NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|238637273|ref|NP_001154882|]
View 

trafficking protein particle complex subunit 12 isoform 1 [Mus musculus]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
608-764 2.26e-12

Tetratricopeptide (TPR) repeat [General function prediction only];


:

Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 67.72  E-value: 2.26e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKLdglqgkIMVLMN 687
Cdd:COG0457    9 EAYNNLGLAYRRLGRYEEAIEDYEKALELDPD-DAEALYNLGLAYLRLGRYEEALADYEQALELDPDD------AEALNN 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYE 764
Cdd:COG0457   82 LGLALQALGRYEEALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERALELDPDDA---DALYNLGIALE 155
PHA03307 super family cl33723
transcriptional regulator ICP4; Provisional
 1-380 8.62e-03

transcriptional regulator ICP4; Provisional


The actual alignment was detected with superfamily member PHA03307:

Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 39.77  E-value: 8.62e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273    1 METAKDGEQSPSEASPSAQAGPENIPEPMSREEESQPlyheetiDLGGDEFASEENEPTSEGShnfgdklnehmmesvli 80
Cdd:PHA03307   96 APASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAP-------DLSEMLRPVGSPGPPPAAS----------------- 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273   81 SDSPNNSEGDVGDlgclqDVGEPPRGAtdhrLPSSTDKEVVDTLSNGSETDGDDTPRdiSDMTPDSRASLKEDST-QEDV 159
Cdd:PHA03307  152 PPAAGASPAAVAS-----DAASSRQAA----LPLSSPEETARAPSSPPAEPPPSTPP--AAASPRPPRRSSPISAsASSP 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  160 TSMPALENAATEEVGPKDSLAPREEQTSEVSSNQSsskdePLPVCTIFSQAT--ATPSQPHlflqdgfesqmvkSPSFSS 237
Cdd:PHA03307  221 APAPGRSAADDAGASSSDSSSSESSGCGWGPENEC-----PLPRPAPITLPTriWEASGWN-------------GPSSRP 282

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  238 TSETSAkTPPPMVQPSPSLSTFFGDTMSSNSLASDFFDSFTTStfiSVSNPNAGSPVPEKLSSLTAPVGEKSPDSTSPSY 317
Cdd:PHA03307  283 GPASSS-SSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRES---SSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPP 358

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 238637273  318 STRMDRSesgvSRAPldvpeSPKPFSQIQAVFAGSDDPFATALSMSEMDRRNDAWLPSQATRE 380
Cdd:PHA03307  359 PADPSSP----RKRP-----RPSRAPSSPAASAGRPTRRRARAAVAGRARRRDATGRFPAGRP 412
 
Name Accession Description Interval E-value
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
608-764 2.26e-12

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 67.72  E-value: 2.26e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKLdglqgkIMVLMN 687
Cdd:COG0457    9 EAYNNLGLAYRRLGRYEEAIEDYEKALELDPD-DAEALYNLGLAYLRLGRYEEALADYEQALELDPDD------AEALNN 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYE 764
Cdd:COG0457   82 LGLALQALGRYEEALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERALELDPDDA---DALYNLGIALE 155
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 600-670 4.47e-06

tol-pal system protein YbgF; Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.


Pssm-ID: 188247 [Multi-domain]  Cd Length: 117  Bit Score: 46.50  E-value: 4.47e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 238637273  600 QLWrsrLGRVLYSManclllmKDYVLAVDAYLTVIKYYPEQE--PQLLSGIGRILLQIGDIKTAEKYFQDVEK 670
Cdd:TIGR02795  40 HYW---LGEAYYAQ-------GDYADAAKAFLAVVKKYPKSPkaPDALLKLGMSLQELGDKEKAKATLQQVIK 102
TPR_12 pfam13424
Tetratricopeptide repeat;
644-711 1.24e-04

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 41.22  E-value: 1.24e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  644 LLSGIGRILLQIGDIKTAEKYFQDVEKVTQKLDGLQ--GKIMVLMNRAFLYLGQNNFAEAHKFFTEILRM 711
Cdd:pfam13424   5 ALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDhpLTATTLLNLGRLYLELGRYEEALELLERALAL 74
TPR smart00028
Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum ...
 608-639 5.70e-03

Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.


Pssm-ID: 197478 [Multi-domain]  Cd Length: 34  Bit Score: 35.11  E-value: 5.70e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 238637273   608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPE 639
Cdd:smart00028   2 EALYNLGNAYLKLGDYDEALEYYEKALELDPN 33
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 1-380 8.62e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 39.77  E-value: 8.62e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273    1 METAKDGEQSPSEASPSAQAGPENIPEPMSREEESQPlyheetiDLGGDEFASEENEPTSEGShnfgdklnehmmesvli 80
Cdd:PHA03307   96 APASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAP-------DLSEMLRPVGSPGPPPAAS----------------- 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273   81 SDSPNNSEGDVGDlgclqDVGEPPRGAtdhrLPSSTDKEVVDTLSNGSETDGDDTPRdiSDMTPDSRASLKEDST-QEDV 159
Cdd:PHA03307  152 PPAAGASPAAVAS-----DAASSRQAA----LPLSSPEETARAPSSPPAEPPPSTPP--AAASPRPPRRSSPISAsASSP 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  160 TSMPALENAATEEVGPKDSLAPREEQTSEVSSNQSsskdePLPVCTIFSQAT--ATPSQPHlflqdgfesqmvkSPSFSS 237
Cdd:PHA03307  221 APAPGRSAADDAGASSSDSSSSESSGCGWGPENEC-----PLPRPAPITLPTriWEASGWN-------------GPSSRP 282

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  238 TSETSAkTPPPMVQPSPSLSTFFGDTMSSNSLASDFFDSFTTStfiSVSNPNAGSPVPEKLSSLTAPVGEKSPDSTSPSY 317
Cdd:PHA03307  283 GPASSS-SSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRES---SSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPP 358

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 238637273  318 STRMDRSesgvSRAPldvpeSPKPFSQIQAVFAGSDDPFATALSMSEMDRRNDAWLPSQATRE 380
Cdd:PHA03307  359 PADPSSP----RKRP-----RPSRAPSSPAASAGRPTRRRARAAVAGRARRRDATGRFPAGRP 412
 
Name Accession Description Interval E-value
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
608-764 2.26e-12

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 67.72  E-value: 2.26e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKLdglqgkIMVLMN 687
Cdd:COG0457    9 EAYNNLGLAYRRLGRYEEAIEDYEKALELDPD-DAEALYNLGLAYLRLGRYEEALADYEQALELDPDD------AEALNN 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYE 764
Cdd:COG0457   82 LGLALQALGRYEEALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERALELDPDDA---DALYNLGIALE 155
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 604-749 3.29e-12

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 64.44  E-value: 3.29e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 604 SRLGRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVekvtqkLDGLQGKIM 683
Cdd:COG4783    1 AACAEALYALAQALLLAGDYDEAEALLEKALELDPDN-PEAFALLGEILLQLGDLDEAIVLLHEA------LELDPDEPE 73

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 238637273 684 VLMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRH 749
Cdd:COG4783   74 ARLNLGLALLKAGDYDEALALLEKALKLDPEHPEAYLRLARAYRALGRPDEAIAALEKALELDPDD 139
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 608-788 5.35e-11

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 63.98  E-value: 5.35e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKldglqgKIMVLMN 687
Cdd:COG2956   77 EALLELAQDYLKAGLLDRAEELLEKLLELDPDD-AEALRLLAEIYEQEGDWEKAIEVLERLLKLGPE------NAHAYCE 149

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYElES 767
Cdd:COG2956  150 LAELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDPDYL---PALPRLAELYE-KL 225

                        170       180
                 ....*....|....*....|.
gi 238637273 768 SRSMQKKQSLLEAVASKEGDS 788
Cdd:COG2956  226 GDPEEALELLRKALELDPSDD 246
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
608-740 1.03e-10

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 62.72  E-value: 1.03e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQdvekvtQKLDGLQGKIMVLMN 687
Cdd:COG0457   43 EALYNLGLAYLRLGRYEEALADYEQALELDPDD-AEALNNLGLALQALGRYEEALEDYD------KALELDPDDAEALYN 115

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLE 740
Cdd:COG0457  116 LGLALLELGRYDEAIEAYERALELDPDDADALYNLGIALEKLGRYEEALELLE 168
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 607-713 3.80e-09

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 55.40  E-value: 3.80e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 607 GRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILLQIGDIKTAEKYFQDVekvtQKLDGLQgkIMVLM 686
Cdd:COG4235   17 AEGWLLLGRAYLRLGRYDEALAAYEKALRLDPD-NADALLDLAEALLAAGDTEEAEELLERA----LALDPDN--PEALY 89

                         90       100
                 ....*....|....*....|....*..
gi 238637273 687 NRAFLYLGQNNFAEAHKFFTEILRMDP 713
Cdd:COG4235   90 LLGLAAFQQGDYAEAIAAWQKLLALLP 116
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 611-753 7.79e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 57.43  E-value: 7.79e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 611 YSMANCLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKldglqgKIMVLMNRAF 690
Cdd:COG2956   12 YFKGLNYLLNGQPDKAIDLLEEALELDPET-VEAHLALGNLYRRRGEYDRAIRIHQKLLERDPD------RAEALLELAQ 84

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 238637273 691 LYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPR--HYLHE 753
Cdd:COG2956   85 DYLKAGLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPEnaHAYCE 149
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 574-785 1.25e-07

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 55.38  E-value: 1.25e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 574 LANLEQGLAEDGGLSSVTQESRQASVQLWRSRLGRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILL 653
Cdd:COG3914   45 LLLLAALAEAAAAALLALAAGEAAAAAAALLLLAALLELAALLLQALGRYEEALALYRRALALNPD-NAEALFNLGNLLL 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 654 QIGDIKTAEKYFQDVEKVTQKLdglqgkIMVLMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLK 733
Cdd:COG3914  124 ALGRLEEALAALRRALALNPDF------AEAYLNLGEALRRLGRLEEAIAALRRALELDPDNAEALNNLGNALQDLGRLE 197

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 238637273 734 DSLRQLEAMVQQDPRH-YLHESVLFnltTMYELESSRSMQKKQSLLEAVASKE 785
Cdd:COG3914  198 EAIAAYRRALELDPDNaDAHSNLLF---ALRQACDWEVYDRFEELLAALARGP 247
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
651-750 3.85e-07

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 48.63  E-value: 3.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 651 ILLQIGDIKTAEKYFQDVekvtQKLDGlqGKIMVLMNRAFLYLGQNNFAEAHKFfTEILRMDPTNAVANNNAAVCLLYLG 730
Cdd:COG3063    1 LYLKLGDLEEAEEYYEKA----LELDP--DNADALNNLGLLLLEQGRYDEAIAL-EKALKLDPNNAEALLNLAELLLELG 73

                         90       100
                 ....*....|....*....|
gi 238637273 731 KLKDSLRQLEAMVQQDPRHY 750
Cdd:COG3063   74 DYDEALAYLERALELDPSAL 93
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 604-670 4.17e-07

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 49.22  E-value: 4.17e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 238637273 604 SRLGRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQE--PQLLSGIGRILLQIGDIKTAEKYFQDVEK 670
Cdd:COG1729   27 PLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPkaPDALLKLGLSYLELGDYDKARATLEELIK 95
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 608-746 5.69e-07

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 52.04  E-value: 5.69e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQEPQLLSgIGRILLQIGDIKTAEKYFQDVEKvtQKLDGLQgkimVLMN 687
Cdd:COG2956  145 HAYCELAELYLEQGDYDEAIEALEKALKLDPDCARALLL-LAELYLEQGDYEEAIAALERALE--QDPDYLP----ALPR 217

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 238637273 688 RAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVcLLYLGKLKDSLRQLEAMVQQD 746
Cdd:COG2956  218 LAELYEKLGDPEEALELLRKALELDPSDDLLLALADL-LERKEGLEAALALLERQLRRH 275
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
616-713 5.74e-07

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 48.24  E-value: 5.74e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 616 CLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQdvekvTQKLDglQGKIMVLMNRAFLYLGQ 695
Cdd:COG3063    1 LYLKLGDLEEAEEYYEKALELDPDN-ADALNNLGLLLLEQGRYDEAIALEK-----ALKLD--PNNAEALLNLAELLLEL 72

                         90
                 ....*....|....*...
gi 238637273 696 NNFAEAHKFFTEILRMDP 713
Cdd:COG3063   73 GDYDEALAYLERALELDP 90
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 617-713 1.79e-06

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 47.29  E-value: 1.79e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 617 LLLMKDYVLAVDAYLTVIKYYPEQE--PQLLSGIGRILLQIGDIKTAEKYFQDVEKV---TQKLDglqgkiMVLMNRAFL 691
Cdd:COG1729    3 LLKAGDYDEAIAAFKAFLKRYPNSPlaPDALYWLGEAYYALGDYDEAAEAFEKLLKRypdSPKAP------DALLKLGLS 76

                         90       100
                 ....*....|....*....|..
gi 238637273 692 YLGQNNFAEAHKFFTEILRMDP 713
Cdd:COG1729   77 YLELGDYDKARATLEELIKKYP 98
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 626-747 1.91e-06

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 47.69  E-value: 1.91e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 626 AVDAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVekvtQKLDGlqGKIMVLMNRAFLYLGQNNFAEAHKFF 705
Cdd:COG4235    2 AIARLRQALAANPND-AEGWLLLGRAYLRLGRYDEALAAYEKA----LRLDP--DNADALLDLAEALLAAGDTEEAEELL 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 238637273 706 TEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDP 747
Cdd:COG4235   75 ERALALDPDNPEALYLLGLAAFQQGDYAEAIAAWQKLLALLP 116
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
634-764 1.97e-06

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 50.01  E-value: 1.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 634 IKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVEkvtqKLDglQGKIMVLMNRAFLYLGQNNFAEAHKFFTEILRMDP 713
Cdd:COG0457    1 LELDPDD-AEAYNNLGLAYRRLGRYEEAIEDYEKAL----ELD--PDDAEALYNLGLAYLRLGRYEEALADYEQALELDP 73

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 238637273 714 TNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYE 764
Cdd:COG0457   74 DDAEALNNLGLALQALGRYEEALEDYDKALELDPDDA---EALYNLGLALL 121
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 643-764 2.44e-06

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 47.88  E-value: 2.44e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 643 QLLSGIGRILLQIGDIKTAEKYFQDVekvtqkLDGLQGKIMVLMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNA 722
Cdd:COG4783    5 EALYALAQALLLAGDYDEAEALLEKA------LELDPDNPEAFALLGEILLQLGDLDEAIVLLHEALELDPDEPEARLNL 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 238637273 723 AVCLLYLGKLKDSLRQLEAMVQQDPRHYlheSVLFNLTTMYE 764
Cdd:COG4783   79 GLALLKAGDYDEALALLEKALKLDPEHP---EAYLRLARAYR 117
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 600-670 4.47e-06

tol-pal system protein YbgF; Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.


Pssm-ID: 188247 [Multi-domain]  Cd Length: 117  Bit Score: 46.50  E-value: 4.47e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 238637273  600 QLWrsrLGRVLYSManclllmKDYVLAVDAYLTVIKYYPEQE--PQLLSGIGRILLQIGDIKTAEKYFQDVEK 670
Cdd:TIGR02795  40 HYW---LGEAYYAQ-------GDYADAAKAFLAVVKKYPKSPkaPDALLKLGMSLQELGDKEKAKATLQQVIK 102
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 592-747 5.02e-06

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 47.26  E-value: 5.02e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 592 QESRQASVQLWRSRLGRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQEPQLLSGIGRILLQIGDIKTAEKYFQdvekv 671
Cdd:COG5010    4 LEGFDRLPLYLLLLTKLRTLVEKYEAALAGANNTKEDELAAAGRDKLAKAFAIESPSDNLYNKLGDFEESLALLE----- 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 238637273 672 tQKLDGLQGKIMVLMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDP 747
Cdd:COG5010   79 -QALQLDPNNPELYYNLALLYSRSGDKDEAKEYYEKALALSPDNPNAYSNLAALLLSLGQDDEAKAALQRALGTSP 153
TPR_12 pfam13424
Tetratricopeptide repeat;
644-711 1.24e-04

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 41.22  E-value: 1.24e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  644 LLSGIGRILLQIGDIKTAEKYFQDVEKVTQKLDGLQ--GKIMVLMNRAFLYLGQNNFAEAHKFFTEILRM 711
Cdd:pfam13424   5 ALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDhpLTATTLLNLGRLYLELGRYEEALELLERALAL 74
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
607-675 2.17e-04

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 40.92  E-value: 2.17e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 238637273 607 GRVLYSMANCLLLMKDYVLAVdAYLTVIKYYPEQePQLLSGIGRILLQIGDIKTAEKYFQDVEKVTQKL 675
Cdd:COG3063   26 ADALNNLGLLLLEQGRYDEAI-ALEKALKLDPNN-AEALLNLAELLLELGDYDEALAYLERALELDPSA 92
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
574-753 2.33e-04

Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 43.37  E-value: 2.33e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 574 LANLEQGLAEDGGLSSVTQESRQASVQLWRsRLGRVLYSMANCLLLMKDYVLAVDAYLTVIKYYPEQePQLLSGIGRILL 653
Cdd:COG4785   41 LADLALALAAAALAAAALAAERIDRALALP-DLAQLYYERGVAYDSLGDYDLAIADFDQALELDPDL-AEAYNNRGLAYL 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 654 QIGDIKTAEKYFQDVekvtQKLDglQGKIMVLMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNnaavcLLYLGKLK 733
Cdd:COG4785  119 LLGDYDAALEDFDRA----LELD--PDYAYAYLNRGIALYYLGRYELAIADLEKALELDPNDPERAL-----WLYLAERK 187

                        170       180
                 ....*....|....*....|.
gi 238637273 734 -DSLRQLEAMVQQDPRHYLHE 753
Cdd:COG4785  188 lDPEKALALLLEDWATAYLLQ 208
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 685-764 6.32e-04

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 40.37  E-value: 6.32e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273 685 LMNRAFLYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRhylHESVLFNLTTMYE 764
Cdd:COG4235   20 WLLLGRAYLRLGRYDEALAAYEKALRLDPDNADALLDLAEALLAAGDTEEAEELLERALALDPD---NPEALYLLGLAAF 96
TPR_2 pfam07719
Tetratricopeptide repeat; This Pfam entry includes outlying Tetratricopeptide-like repeats ...
 684-714 9.85e-04

Tetratricopeptide repeat; This Pfam entry includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by pfam00515.


Pssm-ID: 429619 [Multi-domain]  Cd Length: 33  Bit Score: 37.12  E-value: 9.85e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 238637273  684 VLMNRAFLYLGQNNFAEAHKFFTEILRMDPT 714
Cdd:pfam07719   3 ALYNLGLAYYKLGDYEEALEAYEKALELDPN 33
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 617-797 1.03e-03

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 42.76  E-value: 1.03e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  617 LLLMKDYVLAVDAYLTVIKYYPEqEPQLLSGIGRILLQIGDIKTAEKYFQDV-EKVTQKLDGLQGKIMVlmnraflYLGQ 695
Cdd:TIGR02917 203 LLSLGNIELALAAYRKAIALRPN-NIAVLLALATILIEAGEFEEAEKHADALlKKAPNSPLAHYLKALV-------DFQK 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  696 NNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRhyLHESVLfnLTTMYELESSRSMQKKQ 775
Cdd:TIGR02917 275 KNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPN--SHQARR--LLASIQLRLGRVDEAIA 350

                         170       180
                  ....*....|....*....|..
gi 238637273  776 SLLEAVASkegDSFNTQCLKLA 797
Cdd:TIGR02917 351 TLSPALGL---DPDDPAALSLL 369
TPR_12 pfam13424
Tetratricopeptide repeat;
608-674 3.17e-03

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 36.98  E-value: 3.17e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 238637273  608 RVLYSMANCLLLMKDYVLAVDAYLTVI----KYYPEQEPQL---LSGIGRILLQIGDIKTAEKYFQDVEKVTQK 674
Cdd:pfam13424   4 TALNNLAAVLRRLGRYDEALELLEKALeiarRLLGPDHPLTattLLNLGRLYLELGRYEEALELLERALALAEK 77
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 691-765 4.96e-03

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 38.40  E-value: 4.96e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 238637273 691 LYLGQNNFAEAHKFFTEILRMDPTNAVANNNAAVCLLYLGKLKDSLRQLEAMVQQDPRhylHESVLFNLTTMYEL 765
Cdd:COG5010   63 LYNKLGDFEESLALLEQALQLDPNNPELYYNLALLYSRSGDKDEAKEYYEKALALSPD---NPNAYSNLAALLLS 134
TPR smart00028
Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum ...
 608-639 5.70e-03

Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.


Pssm-ID: 197478 [Multi-domain]  Cd Length: 34  Bit Score: 35.11  E-value: 5.70e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 238637273   608 RVLYSMANCLLLMKDYVLAVDAYLTVIKYYPE 639
Cdd:smart00028   2 EALYNLGNAYLKLGDYDEALEYYEKALELDPN 33
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 1-380 8.62e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 39.77  E-value: 8.62e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273    1 METAKDGEQSPSEASPSAQAGPENIPEPMSREEESQPlyheetiDLGGDEFASEENEPTSEGShnfgdklnehmmesvli 80
Cdd:PHA03307   96 APASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAP-------DLSEMLRPVGSPGPPPAAS----------------- 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273   81 SDSPNNSEGDVGDlgclqDVGEPPRGAtdhrLPSSTDKEVVDTLSNGSETDGDDTPRdiSDMTPDSRASLKEDST-QEDV 159
Cdd:PHA03307  152 PPAAGASPAAVAS-----DAASSRQAA----LPLSSPEETARAPSSPPAEPPPSTPP--AAASPRPPRRSSPISAsASSP 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  160 TSMPALENAATEEVGPKDSLAPREEQTSEVSSNQSsskdePLPVCTIFSQAT--ATPSQPHlflqdgfesqmvkSPSFSS 237
Cdd:PHA03307  221 APAPGRSAADDAGASSSDSSSSESSGCGWGPENEC-----PLPRPAPITLPTriWEASGWN-------------GPSSRP 282

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238637273  238 TSETSAkTPPPMVQPSPSLSTFFGDTMSSNSLASDFFDSFTTStfiSVSNPNAGSPVPEKLSSLTAPVGEKSPDSTSPSY 317
Cdd:PHA03307  283 GPASSS-SSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRES---SSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPP 358

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 238637273  318 STRMDRSesgvSRAPldvpeSPKPFSQIQAVFAGSDDPFATALSMSEMDRRNDAWLPSQATRE 380
Cdd:PHA03307  359 PADPSSP----RKRP-----RPSRAPSSPAASAGRPTRRRARAAVAGRARRRDATGRFPAGRP 412
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH