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Conserved domains on  [gi|193204364|ref|NP_494366|]
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Signal recognition particle subunit SRP72 [Caenorhabditis elegans]

Protein Classification

SRP_TPR_like and SRP72 domain-containing protein( domain architecture ID 13164991)

SRP_TPR_like and SRP72 domain-containing protein

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
SRP72 pfam08492
SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 ...
 516-568 1.30e-19

SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 protein to SRP RNA.


:

Pssm-ID: 462494  Cd Length: 53  Bit Score: 82.41  E-value: 1.30e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 193204364  516 QKKEAKSPQTAEIAATRKLKIATKRKRKIRLPKNYNSAVTPDPERWLPRQERS 568
Cdd:pfam08492   1 KKKSKVSPSTPPKEEVQKKKKKKKRKRKGKLPKNFDPGVTPDPERWLPLRERS 53
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 23-199 4.07e-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: 4.07e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  23 GDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRK--TPAHQMGHVGFEKAYIHYRQDELDEAIKELNT 100
Cdd:COG2956   90 GLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERllKLGPENAHAYCELAELYLEQGDYDEAIEALEK 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 101 ---CDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLAVQARLEAQGVK--QAVAETEDSYSQLY 175
Cdd:COG2956  170 alkLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGDPEEALEllRKALELDPSDDLLL 249

                        170       180
                 ....*....|....*....|....
gi 193204364 176 NRACVEIEAEKLPQALESLEKALK 199
Cdd:COG2956  250 ALADLLERKEGLEAALALLERQLR 273
PEP_TPR_lipo super family cl37187
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 60-480 5.45e-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.


The actual alignment was detected with superfamily member TIGR02917:

Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 52.78  E-value: 5.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   60 ADALELIRKTPAHQMGHVgfEKAYIHYRQDELDEAIKELN---TCDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNH 136
Cdd:TIGR02917 452 AAAKKLEKKQPDNASLHN--LLGAIYLGKGDLAKAREAFEkalSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID 529

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  137 SDDSDELRR-ANFLAVQARLEAQG--VKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTCRKSfededreed 213
Cdd:TIGR02917 530 PKNLRAILAlAGLYLRTGNEEEAVawLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDS--------- 600

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  214 eieeelDSIRVQKAYVLQRMGQKAEALAIYEKVQAANhPDSSVKATITNNIPAASSDFAlpESRKRFKAALQIDQTKLTR 293
Cdd:TIGR02917 601 ------PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA--KAITSLKRALELKPDNTEA 671

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  294 RQRLTLMLNNAlvlllsNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAAL----KVLAGSDLEQSLARLH-V 368
Cdd:TIGR02917 672 QIGLAQLLLAA------KRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIqayrKALKRAPSSQNAIKLHrA 745

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  369 LLNAGRLPEAVGAI----RDLPISGKLgaSSLLTSTLIAADSRDEAVKEL----------------VAASTAKNQTPEAL 428
Cdd:TIGR02917 746 LLASGNTAEAVKTLeawlKTHPNDAVL--RTALAELYLAQKDYDKAIKHYqtvvkkapdnavvlnnLAWLYLELKDPRAL 823

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 193204364  429 K-------------SILEDLVEVEQQRGNETAATKHLEKLVEKFPEDLQLQCRLVGAYSKTDPKK 480
Cdd:TIGR02917 824 EyaeralklapnipAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKA 888
 
Name Accession Description Interval E-value
SRP72 pfam08492
SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 ...
 516-568 1.30e-19

SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 protein to SRP RNA.


Pssm-ID: 462494  Cd Length: 53  Bit Score: 82.41  E-value: 1.30e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 193204364  516 QKKEAKSPQTAEIAATRKLKIATKRKRKIRLPKNYNSAVTPDPERWLPRQERS 568
Cdd:pfam08492   1 KKKSKVSPSTPPKEEVQKKKKKKKRKRKGKLPKNFDPGVTPDPERWLPLRERS 53
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 23-199 4.07e-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: 4.07e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  23 GDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRK--TPAHQMGHVGFEKAYIHYRQDELDEAIKELNT 100
Cdd:COG2956   90 GLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERllKLGPENAHAYCELAELYLEQGDYDEAIEALEK 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 101 ---CDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLAVQARLEAQGVK--QAVAETEDSYSQLY 175
Cdd:COG2956  170 alkLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGDPEEALEllRKALELDPSDDLLL 249

                        170       180
                 ....*....|....*....|....
gi 193204364 176 NRACVEIEAEKLPQALESLEKALK 199
Cdd:COG2956  250 ALADLLERKEGLEAALALLERQLR 273
SRP_TPR_like pfam17004
Putative TPR-like repeat; This is a family of microsporidial sequences that are likely to fold ...
 21-153 4.39e-09

Putative TPR-like repeat; This is a family of microsporidial sequences that are likely to fold into a TPR-like structure. Many sequences are annotated as being signal recognition proteins.


Pssm-ID: 435703 [Multi-domain]  Cd Length: 109  Bit Score: 54.32  E-value: 4.39e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   21 TSGDYQKALTSANKLIRKYpketfafkcKLVAQIQLSQYADALELIRKTpahqmghvGFEKAYIHYRQDELDEAIKELNt 100
Cdd:pfam17004   1 TNEEHEEILRLEGPEYNRF---------KVIALIHLDKYKEALKYAKKG--------SFEKAYALYKLKKYKKALKILR- 62

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 193204364  101 cDKDDVKALELKAQVFYKQENYQQAYDIylylLKNHSDDSDelRRANFLAVQA 153
Cdd:pfam17004  63 -KMDSEGSRVLASQCLYFLGYYNKAYKI----LSECKRDDE--IVVNLQAMKS 108
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 60-480 5.45e-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: 52.78  E-value: 5.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   60 ADALELIRKTPAHQMGHVgfEKAYIHYRQDELDEAIKELN---TCDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNH 136
Cdd:TIGR02917 452 AAAKKLEKKQPDNASLHN--LLGAIYLGKGDLAKAREAFEkalSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID 529

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  137 SDDSDELRR-ANFLAVQARLEAQG--VKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTCRKSfededreed 213
Cdd:TIGR02917 530 PKNLRAILAlAGLYLRTGNEEEAVawLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDS--------- 600

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  214 eieeelDSIRVQKAYVLQRMGQKAEALAIYEKVQAANhPDSSVKATITNNIPAASSDFAlpESRKRFKAALQIDQTKLTR 293
Cdd:TIGR02917 601 ------PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA--KAITSLKRALELKPDNTEA 671

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  294 RQRLTLMLNNAlvlllsNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAAL----KVLAGSDLEQSLARLH-V 368
Cdd:TIGR02917 672 QIGLAQLLLAA------KRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIqayrKALKRAPSSQNAIKLHrA 745

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  369 LLNAGRLPEAVGAI----RDLPISGKLgaSSLLTSTLIAADSRDEAVKEL----------------VAASTAKNQTPEAL 428
Cdd:TIGR02917 746 LLASGNTAEAVKTLeawlKTHPNDAVL--RTALAELYLAQKDYDKAIKHYqtvvkkapdnavvlnnLAWLYLELKDPRAL 823

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 193204364  429 K-------------SILEDLVEVEQQRGNETAATKHLEKLVEKFPEDLQLQCRLVGAYSKTDPKK 480
Cdd:TIGR02917 824 EyaeralklapnipAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKA 888
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 304-484 6.82e-03

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: 38.94  E-value: 6.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 304 ALVLLLSNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAALKVLAgSDLEQSLARLHVLLNAGRLpeavgair 383
Cdd:COG2956   15 GLNYLLNGQPDKAIDLLEEALELDPETVEAHLALGNLYRRRGEYDRAIRIHQ-KLLERDPDRAEALLELAQD-------- 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 384 dlpisgklgasslltstLIAADSRDEAVKELVAASTAKNQTPEAlksiLEDLVEVEQQRGNETAATKHLEKLVEKFPEDL 463
Cdd:COG2956   86 -----------------YLKAGLLDRAEELLEKLLELDPDDAEA----LRLLAEIYEQEGDWEKAIEVLERLLKLGPENA 144

                        170       180
                 ....*....|....*....|..
gi 193204364 464 QLQCRLVGAYSKT-DPKKAESL 484
Cdd:COG2956  145 HAYCELAELYLEQgDYDEAIEA 166
 
Name Accession Description Interval E-value
SRP72 pfam08492
SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 ...
 516-568 1.30e-19

SRP72 RNA-binding domain; This region has been identified as the binding site of the SRP72 protein to SRP RNA.


Pssm-ID: 462494  Cd Length: 53  Bit Score: 82.41  E-value: 1.30e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 193204364  516 QKKEAKSPQTAEIAATRKLKIATKRKRKIRLPKNYNSAVTPDPERWLPRQERS 568
Cdd:pfam08492   1 KKKSKVSPSTPPKEEVQKKKKKKKRKRKGKLPKNFDPGVTPDPERWLPLRERS 53
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 23-199 4.07e-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: 4.07e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  23 GDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRK--TPAHQMGHVGFEKAYIHYRQDELDEAIKELNT 100
Cdd:COG2956   90 GLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERllKLGPENAHAYCELAELYLEQGDYDEAIEALEK 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 101 ---CDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLAVQARLEAQGVK--QAVAETEDSYSQLY 175
Cdd:COG2956  170 alkLDPDCARALLLLAELYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGDPEEALEllRKALELDPSDDLLL 249

                        170       180
                 ....*....|....*....|....
gi 193204364 176 NRACVEIEAEKLPQALESLEKALK 199
Cdd:COG2956  250 ALADLLERKEGLEAALALLERQLR 273
SRP_TPR_like pfam17004
Putative TPR-like repeat; This is a family of microsporidial sequences that are likely to fold ...
 21-153 4.39e-09

Putative TPR-like repeat; This is a family of microsporidial sequences that are likely to fold into a TPR-like structure. Many sequences are annotated as being signal recognition proteins.


Pssm-ID: 435703 [Multi-domain]  Cd Length: 109  Bit Score: 54.32  E-value: 4.39e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   21 TSGDYQKALTSANKLIRKYpketfafkcKLVAQIQLSQYADALELIRKTpahqmghvGFEKAYIHYRQDELDEAIKELNt 100
Cdd:pfam17004   1 TNEEHEEILRLEGPEYNRF---------KVIALIHLDKYKEALKYAKKG--------SFEKAYALYKLKKYKKALKILR- 62

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 193204364  101 cDKDDVKALELKAQVFYKQENYQQAYDIylylLKNHSDDSDelRRANFLAVQA 153
Cdd:pfam17004  63 -KMDSEGSRVLASQCLYFLGYYNKAYKI----LSECKRDDE--IVVNLQAMKS 108
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 22-157 1.24e-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: 53.58  E-value: 1.24e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  22 SGDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRKTPAHQMGHVG--FEKAYIHYRQDELDEAIKELN 99
Cdd:COG2956  123 EGDWEKAIEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCARalLLLAELYLEQGDYEEAIAALE 202

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 193204364 100 TC---DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLAVQARLEA 157
Cdd:COG2956  203 RAleqDPDYLPALPRLAELYEKLGDPEEALELLRKALELDPSDDLLLALADLLERKEGLEA 263
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 79-326 1.65e-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: 53.19  E-value: 1.65e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  79 FEKAYIHYRQDELDEAIKELNTC---DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLAVQARL 155
Cdd:COG2956   46 LALGNLYRRRGEYDRAIRIHQKLlerDPDRAEALLELAQDYLKAGLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGD 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 156 EAQGV---KQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTCRKSFEdedreedeieeeldsIRVQKAYVLQR 232
Cdd:COG2956  126 WEKAIevlERLLKLGPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCAR---------------ALLLLAELYLE 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 233 MGQKAEALAIYEKVQAANHpdssvkatitNNIPAASSDFALPESRKRFKAALQIDQTKLTRRQRLTLMLNNALVLLLSNQ 312
Cdd:COG2956  191 QGDYEEAIAALERALEQDP----------DYLPALPRLAELYEKLGDPEEALELLRKALELDPSDDLLLALADLLERKEG 260

                        250
                 ....*....|....
gi 193204364 313 REPCKRALEELVAK 326
Cdd:COG2956  261 LEAALALLERQLRR 274
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 60-480 5.45e-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: 52.78  E-value: 5.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   60 ADALELIRKTPAHQMGHVgfEKAYIHYRQDELDEAIKELN---TCDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNH 136
Cdd:TIGR02917 452 AAAKKLEKKQPDNASLHN--LLGAIYLGKGDLAKAREAFEkalSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID 529

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  137 SDDSDELRR-ANFLAVQARLEAQG--VKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTCRKSfededreed 213
Cdd:TIGR02917 530 PKNLRAILAlAGLYLRTGNEEEAVawLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDS--------- 600

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  214 eieeelDSIRVQKAYVLQRMGQKAEALAIYEKVQAANhPDSSVKATITNNIPAASSDFAlpESRKRFKAALQIDQTKLTR 293
Cdd:TIGR02917 601 ------PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA--KAITSLKRALELKPDNTEA 671

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  294 RQRLTLMLNNAlvlllsNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAAL----KVLAGSDLEQSLARLH-V 368
Cdd:TIGR02917 672 QIGLAQLLLAA------KRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIqayrKALKRAPSSQNAIKLHrA 745

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  369 LLNAGRLPEAVGAI----RDLPISGKLgaSSLLTSTLIAADSRDEAVKEL----------------VAASTAKNQTPEAL 428
Cdd:TIGR02917 746 LLASGNTAEAVKTLeawlKTHPNDAVL--RTALAELYLAQKDYDKAIKHYqtvvkkapdnavvlnnLAWLYLELKDPRAL 823

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 193204364  429 K-------------SILEDLVEVEQQRGNETAATKHLEKLVEKFPEDLQLQCRLVGAYSKTDPKK 480
Cdd:TIGR02917 824 EyaeralklapnipAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKA 888
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 79-385 1.15e-06

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: 50.50  E-value: 1.15e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  79 FEKAYIHYRQDELDEAIKELNTC---DKDDVKALELKAQVFYKQENYQQAYDIYlyllknhsddsdelrranflavqarl 155
Cdd:COG2956   12 YFKGLNYLLNGQPDKAIDLLEEAlelDPETVEAHLALGNLYRRRGEYDRAIRIH-------------------------- 65

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 156 eaqgvKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTcrksfededreedeiEEELDSIRVQKAYVLQRMGQ 235
Cdd:COG2956   66 -----QKLLERDPDRAEALLELAQDYLKAGLLDRAEELLEKLLEL---------------DPDDAEALRLLAEIYEQEGD 125

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 236 KAEALAIYEKVQAANhPDSSVKATITNNIPAASSDFAlpESRKRFKAALQIDQTKLtrrqRLTLMLnnALVLLLSNQREP 315
Cdd:COG2956  126 WEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYD--EAIEALEKALKLDPDCA----RALLLL--AELYLEQGDYEE 196

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 193204364 316 CKRALEELVAKFGSSKDVALIEATLHFKMGDAEAALKVL-----AGSDLEQSLARLHVLLNAGRLPEAVGAIRDL 385
Cdd:COG2956  197 AIAALERALEQDPDYLPALPRLAELYEKLGDPEEALELLrkaleLDPSDDLLLALADLLERKEGLEAALALLERQ 271
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 59-484 2.02e-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: 51.24  E-value: 2.02e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   59 YADALELIRKTPAHQMGhvgfeKAYIHYRQDELDEAIK---ELNTCDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKN 135
Cdd:TIGR02917 148 YEQALAIDPRSLYAKLG-----LAQLALAENRFDEARAlidEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIAL 222

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  136 HSDD-SDELRRANFLAVQARLE--AQGVKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKTC----------- 201
Cdd:TIGR02917 223 RPNNiAVLLALATILIEAGEFEeaEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSApeylpalllag 302

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  202 -----RKSFEDEDREEDEIEEELDS---IRVQKAYVLQRMGQKAEALAIYEKVQAANhPDSSVKATITNNIPAASSDFAl 273
Cdd:TIGR02917 303 aseyqLGNLEQAYQYLNQILKYAPNshqARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFE- 380

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  274 pESRKRFKAALQIDQTKLTRRQRLtlmlnnALVLLLSNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAALKV 353
Cdd:TIGR02917 381 -KAAEYLAKATELDPENAAARTQL------GISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAA 453

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  354 LAGSDLEQ-SLARLHVL-----LNAGRLPEAVGAIRD-LPI-SGKLGASSLLTSTLIAADSRDEAVKELVAASTAknqTP 425
Cdd:TIGR02917 454 AKKLEKKQpDNASLHNLlgaiyLGKGDLAKAREAFEKaLSIePDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI---DP 530

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  426 EALKSILEdLVEVEQQRGNETAATKHLEKLVEKFPEDLQLQCRLVGAY-SKTDPKKAESL 484
Cdd:TIGR02917 531 KNLRAILA-LAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYlGKGQLKKALAI 589
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
23-249 1.68e-05

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 46.54  E-value: 1.68e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  23 GDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRKTPAHQMGHVG--FEKAYIHYRQDELDEAIKELNT 100
Cdd:COG0457   22 GRYEEAIEDYEKALELDPDDAEALYNLGLAYLRLGRYEEALADYEQALELDPDDAEalNNLGLALQALGRYEEALEDYDK 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 101 C---DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDEL-RRANFLAVQARLEaqgvkqavaETEDSYSQLYN 176
Cdd:COG0457  102 AlelDPDDAEALYNLGLALLELGRYDEAIEAYERALELDPDDADALyNLGIALEKLGRYE---------EALELLEKLEA 172

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 193204364 177 RACVEIEAEKLPQALESLEKALKTCRKSFEDEDREEDEIEEELDSIRVQKAYVLQRMGQKAEALAIYEKVQAA 249
Cdd:COG0457  173 AALAALLAAALGEAALALAAAEVLLALLLALEQALRKKLAILTLAALAELLLLALALLLALRLAALALYQYRA 245
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 22-139 2.60e-05

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: 44.41  E-value: 2.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  22 SGDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRK----TPAHQMGHvgFEKAYIHYRQDELDEAIKE 97
Cdd:COG4783   17 AGDYDEAEALLEKALELDPDNPEAFALLGEILLQLGDLDEAIVLLHEalelDPDEPEAR--LNLGLALLKAGDYDEALAL 94

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 193204364  98 LNTC---DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDD 139
Cdd:COG4783   95 LEKAlklDPEHPEAYLRLARAYRALGRPDEAIAALEKALELDPDD 139
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 79-199 3.54e-05

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: 44.03  E-value: 3.54e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  79 FEKAYIHYRQDELDEAIKELNTC---DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSD-ELRRANFLAVQAR 154
Cdd:COG4783    8 YALAQALLLAGDYDEAEALLEKAlelDPDNPEAFALLGEILLQLGDLDEAIVLLHEALELDPDEPEaRLNLGLALLKAGD 87

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 193204364 155 L-EAQGV-KQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALK 199
Cdd:COG4783   88 YdEALALlEKALKLDPEHPEAYLRLARAYRALGRPDEAIAALEKALE 134
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
79-250 1.93e-04

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 43.46  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  79 FEKAYIHYRQDELDEAIKELNTC---DKDDVKALELKAQVFYKQENYQQAYDIYlyllknhsddsdelrranflavqarl 155
Cdd:COG0457   12 NNLGLAYRRLGRYEEAIEDYEKAlelDPDDAEALYNLGLAYLRLGRYEEALADY-------------------------- 65

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 156 eaqgvKQAVAETEDSYSQLYNRACVEIEAEKLPQALESLEKALKtcrksfededreedeIEEELDSIRVQKAYVLQRMGQ 235
Cdd:COG0457   66 -----EQALELDPDDAEALNNLGLALQALGRYEEALEDYDKALE---------------LDPDDAEALYNLGLALLELGR 125

                        170
                 ....*....|....*
gi 193204364 236 KAEALAIYEKVQAAN 250
Cdd:COG0457  126 YDEAIEAYERALELD 140
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 27-150 7.72e-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: 39.99  E-value: 7.72e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  27 KALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALELIRK----TPAHQMGHVGFekAYIHYRQDELDEAIKELNTC- 101
Cdd:COG4235    1 EAIARLRQALAANPNDAEGWLLLGRAYLRLGRYDEALAAYEKalrlDPDNADALLDL--AEALLAAGDTEEAEELLERAl 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 193204364 102 --DKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSDDSDELRRANFLA 150
Cdd:COG4235   79 alDPDNPEALYLLGLAAFQQGDYAEAIAAWQKLLALLPADAPARLLEASIA 129
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 22-417 1.54e-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: 41.61  E-value: 1.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   22 SGDYQKALTSANKLIRKYPKETFAFKCKLVAQIQLSQYADALE----LIRKTPAHQMGHVgfEKAYIHYRQDELDEAIKE 97
Cdd:TIGR02917 580 KGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSsfkkLLALQPDSALALL--LLADAYAVMKNYAKAITS 657

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364   98 LN---TCDKDDVKALELKAQVFYKQENYQQAYDIYLYLLKNHSddsdelrranflavqarLEAQGVKQAvaetedsysql 174
Cdd:TIGR02917 658 LKralELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-----------------KAALGFELE----------- 709

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  175 ynrACVEIEAEKLPQALESLEKALKTCRKSfededreedeieeeldSIRVQKAYVLQRMGQKAEALAIYEKVQAaNHPds 254
Cdd:TIGR02917 710 ---GDLYLRQKDYPAAIQAYRKALKRAPSS----------------QNAIKLHRALLASGNTAEAVKTLEAWLK-THP-- 767

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  255 svkatitNNIPAASSDFALPESRKRFKAALQIDQTKLTRRQRLTLMLNNaLVLLLSNQREPckRALEELVAKFGSSKDVA 334
Cdd:TIGR02917 768 -------NDAVLRTALAELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNN-LAWLYLELKDP--RALEYAERALKLAPNIP 837

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364  335 LIEATL---HFKMGDAEAALKVLagsdleqslarlhvlLNA-GRLPEAVgAIRdlpisgklgasSLLTSTLIAADSRDEA 410
Cdd:TIGR02917 838 AILDTLgwlLVEKGEADRALPLL---------------RKAvNIAPEAA-AIR-----------YHLALALLATGRKAEA 890


                  ....*..
gi 193204364  411 VKELVAA 417
Cdd:TIGR02917 891 RKELDKL 897
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 304-484 6.82e-03

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: 38.94  E-value: 6.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 304 ALVLLLSNQREPCKRALEELVAKFGSSKDVALIEATLHFKMGDAEAALKVLAgSDLEQSLARLHVLLNAGRLpeavgair 383
Cdd:COG2956   15 GLNYLLNGQPDKAIDLLEEALELDPETVEAHLALGNLYRRRGEYDRAIRIHQ-KLLERDPDRAEALLELAQD-------- 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193204364 384 dlpisgklgasslltstLIAADSRDEAVKELVAASTAKNQTPEAlksiLEDLVEVEQQRGNETAATKHLEKLVEKFPEDL 463
Cdd:COG2956   86 -----------------YLKAGLLDRAEELLEKLLELDPDDAEA----LRLLAEIYEQEGDWEKAIEVLERLLKLGPENA 144

                        170       180
                 ....*....|....*....|..
gi 193204364 464 QLQCRLVGAYSKT-DPKKAESL 484
Cdd:COG2956  145 HAYCELAELYLEQgDYDEAIEA 166
 
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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