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Conserved domains on  [gi|640581775|ref|WP_025011957|]
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MULTISPECIES: tol-pal system protein YbgF [Shewanella]

Protein Classification

tol-pal system YbgF family protein( domain architecture ID 1009465)

tol-pal system YbgF family protein is a tetratricopeptide repeat-containing protein that interacts with TolA

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10803 super family cl32582
tol-pal system protein YbgF; Provisional
 9-240 1.36e-57

tol-pal system protein YbgF; Provisional


The actual alignment was detected with superfamily member PRK10803:

Pssm-ID: 182745 [Multi-domain]  Cd Length: 263  Bit Score: 183.85  E-value: 1.36e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775   9 AMLLGTGVAYAA--PAPVEDIGGGSSEDRIARLERIIKARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQR 86
Cdd:PRK10803  13 SLLVGVAAPWAAfaQAPISSVGSGSVEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQK 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  87 QLYDEIANLQSKPAAPAVSQTPSNVVASSSLSETDS-----------------YQRAVDLVLKERQYDAAIPAFRDFIKQ 149
Cdd:PRK10803  93 QIYLQIDSLSSGGAAAQSTSGDQSGAAASATPAADAgtanagapvqsgdantdYNAAIALVQDKSRQDDAIVAFQNFVKK 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 150 YPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIAEKTGDKTAAKNYYQQVVKQYANSAA 229
Cdd:PRK10803 173 YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDG 252

                        250
                 ....*....|.
gi 640581775 230 ARIAQQQLAAI 240
Cdd:PRK10803 253 AKQAQKRLNAM 263
 
Name Accession Description Interval E-value
PRK10803 PRK10803
tol-pal system protein YbgF; Provisional
 9-240 1.36e-57

tol-pal system protein YbgF; Provisional


Pssm-ID: 182745 [Multi-domain]  Cd Length: 263  Bit Score: 183.85  E-value: 1.36e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775   9 AMLLGTGVAYAA--PAPVEDIGGGSSEDRIARLERIIKARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQR 86
Cdd:PRK10803  13 SLLVGVAAPWAAfaQAPISSVGSGSVEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQK 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  87 QLYDEIANLQSKPAAPAVSQTPSNVVASSSLSETDS-----------------YQRAVDLVLKERQYDAAIPAFRDFIKQ 149
Cdd:PRK10803  93 QIYLQIDSLSSGGAAAQSTSGDQSGAAASATPAADAgtanagapvqsgdantdYNAAIALVQDKSRQDDAIVAFQNFVKK 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 150 YPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIAEKTGDKTAAKNYYQQVVKQYANSAA 229
Cdd:PRK10803 173 YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDG 252

                        250
                 ....*....|.
gi 640581775 230 ARIAQQQLAAI 240
Cdd:PRK10803 253 AKQAQKRLNAM 263
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 123-237 4.11e-42

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: 139.34  E-value: 4.11e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  123 YQRAVDLVLKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGL 202
Cdd:TIGR02795   3 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGDYADAAKAFLAVVKKYPKSPKAPDALLKLGM 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 640581775  203 IAEKTGDKTAAKNYYQQVVKQYANSAAARIAQQQL 237
Cdd:TIGR02795  83 SLQELGDKEKAKATLQQVIKRYPGSSAAKLAQKRL 117
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 131-240 6.39e-30

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: 107.77  E-value: 6.39e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIAEKTGDK 210
Cdd:COG1729    4 LKAGDYDEAIAAFKAFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPKAPDALLKLGLSYLELGDY 83

                         90       100       110
                 ....*....|....*....|....*....|
gi 640581775 211 TAAKNYYQQVVKQYANSAAARIAQQQLAAI 240
Cdd:COG1729   84 DKARATLEELIKKYPDSEAAKEARARLARL 113
TolA_bind_tri pfam16331
TolA binding protein trimerization; This is the N-terminal domain of the YbgF protein. YbgF ...
 31-102 6.18e-22

TolA binding protein trimerization; This is the N-terminal domain of the YbgF protein. YbgF binds to TolA. This domain mediates trimerization.


Pssm-ID: 435282 [Multi-domain]  Cd Length: 72  Bit Score: 85.71  E-value: 6.18e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 640581775   31 SSEDRIARLERIIKARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQRQLYDEIANLQSKPAAP 102
Cdd:pfam16331   1 SLEDRLARLERILEARNQGLLELQQQLDDLQQEVRELRGQIEELQYQLEQLQERQRDLYLDLDERLRQLESA 72
 
Name Accession Description Interval E-value
PRK10803 PRK10803
tol-pal system protein YbgF; Provisional
 9-240 1.36e-57

tol-pal system protein YbgF; Provisional


Pssm-ID: 182745 [Multi-domain]  Cd Length: 263  Bit Score: 183.85  E-value: 1.36e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775   9 AMLLGTGVAYAA--PAPVEDIGGGSSEDRIARLERIIKARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQR 86
Cdd:PRK10803  13 SLLVGVAAPWAAfaQAPISSVGSGSVEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQK 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  87 QLYDEIANLQSKPAAPAVSQTPSNVVASSSLSETDS-----------------YQRAVDLVLKERQYDAAIPAFRDFIKQ 149
Cdd:PRK10803  93 QIYLQIDSLSSGGAAAQSTSGDQSGAAASATPAADAgtanagapvqsgdantdYNAAIALVQDKSRQDDAIVAFQNFVKK 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 150 YPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIAEKTGDKTAAKNYYQQVVKQYANSAA 229
Cdd:PRK10803 173 YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDG 252

                        250
                 ....*....|.
gi 640581775 230 ARIAQQQLAAI 240
Cdd:PRK10803 253 AKQAQKRLNAM 263
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 123-237 4.11e-42

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: 139.34  E-value: 4.11e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  123 YQRAVDLVLKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGL 202
Cdd:TIGR02795   3 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGDYADAAKAFLAVVKKYPKSPKAPDALLKLGM 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 640581775  203 IAEKTGDKTAAKNYYQQVVKQYANSAAARIAQQQL 237
Cdd:TIGR02795  83 SLQELGDKEKAKATLQQVIKRYPGSSAAKLAQKRL 117
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 131-240 6.39e-30

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: 107.77  E-value: 6.39e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIAEKTGDK 210
Cdd:COG1729    4 LKAGDYDEAIAAFKAFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPKAPDALLKLGLSYLELGDY 83

                         90       100       110
                 ....*....|....*....|....*....|
gi 640581775 211 TAAKNYYQQVVKQYANSAAARIAQQQLAAI 240
Cdd:COG1729   84 DKARATLEELIKKYPDSEAAKEARARLARL 113
TolA_bind_tri pfam16331
TolA binding protein trimerization; This is the N-terminal domain of the YbgF protein. YbgF ...
 31-102 6.18e-22

TolA binding protein trimerization; This is the N-terminal domain of the YbgF protein. YbgF binds to TolA. This domain mediates trimerization.


Pssm-ID: 435282 [Multi-domain]  Cd Length: 72  Bit Score: 85.71  E-value: 6.18e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 640581775   31 SSEDRIARLERIIKARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQRQLYDEIANLQSKPAAP 102
Cdd:pfam16331   1 SLEDRLARLERILEARNQGLLELQQQLDDLQQEVRELRGQIEELQYQLEQLQERQRDLYLDLDERLRQLESA 72
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 139-241 2.28e-08

Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 53.35  E-value: 2.28e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 139 AIPAFRDFIKQYPNSGFADNANYWL--------------GQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGLIA 204
Cdd:COG4105  133 AIEAFQELINRYPDSEYAEDAKKRIdelrdklarkelevARYYLKRGAYVAAINRFQNVLEDYPDTPAVEEALYLLVEAY 212

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 640581775 205 EKTGDKTAAKNYYQQVVKQYANSAAARIAQQQLAAIK 241
Cdd:COG4105  213 YALGRYDEAQDAAAVLGKNYPDSPYLKDAEKLLKKIG 249
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 132-231 4.48e-08

Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 52.19  E-value: 4.48e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 132 KERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAE--------AKTAFANVVDNFKESGKRADSLVKLGLI 203
Cdd:COG4105   81 KQGDYEEAIAAADRFIKLYPNSPNADYAYYLRGLSYYEQSPDSDrdqtstrkAIEAFQELINRYPDSEYAEDAKKRIDEL 160

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 640581775 204 AE--------------KTGDKTAAKNYYQQVVKQYANSAAAR 231
Cdd:COG4105  161 RDklarkelevaryylKRGAYVAAINRFQNVLEDYPDTPAVE 202
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 123-240 4.83e-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: 49.34  E-value: 4.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 123 YQRAVDLVLKErQYDAAIPAFRDFIKQYPNSgfaDNANYWLGQLLYNKNEFAEAKTAFANVVDNfkeSGKRADSLVKLGL 202
Cdd:COG2956   12 YFKGLNYLLNG-QPDKAIDLLEEALELDPET---VEAHLALGNLYRRRGEYDRAIRIHQKLLER---DPDRAEALLELAQ 84

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 640581775 203 IAEKTGDKTAAKNYYQQVVKQYANSAAARiaqQQLAAI 240
Cdd:COG2956   85 DYLKAGLLDRAEELLEKLLELDPDDAEAL---RLLAEI 119
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 123-241 1.14e-06

Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 48.34  E-value: 1.14e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 123 YQRAVDLvLKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRADSLVKLGL 202
Cdd:COG4105   36 YEEAKEA-LEKGDYEKAIKLFEELEPRYPGSPYAEQAQLMLAYAYYKQGDYEEAIAAADRFIKLYPNSPNADYAYYLRGL 114

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 640581775 203 IAEKTGDKT--------AAKNYYQQVVKQYANSAAARIAQQQLAAIK 241
Cdd:COG4105  115 SYYEQSPDSdrdqtstrKAIEAFQELINRYPDSEYAEDAKKRIDELR 161
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 45-240 3.97e-06

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 47.30  E-value: 3.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  45 ARQQAEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQRQLYDEIANLQSKPAAPAVSQTPSNVVASSSLSETDSYQ 124
Cdd:COG3914    4 AALLALAALAAAALLAAAAAAELALAAELEAAALAAALGLALLLLAALAEAAAAALLALAAGEAAAAAAALLLLAALLEL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 125 RAVDLvLKERQYDAAIPAFRDFIKQYPNSGFADNAnywLGQLLYNKNEFAEAKTAFANVVdnfKESGKRADSLVKLGLIA 204
Cdd:COG3914   84 AALLL-QALGRYEEALALYRRALALNPDNAEALFN---LGNLLLALGRLEEALAALRRAL---ALNPDFAEAYLNLGEAL 156

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 640581775 205 EKTGDKTAAKNYYQQVVKQYANSAAariAQQQLAAI 240
Cdd:COG3914  157 RRLGRLEEAIAALRRALELDPDNAE---ALNNLGNA 189
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 121-239 6.28e-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: 46.26  E-value: 6.28e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 121 DSYQRAVDLVLKERQYDAAIPAFRDFIKQYPnsgfaDNANYW--LGQLLYNKNEFAEAKTAFANVVDNFKESgkrADSLV 198
Cdd:COG2956  111 EALRLLAEIYEQEGDWEKAIEVLERLLKLGP-----ENAHAYceLAELYLEQGDYDEAIEALEKALKLDPDC---ARALL 182

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 640581775 199 KLGLIAEKTGDKTAAKNYYQQVVKQYANSAAARIAQQQLAA 239
Cdd:COG2956  183 LLAELYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYE 223
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 131-190 6.82e-06

Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 46.03  E-value: 6.82e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKES 190
Cdd:COG4105  176 LKRGAYVAAINRFQNVLEDYPDTPAVEEALYLLVEAYYALGRYDEAQDAAAVLGKNYPDS 235
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 131-240 1.10e-05

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: 43.84  E-value: 1.10e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPnsgfaDNANYW--LGQLLYNKNEFAEAKTAFANVVdnfKESGKRADSLVKLGLIAEKTG 208
Cdd:COG4235   28 LRLGRYDEALAAYEKALRLDP-----DNADALldLAEALLAAGDTEEAEELLERAL---ALDPDNPEALYLLGLAAFQQG 99

                         90       100       110
                 ....*....|....*....|....*....|..
gi 640581775 209 DKTAAKNYYQQVVKQYANSAAARIAQQQLAAI 240
Cdd:COG4235  100 DYAEAIAAWQKLLALLPADAPARLLEASIAEA 131
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 131-239 4.33e-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: 43.56  E-value: 4.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNsgfADNANYWLGQLLYNKNEFAEAKTAFANVVdnfKESGKRADSLVKLGLIAEKTGDK 210
Cdd:COG2956   87 LKAGLLDRAEELLEKLLELDPD---DAEALRLLAEIYEQEGDWEKAIEVLERLL---KLGPENAHAYCELAELYLEQGDY 160

                         90       100
                 ....*....|....*....|....*....
gi 640581775 211 TAAKNYYQQVVKQYANSAAARIAQQQLAA 239
Cdd:COG2956  161 DEAIEALEKALKLDPDCARALLLLAELYL 189
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 123-239 7.66e-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: 41.33  E-value: 7.66e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 123 YQRAVDLvLKERQYDAAIPAFRDFIKQYPNSGFAdnaNYWLGQLLYNKNEFAEAKTAFANVVDNFKESgkrADSLVKLGL 202
Cdd:COG4783    8 YALAQAL-LLAGDYDEAEALLEKALELDPDNPEA---FALLGEILLQLGDLDEAIVLLHEALELDPDE---PEARLNLGL 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 640581775 203 IAEKTGDKTAAKNYYQQVVKQYANSAAARIAQQQLAA 239
Cdd:COG4783   81 ALLKAGDYDEALALLEKALKLDPEHPEAYLRLARAYR 117
OM_YfiO TIGR03302
outer membrane assembly lipoprotein YfiO; Members of this protein family include YfiO, a ...
 132-231 8.05e-05

outer membrane assembly lipoprotein YfiO; Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795). [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 274513 [Multi-domain]  Cd Length: 235  Bit Score: 42.54  E-value: 8.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  132 KERQYDAAIPAFRDFIKQYPNSGFADNANYWLGqlLYNKNEF----------AEAKTAFANVVDNFKESGKRADSLVKLG 201
Cdd:TIGR03302  82 KSGDYAEAIAAADRFIRLHPNHPDADYAYYLRG--LSNYNQIdrvdrdqtaaREAFEAFQELIRRYPNSEYAPDAKKRMD 159

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 640581775  202 LI----AE----------KTGDKTAAKNYYQQVVKQYANSAAAR 231
Cdd:TIGR03302 160 YLrnrlAGkelyvarfylKRGAYVAAINRFQTVVENYPDTPATE 203
TPR_6 pfam13174
Tetratricopeptide repeat;
195-227 7.67e-04

Tetratricopeptide repeat;


Pssm-ID: 463800 [Multi-domain]  Cd Length: 33  Bit Score: 35.91  E-value: 7.67e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 640581775  195 DSLVKLGLIAEKTGDKTAAKNYYQQVVKQYANS 227
Cdd:pfam13174   1 DALLKLALAYLELGDTDEAKEALERLIKKYPDS 33
TPR_16 pfam13432
Tetratricopeptide repeat; This family is found predominantly at the C-terminus of ...
 125-181 1.03e-03

Tetratricopeptide repeat; This family is found predominantly at the C-terminus of transglutaminase enzyme core regions.


Pssm-ID: 433202 [Multi-domain]  Cd Length: 68  Bit Score: 36.55  E-value: 1.03e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 640581775  125 RAVDLVLKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFA 181
Cdd:pfam13432   2 ALARAALRAGDYDDAAAALEAALARFPESPDAAAALLLLGLAALRQGRLAEAAAAYR 58
YfgM COG2976
Putative negative regulator of RcsB-dependent stress response, UPF0070 family [Signal ...
 121-231 1.17e-03

Putative negative regulator of RcsB-dependent stress response, UPF0070 family [Signal transduction mechanisms];


Pssm-ID: 442215 [Multi-domain]  Cd Length: 207  Bit Score: 38.68  E-value: 1.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 121 DSYQRAVDLVLKErQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESG--------- 191
Cdd:COG2976   55 ALYEQLLEALAAG-DAAAAAAAAEKLIDDYGGTAYAALAALLLAKAAVDAGDLDKAAAQLQWVLDNAKDPAlkalarlrl 133

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 640581775 192 -------KRADSLVKL-----------------GLIAEKTGDKTAAKNYYQQVVKQYANSAAAR 231
Cdd:COG2976  134 arvllaqKKYDEALATldavkpeafaalyaelrGDILLAQGDKAEARAAYQKALAALPEDAPLR 197
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 138-231 1.19e-03

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: 38.06  E-value: 1.19e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 138 AAIPAFRDFIKQYPNSGfadNANYWLGQLLYNKNEFAEAKTAFANVVdnfKESGKRADSLVKLGLIAEKTGDKTAAKNYY 217
Cdd:COG4235    1 EAIARLRQALAANPNDA---EGWLLLGRAYLRLGRYDEALAAYEKAL---RLDPDNADALLDLAEALLAAGDTEEAEELL 74

                         90
                 ....*....|....
gi 640581775 218 QQVVKQYANSAAAR 231
Cdd:COG4235   75 ERALALDPDNPEAL 88
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 128-230 1.27e-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: 39.68  E-value: 1.27e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  128 DLVLKERQYDAAIPAFRDFIKQYPNSgfaDNANYWLGQLLYNKNEFAEAKTAfanvVDNFKESGKRADSLVKLGLIAEKT 207
Cdd:TIGR02917 711 DLYLRQKDYPAAIQAYRKALKRAPSS---QNAIKLHRALLASGNTAEAVKTL----EAWLKTHPNDAVLRTALAELYLAQ 783

                          90       100
                  ....*....|....*....|...
gi 640581775  208 GDKTAAKNYYQQVVKQYANSAAA 230
Cdd:TIGR02917 784 KDYDKAIKHYQTVVKKAPDNAVV 806
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 131-229 1.46e-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: 1.46e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNSGfadNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESgkrADSLVKLGLIAEKTGDK 210
Cdd:COG2956  155 LEQGDYDEAIEALEKALKLDPDCA---RALLLLAELYLEQGDYEEAIAALERALEQDPDY---LPALPRLAELYEKLGDP 228

                         90
                 ....*....|....*....
gi 640581775 211 TAAKNYYQQVVKQYANSAA 229
Cdd:COG2956  229 EEALELLRKALELDPSDDL 247
BRE1 pfam08647
BRE1 E3 ubiquitin ligase; BRE1 is an E3 ubiquitin ligase that has been shown to act as a ...
 31-96 1.86e-03

BRE1 E3 ubiquitin ligase; BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions.


Pssm-ID: 462547 [Multi-domain]  Cd Length: 95  Bit Score: 36.41  E-value: 1.86e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 640581775   31 SSEDRIARLER-IIKARQQaEFETMRRMDTLQQEVLELRGLTEQQNYQINQMLQRQRQLYDEIANLQ 96
Cdd:pfam08647  28 ILEEKKLRLEAeKAKADQK-YFAAMRSKDALENENKKLNTLLSKSSELIEQLKETEKEFVRKLKNLE 93
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
135-231 3.85e-03

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 37.68  E-value: 3.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 135 QYDAAIPAFRDFIKQYPNSGfadNANYWLGQLLYNKNEFAEAKTAFANVVdnfKESGKRADSLVKLGLIAEKTGDKTAAK 214
Cdd:COG0457   23 RYEEAIEDYEKALELDPDDA---EALYNLGLAYLRLGRYEEALADYEQAL---ELDPDDAEALNNLGLALQALGRYEEAL 96

                         90
                 ....*....|....*..
gi 640581775 215 NYYQQVVKQYANSAAAR 231
Cdd:COG0457   97 EDYDKALELDPDDAEAL 113
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 11-180 4.91e-03

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 37.67  E-value: 4.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  11 LLGTGVAYAAPAPVEDIGGGSSEDRIARLERIIKARQQAEFETMRRMD-----TLQQEVLELRGLTEQQNYQINQMLQRQ 85
Cdd:COG3914   46 LLLAALAEAAAAALLALAAGEAAAAAAALLLLAALLELAALLLQALGRyeealALYRRALALNPDNAEALFNLGNLLLAL 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  86 RQLYDEIANLQSkpaapAVSQTPSNVVASSSLSEtdsyqravdLVLKERQYDAAIPAFRDFIKQYPNSGfadNANYWLGQ 165
Cdd:COG3914  126 GRLEEALAALRR-----ALALNPDFAEAYLNLGE---------ALRRLGRLEEAIAALRRALELDPDNA---EALNNLGN 188

                        170
                 ....*....|....*
gi 640581775 166 LLYNKNEFAEAKTAF 180
Cdd:COG3914  189 ALQDLGRLEEAIAAY 203
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
131-226 7.40e-03

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 34.76  E-value: 7.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775 131 LKERQYDAAIPAFRDFIKQYPNSGfadNANYWLGQLLYNKNEFAEAKTAFANVvdnfKESGKRADSLVKLGLIAEKTGDK 210
Cdd:COG3063    3 LKLGDLEEAEEYYEKALELDPDNA---DALNNLGLLLLEQGRYDEAIALEKAL----KLDPNNAEALLNLAELLLELGDY 75

                         90
                 ....*....|....*.
gi 640581775 211 TAAKNYYQQVVKQYAN 226
Cdd:COG3063   76 DEALAYLERALELDPS 91
TPR_21 pfam09976
Tetratricopeptide repeat-like domain; This family resembles a single unit of a TPR repeat.
 121-204 8.72e-03

Tetratricopeptide repeat-like domain; This family resembles a single unit of a TPR repeat.


Pssm-ID: 430959 [Multi-domain]  Cd Length: 194  Bit Score: 36.02  E-value: 8.72e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 640581775  121 DSYQrAVDLVLKERQYDAAIPAFRDFIKQYPNSGFADNANYWLGQLLYNKNEFAEAKTAFANVVDNFKESGKRAdsLVKL 200
Cdd:pfam09976  41 ALYQ-QLLEAVAAGDAAKAQAAAAQLKDEYGGTGYAALAALLLAKAAVEAGDLAAAKAQLEWVADNAKDEALKA--LARL 117


                  ....
gi 640581775  201 GLIA 204
Cdd:pfam09976 118 RLAR 121
 
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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