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Conserved domains on  [gi|17505318|ref|NP_491553|]
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Myb-like domain-containing protein [Caenorhabditis elegans]

Protein Classification

transcription factor TFIIIB component B'' homolog( domain architecture ID 11975693)

transcription factor TFIIIB component B'' homolog (Bdp1), a component of the TFIIIB complex that is required for RNA polymerase III transcription

CATH:  1.20.58.1880
Gene Ontology:  GO:0006383|GO:0000995|GO:0000126
PubMed:  11419933|11433012|28743884|8882580
SCOP:  4000317

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Myb_DNA-bind_7 pfam15963
Myb DNA-binding like;
251-337 1.08e-29

Myb DNA-binding like;


:

Pssm-ID: 464956 [Multi-domain]  Cd Length: 85  Bit Score: 112.63  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   251 SFRKRGfgKSSFWSEKETDLFYEVLQCTGQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNAISHPVRLDGNLEVRI 330
Cdd:pfam15963   1 SFRKRK--KTKRWSKEETELFYKALSMFGTDFSLIAQLFPGRTRRQIKLKFKREERKNPELVDKALKNRKPFDLEEFKRL 78


                  ....*..
gi 17505318   331 SKLMTEM 337
Cdd:pfam15963  79 LEKEKEE 85
BDP1 super family cl28711
Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];
43-375 1.47e-12

Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];


The actual alignment was detected with superfamily member COG5118:

Pssm-ID: 227448 [Multi-domain]  Cd Length: 507  Bit Score: 70.90  E-value: 1.47e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  43 ILENVetMTNQVSLTVASESMKSLHVDTSKNHHVHftdDVIDNEQNRIQETPDIVMISPTSQQNAQFASPNPPARLtprS 122
Cdd:COG5118 172 SPPTA--MTDSLDRNFSSETSTSREADENENYVIS---KVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIQI---S 243

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 123 RNVSmcedEAILQPKQPRDKKRFSG--REELDTKTWKMSDLTRWNPKNEMTRFKRERRsstsssVITKSEIGDLDAPPAP 200
Cdd:COG5118 244 ENFE----KSKMAKKAKLEKRRHVKflEGSNTHEMDQLLKHFLDNSNFRQDRRSRKKK------ASASRDISDQNAEEIL 313

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 201 RInapqvkigADGRLVIDETSLVV--HSAQINHESVWETVEEGRMGAKITSMSFRKRGfgKSSFWSEKETDLFYEVLQCT 278
Cdd:COG5118 314 MI--------KNGHIVVDEANMYVdrHKNASIEVEEMEVVEENPFARIVTSSTFGKKK--GALRWSKKEIEKFYKALSIW 383

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 279 GQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNA--ISHPVRLDGNLEVRISKLMTEMEEEAQEKKAKGEYEKAEEK 356
Cdd:COG5118 384 GTDFSLISSLFPNRERKQIKAKFIKEEKVNPERINEAlnEKKPFDQVEYNKLRSYLLEKLIELQNEHKHHMKEIEEAKNT 463

                       330
                ....*....|....*....
gi 17505318 357 RIREQNRLQKATERNQAKE 375
Cdd:COG5118 464 AKEEDQTAQRLNDANLNKK 482
PTZ00121 super family cl31754
MAEBL; Provisional
 339-504 1.78e-08

MAEBL; Provisional


The actual alignment was detected with superfamily member PTZ00121:

Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 58.23  E-value: 1.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   339 EEAQEKKAKGEYEKAEEKRIREQNRlQKATERNQAKELVKQAKELERDARNA---AKLNMKADKEARAQEKSETRQLEKT 415
Cdd:PTZ00121 1284 KKAEEKKKADEAKKAEEKKKADEAK-KKAEEAKKADEAKKKAEEAKKKADAAkkkAEEAKKAAEAAKAEAEAAADEAEAA 1362

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   416 ALKE--ARLMATEAKRIAMEARaiikesRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAA 493
Cdd:PTZ00121 1363 EEKAeaAEKKKEEAKKKADAAK------KKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

                         170
                  ....*....|.
gi 17505318   494 PKSTEEATTSE 504
Cdd:PTZ00121 1437 KKKAEEAKKAD 1447
 
Name Accession Description Interval E-value
Myb_DNA-bind_7 pfam15963
Myb DNA-binding like;
251-337 1.08e-29

Myb DNA-binding like;


Pssm-ID: 464956 [Multi-domain]  Cd Length: 85  Bit Score: 112.63  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   251 SFRKRGfgKSSFWSEKETDLFYEVLQCTGQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNAISHPVRLDGNLEVRI 330
Cdd:pfam15963   1 SFRKRK--KTKRWSKEETELFYKALSMFGTDFSLIAQLFPGRTRRQIKLKFKREERKNPELVDKALKNRKPFDLEEFKRL 78


                  ....*..
gi 17505318   331 SKLMTEM 337
Cdd:pfam15963  79 LEKEKEE 85
BDP1 COG5118
Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];
43-375 1.47e-12

Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];


Pssm-ID: 227448 [Multi-domain]  Cd Length: 507  Bit Score: 70.90  E-value: 1.47e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  43 ILENVetMTNQVSLTVASESMKSLHVDTSKNHHVHftdDVIDNEQNRIQETPDIVMISPTSQQNAQFASPNPPARLtprS 122
Cdd:COG5118 172 SPPTA--MTDSLDRNFSSETSTSREADENENYVIS---KVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIQI---S 243

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 123 RNVSmcedEAILQPKQPRDKKRFSG--REELDTKTWKMSDLTRWNPKNEMTRFKRERRsstsssVITKSEIGDLDAPPAP 200
Cdd:COG5118 244 ENFE----KSKMAKKAKLEKRRHVKflEGSNTHEMDQLLKHFLDNSNFRQDRRSRKKK------ASASRDISDQNAEEIL 313

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 201 RInapqvkigADGRLVIDETSLVV--HSAQINHESVWETVEEGRMGAKITSMSFRKRGfgKSSFWSEKETDLFYEVLQCT 278
Cdd:COG5118 314 MI--------KNGHIVVDEANMYVdrHKNASIEVEEMEVVEENPFARIVTSSTFGKKK--GALRWSKKEIEKFYKALSIW 383

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 279 GQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNA--ISHPVRLDGNLEVRISKLMTEMEEEAQEKKAKGEYEKAEEK 356
Cdd:COG5118 384 GTDFSLISSLFPNRERKQIKAKFIKEEKVNPERINEAlnEKKPFDQVEYNKLRSYLLEKLIELQNEHKHHMKEIEEAKNT 463

                       330
                ....*....|....*....
gi 17505318 357 RIREQNRLQKATERNQAKE 375
Cdd:COG5118 464 AKEEDQTAQRLNDANLNKK 482
PTZ00121 PTZ00121
MAEBL; Provisional
 339-504 1.78e-08

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 58.23  E-value: 1.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   339 EEAQEKKAKGEYEKAEEKRIREQNRlQKATERNQAKELVKQAKELERDARNA---AKLNMKADKEARAQEKSETRQLEKT 415
Cdd:PTZ00121 1284 KKAEEKKKADEAKKAEEKKKADEAK-KKAEEAKKADEAKKKAEEAKKKADAAkkkAEEAKKAAEAAKAEAEAAADEAEAA 1362

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   416 ALKE--ARLMATEAKRIAMEARaiikesRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAA 493
Cdd:PTZ00121 1363 EEKAeaAEKKKEEAKKKADAAK------KKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

                         170
                  ....*....|.
gi 17505318   494 PKSTEEATTSE 504
Cdd:PTZ00121 1437 KKKAEEAKKAD 1447
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 326-483 9.73e-07

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 52.63  E-value: 9.73e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 326 LEVRISKLMTEMEEE-AQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMKADKEARAQ 404
Cdd:COG1196 272 LRLELEELELELEEAqAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEE 351

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 405 EKSETRQLEKTAlkEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQ-ESQREDRRTA 483
Cdd:COG1196 352 ELEEAEAELAEA--EEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERlEEELEELEEA 429
tolA_full TIGR02794
TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the ...
 339-450 2.58e-05

TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274303 [Multi-domain]  Cd Length: 346  Bit Score: 47.15  E-value: 2.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   339 EEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQA----KELERDARNAAKLNMKADKEARAQEKSET----- 409
Cdd:TIGR02794  66 EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAeqaaKQAEEKQKQAEEAKAKQAAEAKAKAEAEAerkak 145

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 17505318   410 ----RQLEKTALKEArlmATEAKRIAMEARAIIKESRKLEKSKKA 450
Cdd:TIGR02794 146 eeaaKQAEEEAKAKA---AAEAKKKAEEAKKKAEAEAKAKAEAEA 187
GBP_C cd16269
Guanylate-binding protein, C-terminal domain; Guanylate-binding protein (GBP), C-terminal ...
 332-430 5.61e-05

Guanylate-binding protein, C-terminal domain; Guanylate-binding protein (GBP), C-terminal domain. Guanylate-binding proteins (GBPs) are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence, and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. This C-terminal domain has been shown to mediate inhibition of endothelial cell proliferation by inflammatory cytokines.


Pssm-ID: 293879 [Multi-domain]  Cd Length: 291  Bit Score: 45.65  E-value: 5.61e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 332 KLMTEMEEEAQEKKAKGEYEKAEEKRIREQNRLQ----KATERNQAKELVKQAKELERDARNAAKLNMKAdKEARAQEks 407
Cdd:cd16269 191 QALTEKEKEIEAERAKAEAAEQERKLLEEQQRELeqklEDQERSYEEHLRQLKEKMEEERENLLKEQERA-LESKLKE-- 267

                        90       100
                ....*....|....*....|...
gi 17505318 408 ETRQLEKTALKEARLMATEAKRI 430
Cdd:cd16269 268 QEALLEEGFKEQAELLQEEIRSL 290
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 316-500 8.56e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 43.04  E-value: 8.56e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318    316 ISHPVRLDGNLEVRISKLM-----TEMEEEAQEKKAKGEYEKAEEKRIREQNRLQK-----ATERNQAKELVKQAKELER 385
Cdd:pfam02463  132 PEAYNFLVQGGKIEIIAMMkperrLEIEEEAAGSRLKRKKKEALKKLIEETENLAEliidlEELKLQELKLKEQAKKALE 211

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318    386 DARNAAKL-----NMKADKEARAQEKSETRQLEKTALKEARLMATEAKRIAmEARAIIKESRKLEKSKKADSVQ---SDS 457
Cdd:pfam02463  212 YYQLKEKLeleeeYLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQEIEK-EEEKLAQVLKENKEEEKEKKLQeeeLKL 290

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|...
gi 17505318    458 HNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAAPKSTEEA 500
Cdd:pfam02463  291 LAKEEEELKSELLKLERRKVDDEEKLKESEKEKKKAEKELKKE 333
 
Name Accession Description Interval E-value
Myb_DNA-bind_7 pfam15963
Myb DNA-binding like;
251-337 1.08e-29

Myb DNA-binding like;


Pssm-ID: 464956 [Multi-domain]  Cd Length: 85  Bit Score: 112.63  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   251 SFRKRGfgKSSFWSEKETDLFYEVLQCTGQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNAISHPVRLDGNLEVRI 330
Cdd:pfam15963   1 SFRKRK--KTKRWSKEETELFYKALSMFGTDFSLIAQLFPGRTRRQIKLKFKREERKNPELVDKALKNRKPFDLEEFKRL 78


                  ....*..
gi 17505318   331 SKLMTEM 337
Cdd:pfam15963  79 LEKEKEE 85
BDP1 COG5118
Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];
43-375 1.47e-12

Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription];


Pssm-ID: 227448 [Multi-domain]  Cd Length: 507  Bit Score: 70.90  E-value: 1.47e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  43 ILENVetMTNQVSLTVASESMKSLHVDTSKNHHVHftdDVIDNEQNRIQETPDIVMISPTSQQNAQFASPNPPARLtprS 122
Cdd:COG5118 172 SPPTA--MTDSLDRNFSSETSTSREADENENYVIS---KVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIQI---S 243

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 123 RNVSmcedEAILQPKQPRDKKRFSG--REELDTKTWKMSDLTRWNPKNEMTRFKRERRsstsssVITKSEIGDLDAPPAP 200
Cdd:COG5118 244 ENFE----KSKMAKKAKLEKRRHVKflEGSNTHEMDQLLKHFLDNSNFRQDRRSRKKK------ASASRDISDQNAEEIL 313

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 201 RInapqvkigADGRLVIDETSLVV--HSAQINHESVWETVEEGRMGAKITSMSFRKRGfgKSSFWSEKETDLFYEVLQCT 278
Cdd:COG5118 314 MI--------KNGHIVVDEANMYVdrHKNASIEVEEMEVVEENPFARIVTSSTFGKKK--GALRWSKKEIEKFYKALSIW 383

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 279 GQDFGLMSHYLPKRTRPELKAKYNREEKINWARVLNA--ISHPVRLDGNLEVRISKLMTEMEEEAQEKKAKGEYEKAEEK 356
Cdd:COG5118 384 GTDFSLISSLFPNRERKQIKAKFIKEEKVNPERINEAlnEKKPFDQVEYNKLRSYLLEKLIELQNEHKHHMKEIEEAKNT 463

                       330
                ....*....|....*....
gi 17505318 357 RIREQNRLQKATERNQAKE 375
Cdd:COG5118 464 AKEEDQTAQRLNDANLNKK 482
PTZ00121 PTZ00121
MAEBL; Provisional
 339-504 1.78e-08

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 58.23  E-value: 1.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   339 EEAQEKKAKGEYEKAEEKRIREQNRlQKATERNQAKELVKQAKELERDARNA---AKLNMKADKEARAQEKSETRQLEKT 415
Cdd:PTZ00121 1284 KKAEEKKKADEAKKAEEKKKADEAK-KKAEEAKKADEAKKKAEEAKKKADAAkkkAEEAKKAAEAAKAEAEAAADEAEAA 1362

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   416 ALKE--ARLMATEAKRIAMEARaiikesRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAA 493
Cdd:PTZ00121 1363 EEKAeaAEKKKEEAKKKADAAK------KKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

                         170
                  ....*....|.
gi 17505318   494 PKSTEEATTSE 504
Cdd:PTZ00121 1437 KKKAEEAKKAD 1447
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 326-483 9.73e-07

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 52.63  E-value: 9.73e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 326 LEVRISKLMTEMEEE-AQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMKADKEARAQ 404
Cdd:COG1196 272 LRLELEELELELEEAqAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEE 351

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 405 EKSETRQLEKTAlkEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQ-ESQREDRRTA 483
Cdd:COG1196 352 ELEEAEAELAEA--EEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERlEEELEELEEA 429
PTZ00121 PTZ00121
MAEBL; Provisional
 327-499 1.64e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 52.07  E-value: 1.64e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   327 EVRISKLMTEMEEEA-----QEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKEL----ERDARNAAKLNMKA 397
Cdd:PTZ00121 1591 EARIEEVMKLYEEEKkmkaeEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELkkaeEENKIKAAEEAKKA 1670

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   398 DKEARAQEKSETRQLEKTALKEARLMATEAKRIAMEARAIIKES-RKLEKSKKADSVQS-DSHNLEREAERIIRRL--LQ 473
Cdd:PTZ00121 1671 EEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEkKKAEELKKAEEENKiKAEEAKKEAEEDKKKAeeAK 1750

                         170       180
                  ....*....|....*....|....*.
gi 17505318   474 ESQREDRRTAHFNKNDKPAAPKSTEE 499
Cdd:PTZ00121 1751 KDEEEKKKIAHLKKEEEKKAEEIRKE 1776
PTZ00121 PTZ00121
MAEBL; Provisional
 336-598 2.06e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 51.68  E-value: 2.06e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   336 EMEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNA-AKLNMKADKEARAQEKSETRQLEK 414
Cdd:PTZ00121 1294 EAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAkAEAEAAADEAEAAEEKAEAAEKKK 1373

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   415 TalkEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAAP 494
Cdd:PTZ00121 1374 E---EAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAK 1450

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   495 KSTEEATTSEvSAPTKSPAPVVVTIDASEGELGDTSTDAADSSSASSSDDDALRKdaARREKQRMKEARRNLKPRKTVAD 574
Cdd:PTZ00121 1451 KKAEEAKKAE-EAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKK--AAEAKKKADEAKKAEEAKKADEA 1527

                         250       260
                  ....*....|....*....|....
gi 17505318   575 KKPVYVDTTDPKYAQQKVSRAVEM 598
Cdd:PTZ00121 1528 KKAEEAKKADEAKKAEEKKKADEL 1551
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 326-481 2.13e-06

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 51.48  E-value: 2.13e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 326 LEVRISKLMTEMEE-EAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELvKQAKELERDARNAAKLNMKADKEARAQ 404
Cdd:COG1196 328 LEEELEELEEELEElEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEE-ELEELAEELLEALRAAAELAAQLEELE 406

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17505318 405 EKSETRQLEKTALKEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRR 481
Cdd:COG1196 407 EAEEALLERLERLEEELEELEEALAELEEEEEEEEEALEEAAEEEAELEEEEEALLELLAELLEEAALLEAALAELL 483
PTZ00121 PTZ00121
MAEBL; Provisional
 335-597 6.03e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 50.14  E-value: 6.03e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   335 TEMEEEAQEKKAKGE--------YEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMKADKEARAQEK 406
Cdd:PTZ00121 1298 AEEKKKADEAKKKAEeakkadeaKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAK 1377

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   407 SETRQLEKTAlkEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFN 486
Cdd:PTZ00121 1378 KKADAAKKKA--EEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEE 1455

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   487 KNDKPAAPKSTEEATTSEvSAPTKSPAPVVVTIDASEGELGDTSTDAADSSSASSSDDDALRKdaaRREKQRMKEARRNL 566
Cdd:PTZ00121 1456 AKKAEEAKKKAEEAKKAD-EAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKK---AEEAKKADEAKKAE 1531

                         250       260       270
                  ....*....|....*....|....*....|.
gi 17505318   567 KPRKTVADKKPVYVDTTDPKYAQQKVSRAVE 597
Cdd:PTZ00121 1532 EAKKADEAKKAEEKKKADELKKAEELKKAEE 1562
PTZ00121 PTZ00121
MAEBL; Provisional
 305-505 6.85e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 50.14  E-value: 6.85e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   305 EKINWARVlNAISHPVRLDGNLEVRISKLMTEMEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELE 384
Cdd:PTZ00121 1053 DGNHEGKA-EAKAHVGQDEGLKPSYKDFDFDAKEDNRADEATEEAFGKAEEAKKTETGKAEEARKAEEAKKKAEDARKAE 1131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   385 --RDARNAAKLNmKADKEARAQEKSETRQLEKTALKEARLMATEAKRIAMEARAIikESRKLEKSKKADSVQSDSHNLER 462
Cdd:PTZ00121 1132 eaRKAEDARKAE-EARKAEDAKRVEIARKAEDARKAEEARKAEDAKKAEAARKAE--EVRKAEELRKAEDARKAEAARKA 1208

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 17505318   463 EAERII---RRLLQESQREDRRTAHFNKNDKPAAPKSTEEATTSEV 505
Cdd:PTZ00121 1209 EEERKAeeaRKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEI 1254
PRK00409 PRK00409
recombination and DNA strand exchange inhibitor protein; Reviewed
 325-454 6.98e-06

recombination and DNA strand exchange inhibitor protein; Reviewed


Pssm-ID: 234750 [Multi-domain]  Cd Length: 782  Bit Score: 49.83  E-value: 6.98e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  325 NLEVRISKLmtemeeEAQEKKAKGEYEKAEEKRiREQNRLQKATERnQAKELVKQAKELERDARNAAKLNMKADKEARAQ 404
Cdd:PRK00409 517 KLNELIASL------EELERELEQKAEEAEALL-KEAEKLKEELEE-KKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADE 588

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 17505318  405 EKSETRQLEKTALKEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQ 454
Cdd:PRK00409 589 IIKELRQLQKGGYASVKAHELIEARKRLNKANEKKEKKKKKQKEKQEELK 638
PTZ00121 PTZ00121
MAEBL; Provisional
 327-480 8.54e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 49.75  E-value: 8.54e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   327 EVRISKLMTEMEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKElerdARNAAKLNMKADKEAR-AQE 405
Cdd:PTZ00121 1645 EKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEE----AKKAEELKKKEAEEKKkAEE 1720

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17505318   406 KSETRQLEKTALKEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAerIIRRLLQESQREDR 480
Cdd:PTZ00121 1721 LKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEKEA--VIEEELDEEDEKRR 1793
tolA_full TIGR02794
TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the ...
 339-450 2.58e-05

TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274303 [Multi-domain]  Cd Length: 346  Bit Score: 47.15  E-value: 2.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   339 EEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQA----KELERDARNAAKLNMKADKEARAQEKSET----- 409
Cdd:TIGR02794  66 EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAeqaaKQAEEKQKQAEEAKAKQAAEAKAKAEAEAerkak 145

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 17505318   410 ----RQLEKTALKEArlmATEAKRIAMEARAIIKESRKLEKSKKA 450
Cdd:TIGR02794 146 eeaaKQAEEEAKAKA---AAEAKKKAEEAKKKAEAEAKAKAEAEA 187
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 325-483 2.74e-05

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 47.62  E-value: 2.74e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 325 NLEVRISKLMTEMEE-EAQEKKAKGEYEKAEEKRirEQNRLQKATERNQAKELVKQAKELERD-ARNAAKLNMKADKEAR 402
Cdd:COG1196 236 ELEAELEELEAELEElEAELEELEAELAELEAEL--EELRLELEELELELEEAQAEEYELLAElARLEQDIARLEERRRE 313

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 403 AQEKSETRQLEKTALkEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRT 482
Cdd:COG1196 314 LEERLEELEEELAEL-EEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEAL 392


                .
gi 17505318 483 A 483
Cdd:COG1196 393 R 393
tolA PRK09510
cell envelope integrity inner membrane protein TolA; Provisional
 339-465 2.83e-05

cell envelope integrity inner membrane protein TolA; Provisional


Pssm-ID: 236545 [Multi-domain]  Cd Length: 387  Bit Score: 47.11  E-value: 2.83e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  339 EEAQEKKAKGEYEKAEEKRIREQNRLQK-ATERNQAKELVKQAKELERDARNAAKLNMKADKEARAQEKSETRQLEKTAL 417
Cdd:PRK09510  78 EEQRKKKEQQQAEELQQKQAAEQERLKQlEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAA 157

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 17505318  418 KEARLMATEAKRIA---MEARAIIKESRKLEKSKKADSVQSDSHNLEREAE 465
Cdd:PRK09510 158 AAAKKAAAEAKKKAeaeAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAK 208
tolA PRK09510
cell envelope integrity inner membrane protein TolA; Provisional
 338-454 5.03e-05

cell envelope integrity inner membrane protein TolA; Provisional


Pssm-ID: 236545 [Multi-domain]  Cd Length: 387  Bit Score: 46.34  E-value: 5.03e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  338 EEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMKADKEARAQEKSETRQLEKTAL 417
Cdd:PRK09510 134 AEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAA 213

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 17505318  418 KEARLMATEAKRIAMEARAiiKESRKLEKSKKADSVQ 454
Cdd:PRK09510 214 EAKKKAAAEAKAAAAKAAA--EAKAAAEKAAAAKAAE 248
GBP_C cd16269
Guanylate-binding protein, C-terminal domain; Guanylate-binding protein (GBP), C-terminal ...
 332-430 5.61e-05

Guanylate-binding protein, C-terminal domain; Guanylate-binding protein (GBP), C-terminal domain. Guanylate-binding proteins (GBPs) are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence, and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. This C-terminal domain has been shown to mediate inhibition of endothelial cell proliferation by inflammatory cytokines.


Pssm-ID: 293879 [Multi-domain]  Cd Length: 291  Bit Score: 45.65  E-value: 5.61e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 332 KLMTEMEEEAQEKKAKGEYEKAEEKRIREQNRLQ----KATERNQAKELVKQAKELERDARNAAKLNMKAdKEARAQEks 407
Cdd:cd16269 191 QALTEKEKEIEAERAKAEAAEQERKLLEEQQRELeqklEDQERSYEEHLRQLKEKMEEERENLLKEQERA-LESKLKE-- 267

                        90       100
                ....*....|....*....|...
gi 17505318 408 ETRQLEKTALKEARLMATEAKRI 430
Cdd:cd16269 268 QEALLEEGFKEQAELLQEEIRSL 290
MutS2 COG1193
dsDNA-specific endonuclease/ATPase MutS2 [Replication, recombination and repair];
351-482 2.27e-04

dsDNA-specific endonuclease/ATPase MutS2 [Replication, recombination and repair];


Pssm-ID: 440806 [Multi-domain]  Cd Length: 784  Bit Score: 44.75  E-value: 2.27e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 351 EKAEEKRIREQNRLQKATErnqakELVKQAKELERDARNAAKLNMKADKEARAQEKsETRQLEKtalKEARLMAtEAKRi 430
Cdd:COG1193 503 ERARELLGEESIDVEKLIE-----ELERERRELEEEREEAERLREELEKLREELEE-KLEELEE---EKEEILE-KARE- 571

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 17505318 431 amEARAIIKESRklekskkadsvqsdshnleREAERIIRRlLQESQREDRRT 482
Cdd:COG1193 572 --EAEEILREAR-------------------KEAEELIRE-LREAQAEEEEL 601
YqiK COG2268
Uncharacterized membrane protein YqiK, contains Band7/PHB/SPFH domain [Function unknown];
336-465 5.04e-04

Uncharacterized membrane protein YqiK, contains Band7/PHB/SPFH domain [Function unknown];


Pssm-ID: 441869 [Multi-domain]  Cd Length: 439  Bit Score: 43.32  E-value: 5.04e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 336 EMEEEAQEKKAKGEYEKAEEKRIREQNRLQKAtERNQAKELVKQAKELERD------------ARNAAKLNMKADKEARA 403
Cdd:COG2268 209 ERETEIAIAQANREAEEAELEQEREIETARIA-EAEAELAKKKAEERREAEtaraeaeaayeiAEANAEREVQRQLEIAE 287

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17505318 404 QEKSETRQLEKTALKEARLMATEAKRIAMEARAIIKESRKLEKSKKADsvqsdshnLEREAE 465
Cdd:COG2268 288 REREIELQEKEAEREEAELEADVRKPAEAEKQAAEAEAEAEAEAIRAK--------GLAEAE 341
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 316-500 8.56e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 43.04  E-value: 8.56e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318    316 ISHPVRLDGNLEVRISKLM-----TEMEEEAQEKKAKGEYEKAEEKRIREQNRLQK-----ATERNQAKELVKQAKELER 385
Cdd:pfam02463  132 PEAYNFLVQGGKIEIIAMMkperrLEIEEEAAGSRLKRKKKEALKKLIEETENLAEliidlEELKLQELKLKEQAKKALE 211

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318    386 DARNAAKL-----NMKADKEARAQEKSETRQLEKTALKEARLMATEAKRIAmEARAIIKESRKLEKSKKADSVQ---SDS 457
Cdd:pfam02463  212 YYQLKEKLeleeeYLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQEIEK-EEEKLAQVLKENKEEEKEKKLQeeeLKL 290

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|...
gi 17505318    458 HNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAAPKSTEEA 500
Cdd:pfam02463  291 LAKEEEELKSELLKLERRKVDDEEKLKESEKEKKKAEKELKKE 333
PTZ00108 PTZ00108
DNA topoisomerase 2-like protein; Provisional
 337-586 1.75e-03

DNA topoisomerase 2-like protein; Provisional


Pssm-ID: 240271 [Multi-domain]  Cd Length: 1388  Bit Score: 41.96  E-value: 1.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   337 MEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMKADK---EARAQEKSETRQLE 413
Cdd:PTZ00108 1131 LEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASvvgNSKRVDSDEKRKLD 1210

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   414 KTALKEARlMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQESQREDRRTAHFNKNDKPAA 493
Cdd:PTZ00108 1211 DKPDNKKS-NSSGSDQEDDEEQKTKPKKSSVKRLKSKKNNSSKSSEDNDEFSSDDLSKEGKPKNAPKRVSAVQYSPPPPS 1289

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   494 PKST-EEATTSEVSAPTKSPAPVVVTIDASEGELGDTSTDAADSSSASSSDDdalrKDAARREKQRMKEARRNLKPRKTV 572
Cdd:PTZ00108 1290 KRPDgESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRV----KQASASQSSRLLRRPRKKKSDSSS 1365

                         250
                  ....*....|....
gi 17505318   573 ADKKPVYVDTTDPK 586
Cdd:PTZ00108 1366 EDDDDSEVDDSEDE 1379
PTZ00121 PTZ00121
MAEBL; Provisional
 327-499 2.23e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 41.67  E-value: 2.23e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   327 EVRISKLMTEMEEEAQEKKAKG-------EYEKAEEKRIREQNRLQKATERNQAKELVK------QAKELERDARNAAKL 393
Cdd:PTZ00121 1556 ELKKAEEKKKAEEAKKAEEDKNmalrkaeEAKKAEEARIEEVMKLYEEEKKMKAEEAKKaeeakiKAEELKKAEEEKKKV 1635

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   394 NMKADKEARAQEKSEtrQLEKtALKEARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQ 473
Cdd:PTZ00121 1636 EQLKKKEAEEKKKAE--ELKK-AEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEA 1712

                         170       180
                  ....*....|....*....|....*....
gi 17505318   474 ESQR---EDRRTAHFNKNDKPAAPKSTEE 499
Cdd:PTZ00121 1713 EEKKkaeELKKAEEENKIKAEEAKKEAEE 1741
PRK00409 PRK00409
recombination and DNA strand exchange inhibitor protein; Reviewed
 344-471 2.46e-03

recombination and DNA strand exchange inhibitor protein; Reviewed


Pssm-ID: 234750 [Multi-domain]  Cd Length: 782  Bit Score: 41.35  E-value: 2.46e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  344 KKAKGEYEKAEEKrireqnrLQKATERNQAKElvkqaKELERDARNAAKLNMKADK--EARAQEKSETRQLEKTALKEAR 421
Cdd:PRK00409 505 EEAKKLIGEDKEK-------LNELIASLEELE-----RELEQKAEEAEALLKEAEKlkEELEEKKEKLQEEEDKLLEEAE 572

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 17505318  422 LMATEAKRIAM-EARAIIKESRKLEKSKKADSVqsdshnlEREAERIIRRL 471
Cdd:PRK00409 573 KEAQQAIKEAKkEADEIIKELRQLQKGGYASVK-------AHELIEARKRL 616
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 323-483 2.86e-03

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 41.08  E-value: 2.86e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 323 DGNLEvRISKLMTEMEE-----EAQEKKAKgEY-EKAEEKRIREQNRLQKATERNQAKELVKQAKELERDARNAAKLNMK 396
Cdd:COG1196 185 EENLE-RLEDILGELERqleplERQAEKAE-RYrELKEELKELEAELLLLKLRELEAELEELEAELEELEAELEELEAEL 262

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318 397 ADKEARAQEKSETRQLEKTALKE--ARLMATEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERIIRRLLQE 474
Cdd:COG1196 263 AELEAELEELRLELEELELELEEaqAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEEL 342


                ....*....
gi 17505318 475 SQREDRRTA 483
Cdd:COG1196 343 EEELEEAEE 351
PTZ00121 PTZ00121
MAEBL; Provisional
 336-576 3.53e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 40.89  E-value: 3.53e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   336 EMEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAK----ELVKQAKELERDARNAAKLNMKADKEARAQEKSETRQ 411
Cdd:PTZ00121 1215 EEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEirkfEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADE 1294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   412 LEKTalkearlmatEAKRIAMEARAIIKESRKLEKS-KKADSVQSDSHNLEREAERIIRR--LLQESQREDRRTAHFNKN 488
Cdd:PTZ00121 1295 AKKA----------EEKKKADEAKKKAEEAKKADEAkKKAEEAKKKADAAKKKAEEAKKAaeAAKAEAEAAADEAEAAEE 1364

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   489 DKPAAPKSTEEATTSEVSAPTKSPAPVVVTIDASEGELGDTSTDAADSSSASSSDDDALRKDA-----ARREKQRMKEAR 563
Cdd:PTZ00121 1365 KAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAeekkkADEAKKKAEEAK 1444

                         250
                  ....*....|...
gi 17505318   564 RNLKPRKTVADKK 576
Cdd:PTZ00121 1445 KADEAKKKAEEAK 1457
tolA_full TIGR02794
TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the ...
 336-464 6.01e-03

TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274303 [Multi-domain]  Cd Length: 346  Bit Score: 39.83  E-value: 6.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   336 EMEEEAQEKKAKGEYEKA-----EEKRIREQNRLQKATERNQAKE---LVKQAKELERDARNAAKLNMKADKEARAQEKS 407
Cdd:TIGR02794  93 ELEQRAAAEKAAKQAEQAakqaeEKQKQAEEAKAKQAAEAKAKAEaeaERKAKEEAAKQAEEEAKAKAAAEAKKKAEEAK 172

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   408 ETRQLEKTALKEArlmatEAKRIAMEARA---IIKESRKLEKSKKADSVQSDSHNLEREA 464
Cdd:TIGR02794 173 KKAEAEAKAKAEA-----EAKAKAEEAKAkaeAAKAKAAAEAAAKAEAEAAAAAAAEAER 227
tolA PRK09510
cell envelope integrity inner membrane protein TolA; Provisional
 338-464 7.24e-03

cell envelope integrity inner membrane protein TolA; Provisional


Pssm-ID: 236545 [Multi-domain]  Cd Length: 387  Bit Score: 39.40  E-value: 7.24e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318  338 EEEAQEKKAKGEYEKAEE--KRIREQNRLQKATERNQAKELVKQAKElERDARNAAKLNMKADKEARAQEKSETRQ---- 411
Cdd:PRK09510 119 QAEEAAKQAALKQKQAEEaaAKAAAAAKAKAEAEAKRAAAAAKKAAA-EAKKKAEAEAAKKAAAEAKKKAEAEAAAkaaa 197

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 17505318  412 -LEKTALKEARLMA-TEAKRIAMEARAIIKESRKLEKSKKADSVQSDSHNLEREA 464
Cdd:PRK09510 198 eAKKKAEAEAKKKAaAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAKAAEKAAA 252
rne PRK10811
ribonuclease E; Reviewed
 335-525 9.35e-03

ribonuclease E; Reviewed


Pssm-ID: 236766 [Multi-domain]  Cd Length: 1068  Bit Score: 39.64  E-value: 9.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   335 TEMEEEAQEKKAKGEYEKAEEKRIREQNRLQKATERNQAKElvKQAKELERDARNAAKLNMKADKEARAQ--EKSETRQL 412
Cdd:PRK10811  582 GGEETKPQEQPAPKAEAKPERQQDRRKPRQNNRRDRNERRD--TRDNRTRREGRENREENRRNRRQAQQQtaETRESQQA 659

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17505318   413 EKTALKEARLMATEAKRiAMEARAIIKESRKLEKSKKADSVQSDSHNLEREAERII-------RRLLQESQR---EDRRT 482
Cdd:PRK10811  660 EVTEKARTQDEQQQAPR-RERQRRRNDEKRQAQQEAKALNVEEQSVQETEQEERVQqvqprrkQRQLNQKVRieqSVAEE 738

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 17505318   483 AHFNKNDKPAAPKSTEEATTSEVSAPTKSPAPVVVTIDASEGE 525
Cdd:PRK10811  739 AVAPVVEETVAAEPVVQEVPAPRTELVKVPLPVVAQTAPEQDE 781
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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