLLPTFYR-----RISVI-VSLPNFKERP 254
Cdd:PRK11361 242 LLDEIGEMPLVLQAKLLRILQEREFERIG-GHQTIKVDIRIIAATNRDLQAMVKEGTFRedlfyRLNVIhLILPPLRDRR 320
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 514908017 255 irERIAILKNLF--HREAKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQ 304
Cdd:PRK11361 321 --EDISLLANHFlqKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIE 370
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
60-301 |
1.39e-22 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 102.58 E-value: 1.39e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 60 QLTRATTPTTDVFRQYIGSQGSAKKAIEQC-KAAMLypplGMPLLIHGASGVGKSFLAKLIYEY-LKNEQiigleKFYTF 137
Cdd:COG3283 191 QLQALQVNDDSGFDHIVASSPKMRQVIRQAkKMAML----DAPLLIQGETGTGKELLARACHLAsPRGDK-----PFLAL 261
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 138 NCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHS 217
Cdd:COG3283 262 NCA--ALPDDVAESELFGYAPGAFGNAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEE-QEVKV 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 218 KVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPnfkerPIRER---IAILKNLF--------HREAKRMTKDINvd 280
Cdd:COG3283 339 DVRVICATQKDlAELVQEGEFredlYYRLNVLtLTLP-----PLRERksdILPLAEHFvarfsqqlGRPRPRLSPDLV-- 411
|
250 260
....*....|....*....|.
gi 514908017 281 eeifTALLENDEPGNVGSLSN 301
Cdd:COG3283 412 ----DFLQSYPWPGNVRQLEN 428
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
103-301 |
2.28e-22 |
|
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, DNA interactions]
Pssm-ID: 273817 [Multi-domain] Cd Length: 534 Bit Score: 102.10 E-value: 2.28e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 103 LIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANNpeLLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFL 182
Cdd:TIGR01817 223 LLRGESGTGKELIAKAIHYLSPRAK----RPFVKVNCAALSET--LLESELFGHEKGAFTGAIAQRKGRFELADGGTLFL 296
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 183 DEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPNFKERpiR 256
Cdd:TIGR01817 297 DEIGEISPAFQAKLLRVLQEGEFERVGGN-RTLKVDVRLVAATNRDlEEAVAKGEFradlYYRINVVpIFLPPLRER--R 373
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 514908017 257 ERIAIL-KNLFHREAKRMTKDINVDEEIFTALLENDEPGNVGSLSN 301
Cdd:TIGR01817 374 EDIPLLaEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELEN 419
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
60-340 |
1.63e-21 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 98.99 E-value: 1.63e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 60 QLTRATTPTTDVFRQYIGSQGSAKKAIEQC-KAAMLypplGMPLLIHGASGVGKSFLAKLIYeyLKNEQiiGLEKFYTFN 138
Cdd:PRK10820 191 QLQNLAVNDDSAFSQIVAVSPKMRQVVEQArKLAML----DAPLLITGDTGTGKDLLAYACH--LRSPR--GKKPFLALN 262
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 139 CADYANnpELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSK 218
Cdd:PRK10820 263 CASIPD--DVVESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGED-HEVHVD 339
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 219 VRLLFATTEN-----PKKVLLPTFYRRISVI-VSLPNFKERPirERIAILKNLFhreAKRMTKDINVDEEIFTALLEN-- 290
Cdd:PRK10820 340 VRVICATQKNlvelvQKGEFREDLYYRLNVLtLNLPPLRDRP--QDIMPLTELF---VARFADEQGVPRPKLAADLNTvl 414
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|...
gi 514908017 291 ---DEPGNVGSLSNKVQLLCASQLRKTLPNQPVVIGDATqpmIAIPLDKEVLE 340
Cdd:PRK10820 415 tryGWPGNVRQLKNAIYRALTQLEGYELRPQDILLPDYD---AAVAVGEDAME 464
|
|
| PRK15429 |
PRK15429 |
formate hydrogenlyase transcriptional activator FlhA; |
102-342 |
3.87e-21 |
|
formate hydrogenlyase transcriptional activator FlhA;
Pssm-ID: 237965 [Multi-domain] Cd Length: 686 Bit Score: 98.75 E-value: 3.87e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYL-KNEQiigleKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVL 180
Cdd:PRK15429 402 VLILGETGTGKELIARAIHNLSgRNNR-----RMVKMNCA--AMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSL 474
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 181 FLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTENPKKVLL-----PTFYRRISVI-VSLPNFKERP 254
Cdd:PRK15429 475 FLDEVGDMPLELQPKLLRVLQEQEFERLGSN-KIIQTDVRLIAATNRDLKKMVAdrefrSDLYYRLNVFpIHLPPLRERP 553
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 255 irERIAIL-KNLFHREAKRMTKDIN-VDEEIFTALLENDEPGNVGSLSNKVQ----LLCASQLRKTLPNqpvvIGDATQP 328
Cdd:PRK15429 554 --EDIPLLvKAFTFKIARRMGRNIDsIPAETLRTLSNMEWPGNVRELENVIEravlLTRGNVLQLSLPD----ITLPEPE 627
|
250
....*....|....
gi 514908017 329 MIAIPLDKEVLEED 342
Cdd:PRK15429 628 TPPAATVVAQEGED 641
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
101-272 |
3.94e-21 |
|
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];
Pssm-ID: 443688 [Multi-domain] Cd Length: 534 Bit Score: 97.98 E-value: 3.94e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYEyLK--NEQIIGleKFYTFNCA----DYAnnpellSSILFGHTKGAFTGAESEKQGLLAQ 174
Cdd:COG4650 210 PILLTGPTGAGKSQLARRIYE-LKkaRHQVSG--RFVEVNCAtlrgDGA------MSALFGHVKGAFTGAVSDRAGLLRS 280
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 175 ANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISV-IVSLP 248
Cdd:COG4650 281 ADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSD-KEVSSDFQLIAGTNRDlRQEVAEGRFredlLARINLwTFRLP 359
|
170 180 190 200
....*....|....*....|....*....|....*....|
gi 514908017 249 NFKERpiRERIAilKNL----------------FHREAKR 272
Cdd:COG4650 360 GLAER--REDIE--PNLdyelarfareqgrrvrFNKEARA 395
|
|
| PEP_resp_reg |
TIGR02915 |
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ... |
60-304 |
6.35e-21 |
|
PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]
Pssm-ID: 274348 [Multi-domain] Cd Length: 445 Bit Score: 96.74 E-value: 6.35e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 60 QLTRATTPTTdvFRQYIGSQGSAKKAieqCKAAMLYPPLGMPLLIHGASGVGKSFLAKLIYEY-LKNEQiigleKFYTFN 138
Cdd:TIGR02915 128 RLQSALGGTA--LRGLITSSPGMQKI---CRTIEKIAPSDITVLLLGESGTGKEVLARALHQLsDRKDK-----RFVAIN 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 139 CADYANNpeLLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEGKmVHSK 218
Cdd:TIGR02915 198 CAAIPEN--LLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREE-IPVD 274
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 219 VRLLFATTENPKKVLLPT------FYRRISVIVSLPNFKERPirERIAILKNLF----HREAKRMTKdiNVDEEIFTALL 288
Cdd:TIGR02915 275 VRIVCATNQDLKRMIAEGtfredlFYRIAEISITIPPLRSRD--GDAVLLANAFlerfARELKRKTK--GFTDDALRALE 350
|
250
....*....|....*.
gi 514908017 289 ENDEPGNVGSLSNKVQ 304
Cdd:TIGR02915 351 AHAWPGNVRELENKVK 366
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
102-325 |
2.77e-20 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 94.52 E-value: 2.77e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLF 181
Cdd:PRK15115 160 VLINGQSGTGKEILAQAIHNASPRAS----KPFIAINCG--ALPEQLLESELFGHARGAFTGAVSNREGLFQAAEGGTLF 233
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 182 LDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPNFKERPi 255
Cdd:PRK15115 234 LDEIGDMPAPLQVKLLRVLQERKVRPLGSN-RDIDIDVRIISATHRDlPKAMARGEFredlYYRLNVVsLKIPALAERT- 311
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 514908017 256 rERIAILKNLFHREAKRMTKDI--NVDEEIFTALLENDEPGNVGSLSNKVQLLCAsqlrktLPNQPvVIGDA 325
Cdd:PRK15115 312 -EDIPLLANHLLRQAAERHKPFvrAFSTDAMKRLMTASWPGNVRQLVNVIEQCVA------LTSSP-VISDA 375
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
103-308 |
1.08e-19 |
|
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc. [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, DNA interactions, Signal transduction, Two-component systems]
Pssm-ID: 273818 [Multi-domain] Cd Length: 463 Bit Score: 92.88 E-value: 1.08e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 103 LIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLFL 182
Cdd:TIGR01818 161 LINGESGTGKELVARALHRHSPRAN----GPFIALNMA--AIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFL 234
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 183 DEVHRLSNENQEKLFQFMDTGTFRPIGeeGKM-VHSKVRLLFATTENPKKVLLPTFYR-----RISVI-VSLPNFKERpi 255
Cdd:TIGR01818 235 DEIGDMPLDAQTRLLRVLADGEFYRVG--GRTpIKVDVRIVAATHQNLEALVRQGKFRedlfhRLNVIrIHLPPLRER-- 310
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 514908017 256 RERIAIL-KNLFHREAKRMTKDIN-VDEEIFTALLENDEPGNVGSLSNKVQLLCA 308
Cdd:TIGR01818 311 REDIPRLaRHFLALAARELDVEPKlLDPEALERLKQLRWPGNVRQLENLCRWLTV 365
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
102-421 |
1.33e-19 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 92.63 E-value: 1.33e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNSVLF 181
Cdd:PRK10923 164 VLINGESGTGKELVAHALHRHSPRAK----APFIALNMA--AIPKDLIESELFGHEKGAFTGANTIRQGRFEQADGGTLF 237
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 182 LDEVHRLSNENQEKLFQFMDTGTFRPIGEEGKmVHSKVRLLFATTEN-PKKVLLPTF----YRRISVI-VSLPnfkerPI 255
Cdd:PRK10923 238 LDEIGDMPLDVQTRLLRVLADGQFYRVGGYAP-VKVDVRIIAATHQNlEQRVQEGKFredlFHRLNVIrVHLP-----PL 311
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 256 RERIAILKNLFHREAKRMTKDINVDEEIF-----TALLENDEPGNVGSLSNKVQLLCAsqlrktlpnqpvvigdatqpMI 330
Cdd:PRK10923 312 RERREDIPRLARHFLQVAARELGVEAKLLhpeteAALTRLAWPGNVRQLENTCRWLTV--------------------MA 371
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 331 AiplDKEVLEEDtLSSDIFATFEALFTKEKTPAHLKTELTQFIKYCLDDEitlendyfLQNLVTEVQT--KNKLIINQPE 408
Cdd:PRK10923 372 A---GQEVLIQD-LPGELFESTVPESTSQMQPDSWATLLAQWADRALRSG--------HQNLLSEAQPelERTLLTTALR 439
|
330
....*....|...
gi 514908017 409 QTEKPMKDVAKLL 421
Cdd:PRK10923 440 HTQGHKQEAARLL 452
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
84-248 |
2.88e-18 |
|
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Pssm-ID: 99707 [Multi-domain] Cd Length: 151 Bit Score: 82.58 E-value: 2.88e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 84 KAIEQCKAAMLYPPLGmPLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANnpELLSSILFGHTkgaftg 163
Cdd:cd00009 5 EAIEALREALELPPPK-NLLLYGPPGTGKTTLARAIANELFRPG----APFLYLNASDLLE--GLVVAELFGHF------ 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 164 AESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIgeegkmVHSKVRLLFATTENPKKVLLPTFYRRISV 243
Cdd:cd00009 72 LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRI------DRENVRVIGATNRPLLGDLDRALYDRLDI 145
|
....*
gi 514908017 244 IVSLP 248
Cdd:cd00009 146 RIVIP 150
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
97-304 |
2.94e-17 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 83.95 E-value: 2.94e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 97 PLGMPLLIHGASGVGKSFLAKLIYeYLKNE-QiiglEKFYTFNCAdyANNPELLSSILFGHTKGAFTGAESEKQGLLAQA 175
Cdd:PRK11608 27 PLDKPVLIIGERGTGKELIASRLH-YLSSRwQ----GPFISLNCA--ALNENLLDSELFGHEAGAFTGAQKRHPGRFERA 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 176 NNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGeEGKMVHSKVRLLFATTEN-PKKVLLPTF----YRRISV-IVSLPn 249
Cdd:PRK11608 100 DGGTLFLDELATAPMLVQEKLLRVIEYGELERVG-GSQPLQVNVRLVCATNADlPAMVAEGKFradlLDRLAFdVVQLP- 177
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 514908017 250 fkerPIRER---IAILKNLFhreAKRMTKDINVdeEIFTA--------LLENDEPGNVGSLSNKVQ 304
Cdd:PRK11608 178 ----PLRERqsdIMLMAEHF---AIQMCRELGL--PLFPGfteraretLLNYRWPGNIRELKNVVE 234
|
|
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
100-296 |
4.61e-16 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 82.14 E-value: 4.61e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 100 MPLLIHGASGVGKSFLAKLIYE----------YLkneqiiglekfytfNCADYannPE-LLSSILFGHTKGAFTGAESEK 168
Cdd:PRK05022 211 LNVLILGETGVGKELVARAIHAaspradkplvYL--------------NCAAL---PEsLAESELFGHVKGAFTGAISNR 273
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 169 QGLLAQANNSVLFLDEVHRLSNENQEKLFQFMDTGTFRPIGEEgKMVHSKVRLLFATTENPKK-VLLPTF----YRRISV 243
Cdd:PRK05022 274 SGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSD-RSLRVDVRVIAATNRDLREeVRAGRFradlYHRLSV 352
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 514908017 244 I-VSLPnfkerPIRER---IAILKNLFHREAK-RM-TKDINVDEEIFTALLENDEPGNV 296
Cdd:PRK05022 353 FpLSVP-----PLRERgddVLLLAGYFLEQNRaRLgLRSLRLSPAAQAALLAYDWPGNV 406
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
85-341 |
1.42e-13 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 74.37 E-value: 1.42e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 85 AIEQCKAA-MLYPPLGMPLLIHGASGVGKSFLAKLIYEYLKNEQIIGLEK----FYTFNCADYANNpeLLSSILFGHTKG 159
Cdd:PRK15424 227 QMEQVRQTiLLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKkshpFVAVNCGAIAES--LLEAELFGYEEG 304
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 160 AFTGA-ESEKQGLLAQANNSVLFLDEVHRLSNENQEKLFQFMD------TGTFRPIGEEgkmvhskVRLLFATTENPKKV 232
Cdd:PRK15424 305 AFTGSrRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEekevtrVGGHQPVPVD-------VRVISATHCDLEED 377
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 233 LL-----PTFYRRISVI-VSLPNFKERPirERIAILKNLFHREAKRMTkDINVDEEIF-------TALLENDEPGNVGSL 299
Cdd:PRK15424 378 VRqgrfrRDLFYRLSILrLQLPPLRERV--ADILPLAESFLKQSLAAL-SAPFSAALRqglqqceTLLLHYDWPGNVREL 454
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....
gi 514908017 300 SNKVQLLC------------ASQLRKTLPNQPVVIGDATQPMIAIPLDKEVLEE 341
Cdd:PRK15424 455 RNLMERLAlflsveptpdltPQFLQLLLPELARESAKTPAPRLLAATLQQALER 508
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
101-322 |
1.13e-11 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 68.55 E-value: 1.13e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYeylkNEQIIGLEKFYTFNCADYanNPELLSSILFGhtkGAFTGAESEKQGLLAQANNSVL 180
Cdd:PRK11388 350 PVLLCGEEGVGKALLAQAIH----NESERAAGPYIAVNCQLY--PDEALAEEFLG---SDRTDSENGRLSKFELAHGGTL 420
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 181 FLDEVHRLSNENQEKLFQFMDTGTFRPIgEEGKMVHSKVRLLFATTEN-PKKVLLPTFYRRISVIVSLPNFKERPIRERI 259
Cdd:PRK11388 421 FLEKVEYLSPELQSALLQVLKTGVITRL-DSRRLIPVDVRVIATTTADlAMLVEQNRFSRQLYYALHAFEITIPPLRMRR 499
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 514908017 260 AILKNLFHRE----AKRMTKDINVDEEIFTALLENDEPGNVGSLSNKVQ--LLCASQLRKTLPNQPVVI 322
Cdd:PRK11388 500 EDIPALVNNKlrslEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIEnlALSSDNGRIRLSDLPEHL 568
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
101-241 |
1.26e-09 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 57.38 E-value: 1.26e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNS-- 178
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLkp 79
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 514908017 179 -VLFLDEVHRLSNENQEKLFQFMDTGTFRpigeEGKMVHSKVRLLFATTENP---KKVLLPTFYRRI 241
Cdd:smart00382 80 dVLILDEITSLLDAEQEALLLLLEELRLL----LLLKSEKNLTVILTTNDEKdlgPALLRRRFDRRI 142
|
|
| PTS_IIA_man |
cd00006 |
PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: ... |
486-594 |
6.64e-09 |
|
PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Pssm-ID: 237978 [Multi-domain] Cd Length: 122 Bit Score: 54.53 E-value: 6.64e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 486 ALLVAHGeSTATSIQAVANKLCG-TYIFDAINMPLTSSVRDIVAEVKEWLSQRDTSQGVIMLVDM--GSLTQLYKSLKpQ 562
Cdd:cd00006 3 IIIATHG-GFASGLLNSAEMILGeQENVEAIDFPPGESPDDLLEKIKAALAELDSGEGVLILTDLfgGSPNNAAARLS-M 80
|
90 100 110
....*....|....*....|....*....|..
gi 514908017 563 ILGELLVINNLTTAYALEIghqLMNEQLFYGI 594
Cdd:cd00006 81 EHPPVEVIAGVNLPMLLEA---ARARELGLSL 109
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
101-240 |
9.72e-08 |
|
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Pssm-ID: 400191 [Multi-domain] Cd Length: 135 Bit Score: 51.52 E-value: 9.72e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYEYLKNeqiigLEKFYtfncadYANNPELLSSILFGHTKGAFTGAESEKQGLLAQANNS-V 179
Cdd:pfam07728 1 GVLLVGPPGTGKTELAERLAAALSN-----RPVFY------VQLTRDTTEEDLFGRRNIDPGGASWVDGPLVRAAREGeI 69
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 514908017 180 LFLDEVHRLSNENQEKLFQFMDTGTFRPI--GEEGKMVHSKVRLLFATTENPK--KVLLPTFYRR 240
Cdd:pfam07728 70 AVLDEINRANPDVLNSLLSLLDERRLLLPdgGELVKAAPDGFRLIATMNPLDRglNELSPALRSR 134
|
|
| RecA-like_ClpB_Hsp104-like |
cd19499 |
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ... |
84-245 |
3.39e-07 |
|
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410907 [Multi-domain] Cd Length: 178 Bit Score: 51.02 E-value: 3.39e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 84 KAIEQCKAAMLYP--PLGMpLLIHGASGVGKSFLAKLIYEYLKNEQiiglEKFYTFNCADYANnpellssilfGHTKGAF 161
Cdd:cd19499 25 DAIRRARAGLSDPnrPIGS-FLFLGPTGVGKTELAKALAELLFGDE----DNLIRIDMSEYME----------KHSVSRL 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 162 TGAES-----EKQGLLAQAN----NSVLFLDEVHRLSNENQEKLFQFMDTGTFRpiGEEGKMVHSKVRLLFATTENPKkv 232
Cdd:cd19499 90 IGAPPgyvgyTEGGQLTEAVrrkpYSVVLLDEIEKAHPDVQNLLLQVLDDGRLT--DSHGRTVDFKNTIIIMTSNHFR-- 165
|
170
....*....|...
gi 514908017 233 llPTFYRRISVIV 245
Cdd:cd19499 166 --PEFLNRIDEIV 176
|
|
| PRK13342 |
PRK13342 |
recombination factor protein RarA; Reviewed |
102-229 |
4.35e-07 |
|
recombination factor protein RarA; Reviewed
Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 53.16 E-value: 4.35e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEqiiglekFYTFNcADYANNPELlssilfghtKGAFTGAESEKQgllaQANNSVLF 181
Cdd:PRK13342 39 MILWGPPGTGKTTLARIIAGATDAP-------FEALS-AVTSGVKDL---------REVIEEARQRRS----AGRRTILF 97
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 514908017 182 LDEVHRLSNENQEKLFQFMDTGTFRPIGeegkmvhskvrllfATTENP 229
Cdd:PRK13342 98 IDEIHRFNKAQQDALLPHVEDGTITLIG--------------ATTENP 131
|
|
| PRD |
pfam00874 |
PRD domain; The PRD domain (for PTS Regulation Domain), is the phosphorylatable regulatory ... |
749-838 |
1.99e-06 |
|
PRD domain; The PRD domain (for PTS Regulation Domain), is the phosphorylatable regulatory domain found in bacterial transcriptional antiterminator such as BglG, SacY and LicT, as well as in activators such as MtlR and LevR. The PRD is phosphorylated on one or two conserved histidine residues. PRD-containing proteins are involved in the regulation of catabolic operons in Gram+ and Gram- bacteria and are often characterized by a short N-terminal effector domain that binds to either RNA (CAT-RBD for antiterminators pfam03123) or DNA (for activators), and a duplicated PRD module which is phosphorylated by the sugar phosphotransferase system (PTS) in response to the availability of carbon source. The phosphorylations modify the conformation and stability of the dimeric proteins and thereby the RNA- or DNA-binding activity of the effector domain. The structure of the LicT PRD domains has been solved in both the active (pdb:1h99) and inactive state (pdb:1tlv), revealing massive structural rearrangements upon activation.
Pssm-ID: 459973 [Multi-domain] Cd Length: 90 Bit Score: 46.48 E-value: 1.99e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 749 ENVTKNIEKRFDLTL-SGKMKFNLMMHNALMVERTMLGVEDYEVpaNLEELTINQKPFFQNAKNIFYTLEQFYRIEISNW 827
Cdd:pfam00874 1 EEIIELIEKKLGITFdDDILYIRLILHLAFAIERIKEGITIENP--LLEEIKEKYPKEFEIAKKILEILEEELGIELPED 78
|
90
....*....|.
gi 514908017 828 ELYVIYEILSS 838
Cdd:pfam00874 79 EIGYIALHFLS 89
|
|
| AAA_22 |
pfam13401 |
AAA domain; |
102-201 |
7.69e-06 |
|
AAA domain;
Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 46.18 E-value: 7.69e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEQIIglekFYTFNCADYANNPELLSSILFGHTKGAFTGAESEK------QGLLAQA 175
Cdd:pfam13401 8 LVLTGESGTGKTTLLRRLLEQLPEVRDS----VVFVDLPSGTSPKDLLRALLRALGLPLSGRLSKEEllaalqQLLLALA 83
|
90 100
....*....|....*....|....*.
gi 514908017 176 NNSVLFLDEVHRLSNENQEKLFQFMD 201
Cdd:pfam13401 84 VAVVLIIDEAQHLSLEALEELRDLLN 109
|
|
| RarA |
COG2256 |
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ... |
102-229 |
1.21e-05 |
|
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];
Pssm-ID: 441857 [Multi-domain] Cd Length: 439 Bit Score: 48.51 E-value: 1.21e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEqiiglekFYTFNcADYANNPELlssilfghtKGAFTGAESekqgLLAQANNSVLF 181
Cdd:COG2256 52 MILWGPPGTGKTTLARLIANATDAE-------FVALS-AVTSGVKDI---------REVIEEARE----RRAYGRRTILF 110
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 514908017 182 LDEVHRLSNENQEKLFQFMDTGTFRPIGeegkmvhskvrllfATTENP 229
Cdd:COG2256 111 VDEIHRFNKAQQDALLPHVEDGTITLIG--------------ATTENP 144
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
94-281 |
1.47e-05 |
|
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];
Pssm-ID: 440232 [Multi-domain] Cd Length: 397 Bit Score: 48.37 E-value: 1.47e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 94 LYPPLGMplLIHGASGVGKSFLAKLIyeylknEQIIGLeKFYTFNCADyannpeLLSSILfGHT----KGAFTGAEsekq 169
Cdd:COG0464 188 LPPPRGL--LLYGPPGTGKTLLARAL------AGELGL-PLIEVDLSD------LVSKYV-GETeknlREVFDKAR---- 247
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 170 gllaQANNSVLFLDEVHRL-SNENQEK----------LFQFMDTGTFRpigeegkmvhskvRLLFATTENPKkvLLPT-F 237
Cdd:COG0464 248 ----GLAPCVLFIDEADALaGKRGEVGdgvgrrvvntLLTEMEELRSD-------------VVVIAATNRPD--LLDPaL 308
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 514908017 238 YRRISVI--VSLPNFKerpirERIAILKNLFHReaKRMTKDINVDE 281
Cdd:COG0464 309 LRRFDEIifFPLPDAE-----ERLEIFRIHLRK--RPLDEDVDLEE 347
|
|
| PRK13341 |
PRK13341 |
AAA family ATPase; |
102-305 |
2.28e-05 |
|
AAA family ATPase;
Pssm-ID: 237354 [Multi-domain] Cd Length: 725 Bit Score: 48.13 E-value: 2.28e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEqiiglekFYTFNcADYANNPELLSSIlfghtkgaftgaESEKQGLLAQANNSVLF 181
Cdd:PRK13341 55 LILYGPPGVGKTTLARIIANHTRAH-------FSSLN-AVLAGVKDLRAEV------------DRAKERLERHGKRTILF 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 182 LDEVHRLSNENQEKLFQFMDTGTFRPIGeegkmvhskvrllfATTENPkkvllptFYRRISVIVSlpnfkerpiRERIAI 261
Cdd:PRK13341 115 IDEVHRFNKAQQDALLPWVENGTITLIG--------------ATTENP-------YFEVNKALVS---------RSRLFR 164
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 514908017 262 LKNL----FHREAKRMTKD---------INVDEEIFTALLENDEpGNVGSLSNKVQL 305
Cdd:PRK13341 165 LKSLsdedLHQLLKRALQDkergygdrkVDLEPEAEKHLVDVAN-GDARSLLNALEL 220
|
|
| AAA_14 |
pfam13173 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
99-190 |
9.41e-05 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.
Pssm-ID: 463799 [Multi-domain] Cd Length: 128 Bit Score: 42.96 E-value: 9.41e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 99 GMPLLIHGASGVGKSFLAK-LIYEYLKNEQI--IGLEKFYTFNCADYANNPELLSSILFGHTkgaftgaesekqgllaqa 175
Cdd:pfam13173 2 RKILVITGPRQVGKTTLLLqLIKELLPPENIlyINLDDPRLLKLADFELLELFLELLYPGKT------------------ 63
|
90
....*....|....*
gi 514908017 176 nnsVLFLDEVHRLSN 190
Cdd:pfam13173 64 ---YLFLDEIQRVPD 75
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
102-248 |
2.04e-04 |
|
ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Pssm-ID: 459627 [Multi-domain] Cd Length: 130 Bit Score: 41.81 E-value: 2.04e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEqiiglekFYTFNCadyannPELLSSILfghtkgaftgAESEK--QGLLAQA---N 176
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVAKELGAP-------FIEISG------SELVSKYV----------GESEKrlRELFEAAkklA 57
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 514908017 177 NSVLFLDEVHRLSNENQEKLFQFMDTG--TFRPIGEEGKMVHSKVrLLFATTENPKKvLLPTFYRRISVIVSLP 248
Cdd:pfam00004 58 PCVIFIDEIDALAGSRGSGGDSESRRVvnQLLTELDGFTSSNSKV-IVIAATNRPDK-LDPALLGRFDRIIEFP 129
|
|
| COG3355 |
COG3355 |
Predicted transcriptional regulator [Transcription]; |
3-50 |
2.28e-04 |
|
Predicted transcriptional regulator [Transcription];
Pssm-ID: 442583 [Multi-domain] Cd Length: 131 Bit Score: 41.87 E-value: 2.28e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 514908017 3 LETYQHLVDiletSNTPMSTQEIATKIQLSRSVTSLYLNKLLEKGEVQ 50
Cdd:COG3355 30 AEVYLILLE----NGEPLTVEELAEALDRSRSTVYRSLQKLLEAGLVE 73
|
|
| BglG |
COG3711 |
Transcriptional antiterminator [Transcription]; |
725-839 |
1.27e-03 |
|
Transcriptional antiterminator [Transcription];
Pssm-ID: 442925 [Multi-domain] Cd Length: 618 Bit Score: 42.54 E-value: 1.27e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 725 HFFSKEGLSEKLEFLNPDVIIKQVENVTKNIEKRFDLTLSGKMKFNLMMHNALMVERTMLGVEDYEVPANLEEltINQKP 804
Cdd:COG3711 159 LLSENDLLSLLLLKLIPEEDLELIEEIIEEAEKKLGIKLSDSIYINLTDHIAIAIKRIKKGKYIKLDNPLLWE--IKKPK 236
|
90 100 110
....*....|....*....|....*....|....*
gi 514908017 805 FFQNAKNIFYTLEQFYRIEISNWELYVIYEILSSR 839
Cdd:COG3711 237 EYEIAKEILKLIEERLGISLPEDEIGYIALHLLGA 271
|
|
| RNA_helicase |
pfam00910 |
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ... |
102-141 |
1.72e-03 |
|
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
Pssm-ID: 459992 Cd Length: 102 Bit Score: 38.74 E-value: 1.72e-03
10 20 30 40
....*....|....*....|....*....|....*....|
gi 514908017 102 LLIHGASGVGKSFLAKLIYEYLKNEQIIGLEKFYTFNCAD 141
Cdd:pfam00910 1 IWLYGPPGCGKSTLAKYLARALLKKLGLPKDSVYSRNPDD 40
|
|
| COG1373 |
COG1373 |
Predicted ATPase, AAA+ superfamily [General function prediction only]; |
101-190 |
5.84e-03 |
|
Predicted ATPase, AAA+ superfamily [General function prediction only];
Pssm-ID: 440984 [Multi-domain] Cd Length: 405 Bit Score: 39.93 E-value: 5.84e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514908017 101 PLLIHGASGVGKSFLAKLIYEYLKNEQIIGLEKFYTFNCAdyANNPELLSSILFGHTKGaftgaesekqgllaqanNSVL 180
Cdd:COG1373 22 AVVITGPRQVGKTTLLKQLAKELENILYINLDDPRLRALA--EEDPDDLLEALKELYPG-----------------KTYL 82
|
90
....*....|
gi 514908017 181 FLDEVHRLSN 190
Cdd:COG1373 83 FLDEIQRVPE 92
|
|
| ManX |
COG2893 |
Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and ... |
487-549 |
6.07e-03 |
|
Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism];
Pssm-ID: 442138 [Multi-domain] Cd Length: 126 Bit Score: 37.43 E-value: 6.07e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 514908017 487 LLVAHGEsTATSIQAVANKLCGTYI-FDAINMPLTSSVRDIVAEVKEWLSQRDTSQGVIMLVDM 549
Cdd:COG2893 2 VIATHGP-LAEGLLSSAEMILGEQEnVEAVDLYPGDDPEDLREKLEEAIAELDSGDGVLILTDL 64
|
|
| COG3398 |
COG3398 |
Predicted transcriptional regulator, contains two HTH domains [Transcription]; |
11-58 |
7.61e-03 |
|
Predicted transcriptional regulator, contains two HTH domains [Transcription];
Pssm-ID: 442625 [Multi-domain] Cd Length: 159 Bit Score: 37.94 E-value: 7.61e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 514908017 11 DILET--SNTPMSTQEIATKIQLSRSVTSLYLNKLLEKG--EVQQTGKKPVY 58
Cdd:COG3398 101 RILLYllENPGATNKELAEELGISRSTVSWHLKRLEEDGlvERERDGRNVRY 152
|
|
| |
