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Conserved domains on  [gi|2209879091|ref|WP_241825857|]
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lipopolysaccharide assembly protein LapB [Izhakiella australiensis]

Protein Classification

tetratricopeptide repeat protein( domain architecture ID 11459274)

tetratricopeptide repeat (TPR) protein may adopt a right-handed helical structure with an amphipathic channel and may function as an interaction scaffold in the formation of multi-protein complexes

CATH:  1.25.40.10
Gene Ontology:  GO:0005515
PubMed:  10517866|30708253
SCOP:  3001345

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 36-234 4.29e-10

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: 58.59  E-value: 4.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSLYYLQSLNMSKDMRVSILQ--AQNMIALGDYGPA 112
Cdd:COG2956    50 NLYRRRGEYDRAIRIHQKLLERDpDRAEALLELAQDYLKAGLLDRAEELLEKLLELDPDDAEALRllAEIYEQEGDWEKA 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 113 IRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGK 192
Cdd:COG2956   130 IEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDP 209

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2209879091 193 KQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDPDALIAAM 234
Cdd:COG2956   210 DYLPALPRLAELYEKLGDPEEALELLR-KALELDPSDDLLLA 250
 
Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 36-234 4.29e-10

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: 58.59  E-value: 4.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSLYYLQSLNMSKDMRVSILQ--AQNMIALGDYGPA 112
Cdd:COG2956    50 NLYRRRGEYDRAIRIHQKLLERDpDRAEALLELAQDYLKAGLLDRAEELLEKLLELDPDDAEALRllAEIYEQEGDWEKA 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 113 IRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGK 192
Cdd:COG2956   130 IEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDP 209

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2209879091 193 KQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDPDALIAAM 234
Cdd:COG2956   210 DYLPALPRLAELYEKLGDPEEALELLR-KALELDPSDDLLLA 250
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 36-220 2.58e-07

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: 50.85  E-value: 2.58e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKENDTPESRLKLSRYYYLAGDYKSSL-YYLQSLN-MSKDMRVSILQAQNMIALGDYGPAI 113
Cdd:TIGR02917 711 DLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVkTLEAWLKtHPNDAVLRTALAELYLAQKDYDKAI 790

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 114 RVTDRMLQQMPNNAEAYNlrGVA-LALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGK 192
Cdd:TIGR02917 791 KHYQTVVKKAPDNAVVLN--NLAwLYLELKDPRALEYAERALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP 868

                         170       180
                  ....*....|....*....|....*...
gi 2209879091 193 KQTQILHNLVLSLVKVGDRRYARNIVES 220
Cdd:TIGR02917 869 EAAAIRYHLALALLATGRKAEARKELDK 896
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 53-180 1.56e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 42.60  E-value: 1.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  53 SWLKENDTPESR---LKLSRYYYLAGDYKSSLYYLQSLN-----MSKDMRVSILQAQNMIA-----LGDYGPAIRVTDRM 119
Cdd:NF040586  381 SGALESDDPEVRrllLDQVRYLYLRGDYESARDLAERALerwreRLGPDDRQTLRLRFHLAnalrsLGRYEEARELDEDT 460

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2209879091 120 LQQM----------PNNAEAYNLRGVALALSGK----LEEGKRSIERSRELFIADDV----AINNLAMIEMIDGRYQGA 180
Cdd:NF040586  461 LERQrrvlglgedhPHTLMTAGGLGADLRALGRfreaLELDEETLERHRRVFGEDHPrtlrAANNLAVSLRLLGDYREA 539
ACL4-like cd24142
Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 ...
 99-156 8.82e-04

Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 (ACL4) acts as a chaperone for the L4 ribosomal subunit, encoded by RPL4A and RPL4B, and is required for hierarchical ribosome assembly. It is required for the soluble expression of newly synthesized RPL4 and for the protection of RPL4 from the Tom1-dependent cellular degradation machinery. ACL4 shields ribosomal protein L4 until timely release and insertion into the pre-ribosome is possible, once ribosomal protein L18 is present.


Pssm-ID: 467942 [Multi-domain]  Cd Length: 306  Bit Score: 39.92  E-value: 8.82e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2209879091  99 QAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSREL 156
Cdd:cd24142     6 KAEELLDQGNFELALKFLQRALELEPNNVEALELLGEILLELGDVEEAREVLLRAIEL 63
 
Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 36-234 4.29e-10

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: 58.59  E-value: 4.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSLYYLQSLNMSKDMRVSILQ--AQNMIALGDYGPA 112
Cdd:COG2956    50 NLYRRRGEYDRAIRIHQKLLERDpDRAEALLELAQDYLKAGLLDRAEELLEKLLELDPDDAEALRllAEIYEQEGDWEKA 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 113 IRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGK 192
Cdd:COG2956   130 IEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDP 209

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2209879091 193 KQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDPDALIAAM 234
Cdd:COG2956   210 DYLPALPRLAELYEKLGDPEEALELLR-KALELDPSDDLLLA 250
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
37-184 8.22e-10

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 57.32  E-value: 8.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  37 ILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSL-YYLQSLNM-SKDMRVSILQAQNMIALGDYGPAI 113
Cdd:COG0457    17 AYRRLGRYEEAIEDYEKALELDpDDAEALYNLGLAYLRLGRYEEALaDYEQALELdPDDAEALNNLGLALQALGRYEEAL 96

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2209879091 114 RVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLL 184
Cdd:COG0457    97 EDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERALELDPDDADALYNLGIALEKLGRYEEALELL 167
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 37-180 1.83e-09

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 57.31  E-value: 1.83e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  37 ILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSL-YYLQSLNMSKDM-RVSILQAQNMIALGDYGPAI 113
Cdd:COG3914    87 LLQALGRYEEALALYRRALALNpDNAEALFNLGNLLLALGRLEEALaALRRALALNPDFaEAYLNLGEALRRLGRLEEAI 166

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2209879091 114 RVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGA 180
Cdd:COG3914   167 AALRRALELDPDNAEALNNLGNALQDLGRLEEAIAAYRRALELDPDNADAHSNLLFALRQACDWEVY 233
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 36-187 3.69e-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: 55.89  E-value: 3.69e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSL-YYLQSLNMSKD-MRVSILQAQNMIALGDYGPA 112
Cdd:COG2956   118 EIYEQEGDWEKAIEVLERLLKLGpENAHAYCELAELYLEQGDYDEAIeALEKALKLDPDcARALLLLAELYLEQGDYEEA 197

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2209879091 113 IRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFiADDVAINNLAMIEMIDGRYQGAVGLLLPQ 187
Cdd:COG2956   198 IAALERALEQDPDYLPALPRLAELYEKLGDPEEALELLRKALELD-PSDDLLLALADLLERKEGLEAALALLERQ 271
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 90-228 8.05e-09

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: 52.89  E-value: 8.05e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  90 SKDMRVSILQAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAM 169
Cdd:COG4783     1 AACAEALYALAQALLLAGDYDEAEALLEKALELDPDNPEAFALLGEILLQLGDLDEAIVLLHEALELDPDEPEARLNLGL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2209879091 170 IEMIDGRYQGAVGLLLPQYLRGKKQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDPD 228
Cdd:COG4783    81 ALLKAGDYDEALALLEKALKLDPEHPEAYLRLARAYRALGRPDEAIAALE-KALELDPD 138
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 47-173 3.14e-08

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: 50.77  E-value: 3.14e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  47 LITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSL-YYLQSLNMS-KDMRVSILQAQNMIALGDYGPAIRVTDRMLQQM 123
Cdd:COG4235     2 AIARLRQALAANpNDAEGWLLLGRAYLRLGRYDEALaAYEKALRLDpDNADALLDLAEALLAAGDTEEAEELLERALALD 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2209879091 124 PNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMI 173
Cdd:COG4235    82 PDNPEALYLLGLAAFQQGDYAEAIAAWQKLLALLPADAPARLLEASIAEA 131
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 105-184 4.53e-08

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: 51.11  E-value: 4.53e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 105 ALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLL 184
Cdd:COG5010    66 KLGDFEESLALLEQALQLDPNNPELYYNLALLYSRSGDKDEAKEYYEKALALSPDNPNAYSNLAALLLSLGQDDEAKAAL 145
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 98-234 4.90e-08

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 53.07  E-value: 4.90e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  98 LQAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRY 177
Cdd:COG3914    83 LAALLLQALGRYEEALALYRRALALNPDNAEALFNLGNLLLALGRLEEALAALRRALALNPDFAEAYLNLGEALRRLGRL 162

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2209879091 178 QGAVGLLLpQYLRGK-KQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDPDALIAAM 234
Cdd:COG3914   163 EEAIAALR-RALELDpDNAEALNNLGNALQDLGRLEEAIAAYR-RALELDPDNADAHS 218
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 97-184 2.28e-07

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: 48.46  E-value: 2.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  97 ILQAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGR 176
Cdd:COG4235    21 LLLGRAYLRLGRYDEALAAYEKALRLDPDNADALLDLAEALLAAGDTEEAEELLERALALDPDNPEALYLLGLAAFQQGD 100


                  ....*...
gi 2209879091 177 YQGAVGLL 184
Cdd:COG4235   101 YAEAIAAW 108
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 36-220 2.58e-07

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: 50.85  E-value: 2.58e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKENDTPESRLKLSRYYYLAGDYKSSL-YYLQSLN-MSKDMRVSILQAQNMIALGDYGPAI 113
Cdd:TIGR02917 711 DLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVkTLEAWLKtHPNDAVLRTALAELYLAQKDYDKAI 790

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 114 RVTDRMLQQMPNNAEAYNlrGVA-LALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGK 192
Cdd:TIGR02917 791 KHYQTVVKKAPDNAVVLN--NLAwLYLELKDPRALEYAERALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP 868

                         170       180
                  ....*....|....*....|....*...
gi 2209879091 193 KQTQILHNLVLSLVKVGDRRYARNIVES 220
Cdd:TIGR02917 869 EAAAIRYHLALALLATGRKAEARKELDK 896
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
104-184 3.12e-06

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 44.39  E-value: 3.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 104 IALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRsIERSRELFIADDVAINNLAMIEMIDGRYQGAVGL 183
Cdd:COG3063     3 LKLGDLEEAEEYYEKALELDPDNADALNNLGLLLLEQGRYDEAIA-LEKALKLDPNNAEALLNLAELLLELGDYDEALAY 81


                  .
gi 2209879091 184 L 184
Cdd:COG3063    82 L 82
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 97-227 3.38e-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: 45.72  E-value: 3.38e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  97 ILQAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGR 176
Cdd:COG5010    24 VEKYEAALAGANNTKEDELAAAGRDKLAKAFAIESPSDNLYNKLGDFEESLALLEQALQLDPNNPELYYNLALLYSRSGD 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2209879091 177 YQGAVGLLLPQYLRGKKQTQILHNLVLSLVKVGDRRYARNIVEsENLSRDP 227
Cdd:COG5010   104 KDEAKEYYEKALALSPDNPNAYSNLAALLLSLGQDDEAKAALQ-RALGTSP 153
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 64-181 5.25e-06

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: 47.00  E-value: 5.25e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  64 RLKLSRYYYLAGDYKSSLYYL-QSLNMSKDM-RVSILQAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSG 141
Cdd:TIGR02917 400 RTQLGISKLSQGDPSEAIADLeTAAQLDPELgRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKG 479

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2209879091 142 KLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAV 181
Cdd:TIGR02917 480 DLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAI 519
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
106-181 7.76e-06

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


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 45.68  E-value: 7.76e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2209879091 106 LGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAV 181
Cdd:COG4785    86 LGDYDLAIADFDQALELDPDLAEAYNNRGLAYLLLGDYDAALEDFDRALELDPDYAYAYLNRGIALYYLGRYELAI 161
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
37-225 9.91e-06

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 45.38  E-value: 9.91e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  37 ILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSL-YYLQSLNMSKDMRVSILQ-AQNMIALGDYGPAI 113
Cdd:COG0457    51 AYLRLGRYEEALADYEQALELDpDDAEALNNLGLALQALGRYEEALeDYDKALELDPDDAEALYNlGLALLELGRYDEAI 130

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 114 RVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLLPQYLRGKK 193
Cdd:COG0457   131 EAYERALELDPDDADALYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQALRKK 210

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2209879091 194 QTQILHNLVLSLVKVGDRRYARNIVESENLSR 225
Cdd:COG0457   211 LAILTLAALAELLLLALALLLALRLAALALYQ 242
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
104-188 3.92e-05

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


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 43.37  E-value: 3.92e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 104 IALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMiDGRYQGAVGL 183
Cdd:COG4785   118 LLLGDYDAALEDFDRALELDPDYAYAYLNRGIALYYLGRYELAIADLEKALELDPNDPERALWLYLAER-KLDPEKALAL 196


                  ....*
gi 2209879091 184 LLPQY 188
Cdd:COG4785   197 LLEDW 201
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 62-233 3.93e-05

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: 44.30  E-value: 3.93e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  62 ESRLKLSRYYYLAGDYKSSLYYLQSLNMSKDMRVSILQ--AQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALAL 139
Cdd:TIGR02917 568 EPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLmlGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAV 647

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091 140 SGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLLlpQYLRGKKQTQILHNLVLSLVKVGDRRYARNIVE 219
Cdd:TIGR02917 648 MKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIA--KSLQKQHPKAALGFELEGDLYLRQKDYPAAIQA 725

                         170
                  ....*....|....*
gi 2209879091 220 SEN-LSRDPDALIAA 233
Cdd:TIGR02917 726 YRKaLKRAPSSQNAI 740
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 36-184 9.37e-05

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: 42.79  E-value: 9.37e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKSSLYYLQSLNMSKDMRVSILQ--AQNMIALGDYGPA 112
Cdd:COG2956    16 LNYLLNGQPDKAIDLLEEALELDpETVEAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALLelAQDYLKAGLLDRA 95

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2209879091 113 IRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLL 184
Cdd:COG2956    96 EELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIEAL 167
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 53-180 1.56e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 42.60  E-value: 1.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  53 SWLKENDTPESR---LKLSRYYYLAGDYKSSLYYLQSLN-----MSKDMRVSILQAQNMIA-----LGDYGPAIRVTDRM 119
Cdd:NF040586  381 SGALESDDPEVRrllLDQVRYLYLRGDYESARDLAERALerwreRLGPDDRQTLRLRFHLAnalrsLGRYEEARELDEDT 460

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2209879091 120 LQQM----------PNNAEAYNLRGVALALSGK----LEEGKRSIERSRELFIADDV----AINNLAMIEMIDGRYQGA 180
Cdd:NF040586  461 LERQrrvlglgedhPHTLMTAGGLGADLRALGRfreaLELDEETLERHRRVFGEDHPrtlrAANNLAVSLRLLGDYREA 539
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 38-184 3.43e-04

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: 41.61  E-value: 3.43e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  38 LLKAKNYNGLITMYRSWLKEN-DTPESRLKLSRYYYLAGDYKS---SLYYLQSLNMSKDmRVSILQAQNMIALGDYGPAI 113
Cdd:TIGR02917  32 YLQKNKYKAAIIQLKNALQKDpNDAEARFLLGKIYLALGDYAAaekELRKALSLGYPKN-QVLPLLARAYLLQGKFQQVL 110

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2209879091 114 R-VTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAVGLL 184
Cdd:TIGR02917 111 DeLPGKTLLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALI 182
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
120-181 4.24e-04

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 40.38  E-value: 4.24e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2209879091 120 LQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSRELFIADDVAINNLAMIEMIDGRYQGAV 181
Cdd:COG0457     1 LELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKALELDPDDAEALYNLGLAYLRLGRYEEAL 62
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 36-129 7.45e-04

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: 38.05  E-value: 7.45e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  36 DILLKAKNYNGLITMYRSWLKEND----TPESRLKLSRYYYLAGDYKSSLYYLQSL-----NMSKDMRVSILQAQNMIAL 106
Cdd:COG1729     1 KALLKAGDYDEAIAAFKAFLKRYPnsplAPDALYWLGEAYYALGDYDEAAEAFEKLlkrypDSPKAPDALLKLGLSYLEL 80

                          90       100
                  ....*....|....*....|...
gi 2209879091 107 GDYGPAIRVTDRMLQQMPNNAEA 129
Cdd:COG1729    81 GDYDKARATLEELIKKYPDSEAA 103
ACL4-like cd24142
Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 ...
 99-156 8.82e-04

Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 (ACL4) acts as a chaperone for the L4 ribosomal subunit, encoded by RPL4A and RPL4B, and is required for hierarchical ribosome assembly. It is required for the soluble expression of newly synthesized RPL4 and for the protection of RPL4 from the Tom1-dependent cellular degradation machinery. ACL4 shields ribosomal protein L4 until timely release and insertion into the pre-ribosome is possible, once ribosomal protein L18 is present.


Pssm-ID: 467942 [Multi-domain]  Cd Length: 306  Bit Score: 39.92  E-value: 8.82e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2209879091  99 QAQNMIALGDYGPAIRVTDRMLQQMPNNAEAYNLRGVALALSGKLEEGKRSIERSREL 156
Cdd:cd24142     6 KAEELLDQGNFELALKFLQRALELEPNNVEALELLGEILLELGDVEEAREVLLRAIEL 63
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
70-156 4.99e-03

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 35.53  E-value: 4.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2209879091  70 YYYLAGDYKSSL-YYLQSLNMS-KDMRVSILQAQNMIALGDYGPAIRVtDRMLQQMPNNAEAYNLRGVALALSGKLEEGK 147
Cdd:COG3063     1 LYLKLGDLEEAEeYYEKALELDpDNADALNNLGLLLLEQGRYDEAIAL-EKALKLDPNNAEALLNLAELLLELGDYDEAL 79


                  ....*....
gi 2209879091 148 RSIERSREL 156
Cdd:COG3063    80 AYLERALEL 88
 
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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