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Conserved domains on  [gi|489533887|ref|WP_003438617|]
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tetratricopeptide repeat protein [Clostridioides difficile]

Protein Classification

tol-pal system YbgF family protein( domain architecture ID 1004690)

tol-pal system YbgF family protein is a tetratricopeptide repeat-containing protein that interacts with TolA; similar to Pseudomonas putida cell division coordinator CpoB that mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division.

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 355-453 1.59e-14

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: 69.64  E-value: 1.59e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 355 KNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYtKNDQYYDDSYYELGMLYYDNGDL 434
Cdd:COG1729    5 KAGDYDEAIAAFKAFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRY-PDSPKAPDALLKLGLSYLELGDY 83

                         90
                 ....*....|....*....
gi 489533887 435 KNAQQTFYSLRSEVPDSMY 453
Cdd:COG1729   84 DKARATLEELIKKYPDSEA 102
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 286-342 2.33e-04

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


:

Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 43.28  E-value: 2.33e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 489533887 286 QSKKRIENLNNQISSKEEKLSETDKKLGETSKKLEKTNKELNEVKNKEPEREITVAD 342
Cdd:COG3883   34 AAQAELDALQAELEELNEEYNELQAELEALQAEIDKLQAEIAEAEAEIEERREELGE 90
 
Name Accession Description Interval E-value
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 355-453 1.59e-14

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: 69.64  E-value: 1.59e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 355 KNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYtKNDQYYDDSYYELGMLYYDNGDL 434
Cdd:COG1729    5 KAGDYDEAIAAFKAFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRY-PDSPKAPDALLKLGLSYLELGDY 83

                         90
                 ....*....|....*....
gi 489533887 435 KNAQQTFYSLRSEVPDSMY 453
Cdd:COG1729   84 DKARATLEELIKKYPDSEA 102
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 344-451 4.78e-07

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: 48.43  E-value: 4.78e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887  344 EDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQYyDDSYYE 423
Cdd:TIGR02795   1 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGDYADAAKAFLAVVKKYPKSPKA-PDALLK 79

                          90       100
                  ....*....|....*....|....*...
gi 489533887  424 LGMLYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:TIGR02795  80 LGMSLQELGDKEKAKATLQQVIKRYPGS 107
PRK10803 PRK10803
tol-pal system protein YbgF; Provisional
 342-451 6.78e-05

tol-pal system protein YbgF; Provisional


Pssm-ID: 182745 [Multi-domain]  Cd Length: 263  Bit Score: 44.40  E-value: 6.78e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 342 DEEDLYYQALNLKKNK-EYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNdQYYDDS 420
Cdd:PRK10803 141 DANTDYNAAIALVQDKsRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKS-PKAADA 219

                         90       100       110
                 ....*....|....*....|....*....|.
gi 489533887 421 YYELGMLYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:PRK10803 220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYPGT 250
BamD cd15830
BamD lipoprotein, a component of the beta-barrel assembly machinery; BamD, also called YfiO, ...
 343-465 6.82e-05

BamD lipoprotein, a component of the beta-barrel assembly machinery; BamD, also called YfiO, is part of the beta-barrel assembly machinery (BAM), which is essential for the folding and insertion of outer membrane proteins (OMPs) in the OM of Gram-negative bacteria. Transmembrane OMPs carry out important functions including nutrient and waste management, cell adhesion, and structural roles. The BAM complex is composed of the beta-barrel OMP BamA (also called Omp85/YaeT) and four lipoproteins BamBCDE. BamD is the only BAM lipoprotein required for viability. Both BamA and BamD are broadly distributed in Gram-negative bacteria, and may constitute the core of the BAM complex. BamD contains five Tetratricopeptide repeats (TPRs). The three TPRs at the N-terminus may participate in interaction with substrates, while the two TPRs in the C-terminus may be involved in binding with other BAM components.


Pssm-ID: 276939 [Multi-domain]  Cd Length: 213  Bit Score: 43.78  E-value: 6.82e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 343 EEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQyYDDSYY 422
Cdd:cd15830    3 AQELYEKAQTALQKGNYDGAIKYLEALDSRYPFGPYAEQAQLDLIYAYYKNADYELALASAERFIRLYPRHPN-IDYVYY 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489533887 423 ELGMLYY------------------DNGDLKNAQQTFYSLRSEVPDSMY------NNSKIKEILSEK 465
Cdd:cd15830   82 MRGLSNYkldrsflqrffpidrsdrDQSYAREAFQDFKDLIQRYPNSEYatdakqRMIYLRNRLAEH 148
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 286-342 2.33e-04

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 43.28  E-value: 2.33e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 489533887 286 QSKKRIENLNNQISSKEEKLSETDKKLGETSKKLEKTNKELNEVKNKEPEREITVAD 342
Cdd:COG3883   34 AAQAELDALQAELEELNEEYNELQAELEALQAEIDKLQAEIAEAEAEIEERREELGE 90
TPR_12 pfam13424
Tetratricopeptide repeat;
346-412 3.47e-03

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 36.21  E-value: 3.47e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489533887  346 LYYQALNLKKNKEYEKAIDNFKSVV-----SSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTK 412
Cdd:pfam13424   6 LNNLAAVLRRLGRYDEALELLEKALeiarrLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
 
Name Accession Description Interval E-value
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 355-453 1.59e-14

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: 69.64  E-value: 1.59e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 355 KNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYtKNDQYYDDSYYELGMLYYDNGDL 434
Cdd:COG1729    5 KAGDYDEAIAAFKAFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRY-PDSPKAPDALLKLGLSYLELGDY 83

                         90
                 ....*....|....*....
gi 489533887 435 KNAQQTFYSLRSEVPDSMY 453
Cdd:COG1729   84 DKARATLEELIKKYPDSEA 102
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 347-451 2.24e-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: 52.04  E-value: 2.24e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 347 YYQALNLKKNKEYEKAIDNFKSVVssgKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYIntytKNDQYYDDSYYELGM 426
Cdd:COG2956   12 YFKGLNYLLNGQPDKAIDLLEEAL---ELDPETVEAHLALGNLYRRRGEYDRAIRIHQKLL----ERDPDRAEALLELAQ 84

                         90       100
                 ....*....|....*....|....*
gi 489533887 427 LYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:COG2956   85 DYLKAGLLDRAEELLEKLLELDPDD 109
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 346-410 3.13e-07

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


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 48.83  E-value: 3.13e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489533887 346 LYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTY 410
Cdd:COG1729   33 LYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPKAPDALLKLGLSYLELGDYDKARATLEELIKKY 97
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 342-453 3.51e-07

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


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 51.42  E-value: 3.51e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 342 DEEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTkNDQYYDDSY 421
Cdd:COG4105   31 DAEELYEEAKEALEKGDYEKAIKLFEELEPRYPGSPYAEQAQLMLAYAYYKQGDYEEAIAAADRFIKLYP-NSPNADYAY 109

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489533887 422 YELGMLYY--------DNGDLKNAQQTFYSLRSEVPDSMY 453
Cdd:COG4105  110 YLRGLSYYeqspdsdrDQTSTRKAIEAFQELINRYPDSEY 149
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 344-451 4.78e-07

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: 48.43  E-value: 4.78e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887  344 EDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQYyDDSYYE 423
Cdd:TIGR02795   1 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGDYADAAKAFLAVVKKYPKSPKA-PDALLK 79

                          90       100
                  ....*....|....*....|....*...
gi 489533887  424 LGMLYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:TIGR02795  80 LGMSLQELGDKEKAKATLQQVIKRYPGS 107
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 342-441 2.74e-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: 48.96  E-value: 2.74e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 342 DEEDLYYQ-ALNLKKNKEYEKAIDNFKSVVssgKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQYYdds 420
Cdd:COG2956   74 DRAEALLElAQDYLKAGLLDRAEELLEKLL---ELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAY--- 147

                         90       100
                 ....*....|....*....|.
gi 489533887 421 yYELGMLYYDNGDLKNAQQTF 441
Cdd:COG2956  148 -CELAELYLEQGDYDEAIEAL 167
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 291-441 1.20e-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: 47.03  E-value: 1.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 291 IENLNNQISSKEEKLsETDKKLGET---SKKLEKTNKELNEVKNKEPEreitvaDEEDLYYQALNLKKNKEYEKAIDNFK 367
Cdd:COG2956   62 IRIHQKLLERDPDRA-EALLELAQDylkAGLLDRAEELLEKLLELDPD------DAEALRLLAEIYEQEGDWEKAIEVLE 134

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489533887 368 SVVSSGKTKKYISesiYQLAITNKLLGNKDEAIKYYKKYINTytknDQYYDDSYYELGMLYYDNGDLKNAQQTF 441
Cdd:COG2956  135 RLLKLGPENAHAY---CELAELYLEQGDYDEAIEALEKALKL----DPDCARALLLLAELYLEQGDYEEAIAAL 201
OM_YfiO TIGR03302
outer membrane assembly lipoprotein YfiO; Members of this protein family include YfiO, a ...
 330-453 1.24e-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: 46.39  E-value: 1.24e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887  330 KNKEPEREITVADEEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINT 409
Cdd:TIGR03302  20 KKKKEADPVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL 99

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 489533887  410 YTkNDQYYDDSYYELGMLYYD-----NGDLKNAQQTFYSLRSEV---PDSMY 453
Cdd:TIGR03302 100 HP-NHPDADYAYYLRGLSNYNqidrvDRDQTAAREAFEAFQELIrryPNSEY 150
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 316-451 1.51e-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: 44.80  E-value: 1.51e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 316 SKKLEKTNKELNEVKNKEPEreitvaDEEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKkyiSESIYQLAITNKLLGN 395
Cdd:COG4783   17 AGDYDEAEALLEKALELDPD------NPEAFALLGEILLQLGDLDEAIVLLHEALELDPDE---PEARLNLGLALLKAGD 87

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489533887 396 KDEAIKYYKKYIntytKNDQYYDDSYYELGMLYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:COG4783   88 YDEALALLEKAL----KLDPEHPEAYLRLARAYRALGRPDEAIAALEKALELDPDD 139
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 340-441 1.96e-05

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: 44.57  E-value: 1.96e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 340 VADEEDLYYQALNLKKNKEYEKAIDNFKSVVssgKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYIntytKNDQYYDD 419
Cdd:COG5010   51 AKAFAIESPSDNLYNKLGDFEESLALLEQAL---QLDPNNPELYYNLALLYSRSGDKDEAKEYYEKAL----ALSPDNPN 123

                         90       100
                 ....*....|....*....|..
gi 489533887 420 SYYELGMLYYDNGDLKNAQQTF 441
Cdd:COG5010  124 AYSNLAALLLSLGQDDEAKAAL 145
PRK10803 PRK10803
tol-pal system protein YbgF; Provisional
 342-451 6.78e-05

tol-pal system protein YbgF; Provisional


Pssm-ID: 182745 [Multi-domain]  Cd Length: 263  Bit Score: 44.40  E-value: 6.78e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 342 DEEDLYYQALNLKKNK-EYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNdQYYDDS 420
Cdd:PRK10803 141 DANTDYNAAIALVQDKsRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKS-PKAADA 219

                         90       100       110
                 ....*....|....*....|....*....|.
gi 489533887 421 YYELGMLYYDNGDLKNAQQTFYSLRSEVPDS 451
Cdd:PRK10803 220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYPGT 250
BamD cd15830
BamD lipoprotein, a component of the beta-barrel assembly machinery; BamD, also called YfiO, ...
 343-465 6.82e-05

BamD lipoprotein, a component of the beta-barrel assembly machinery; BamD, also called YfiO, is part of the beta-barrel assembly machinery (BAM), which is essential for the folding and insertion of outer membrane proteins (OMPs) in the OM of Gram-negative bacteria. Transmembrane OMPs carry out important functions including nutrient and waste management, cell adhesion, and structural roles. The BAM complex is composed of the beta-barrel OMP BamA (also called Omp85/YaeT) and four lipoproteins BamBCDE. BamD is the only BAM lipoprotein required for viability. Both BamA and BamD are broadly distributed in Gram-negative bacteria, and may constitute the core of the BAM complex. BamD contains five Tetratricopeptide repeats (TPRs). The three TPRs at the N-terminus may participate in interaction with substrates, while the two TPRs in the C-terminus may be involved in binding with other BAM components.


Pssm-ID: 276939 [Multi-domain]  Cd Length: 213  Bit Score: 43.78  E-value: 6.82e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 343 EEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQyYDDSYY 422
Cdd:cd15830    3 AQELYEKAQTALQKGNYDGAIKYLEALDSRYPFGPYAEQAQLDLIYAYYKNADYELALASAERFIRLYPRHPN-IDYVYY 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489533887 423 ELGMLYY------------------DNGDLKNAQQTFYSLRSEVPDSMY------NNSKIKEILSEK 465
Cdd:cd15830   82 MRGLSNYkldrsflqrffpidrsdrDQSYAREAFQDFKDLIQRYPNSEYatdakqRMIYLRNRLAEH 148
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
337-454 8.51e-05

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 43.84  E-value: 8.51e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 337 EITVADEEDLYYQALNLKKNKEYEKAIDNFKSVVssgKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYIntytKNDQY 416
Cdd:COG0457    2 ELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKAL---ELDPDDAEALYNLGLAYLRLGRYEEALADYEQAL----ELDPD 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 489533887 417 YDDSYYELGMLYYDNGDLKNAQQTFY---SLRSEVPDSMYN 454
Cdd:COG0457   75 DAEALNNLGLALQALGRYEEALEDYDkalELDPDDAEALYN 115
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
337-441 1.05e-04

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 43.84  E-value: 1.05e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 337 EITVADEEDLYYQALNLKKNKEYEKAIDNFKSVVssgKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYIntytKNDQY 416
Cdd:COG0457   70 ELDPDDAEALNNLGLALQALGRYEEALEDYDKAL---ELDPDDAEALYNLGLALLELGRYDEAIEAYERAL----ELDPD 142

                         90       100
                 ....*....|....*....|....*
gi 489533887 417 YDDSYYELGMLYYDNGDLKNAQQTF 441
Cdd:COG0457  143 DADALYNLGIALEKLGRYEEALELL 167
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 286-342 2.33e-04

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 43.28  E-value: 2.33e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 489533887 286 QSKKRIENLNNQISSKEEKLSETDKKLGETSKKLEKTNKELNEVKNKEPEREITVAD 342
Cdd:COG3883   34 AAQAELDALQAELEELNEEYNELQAELEALQAEIDKLQAEIAEAEAEIEERREELGE 90
BamD COG4105
Outer membrane protein assembly factor BamD, BamD/ComL family [Cell wall/membrane/envelope ...
 316-424 4.97e-04

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


Pssm-ID: 443281 [Multi-domain]  Cd Length: 254  Bit Score: 41.79  E-value: 4.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 316 SKKLEKTNKELNEVKNKEPEREITVADeedlYYQalnlkKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGN 395
Cdd:COG4105  147 SEYAEDAKKRIDELRDKLARKELEVAR----YYL-----KRGAYVAAINRFQNVLEDYPDTPAVEEALYLLVEAYYALGR 217

                         90       100
                 ....*....|....*....|....*....
gi 489533887 396 KDEAIKYYKKYINTYtKNDQYYDDSYYEL 424
Cdd:COG4105  218 YDEAQDAAAVLGKNY-PDSPYLKDAEKLL 245
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 342-453 7.31e-04

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: 41.25  E-value: 7.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887 342 DEEDLYYQALNL-KKNKEYEKAIDNFKSVVSSGKTKKYIsesIYQLAITNKLLGNKDEAIKYYKKYINTytknDQYYDDS 420
Cdd:COG2956   40 ETVEAHLALGNLyRRRGEYDRAIRIHQKLLERDPDRAEA---LLELAQDYLKAGLLDRAEELLEKLLEL----DPDDAEA 112

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489533887 421 YYELGMLYYDNGDLKNAQQTFYSLRSEVPDSMY 453
Cdd:COG2956  113 LRLLAEIYEQEGDWEKAIEVLERLLKLGPENAH 145
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 284-344 2.24e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 40.20  E-value: 2.24e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489533887 284 LIQSKKRIENLNNQISSKEEKLSETDKKLGETSKKLEKTNKELNEVKNK--EPEREITVADEE 344
Cdd:COG3883   18 IQAKQKELSELQAELEAAQAELDALQAELEELNEEYNELQAELEALQAEidKLQAEIAEAEAE 80
TPR_12 pfam13424
Tetratricopeptide repeat;
346-412 3.47e-03

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 36.21  E-value: 3.47e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489533887  346 LYYQALNLKKNKEYEKAIDNFKSVV-----SSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYTK 412
Cdd:pfam13424   6 LNNLAAVLRRLGRYDEALELLEKALeiarrLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
tol_pal_ybgF TIGR02795
tol-pal system protein YbgF; Members of this protein family are the product of one of seven ...
 381-464 4.27e-03

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: 36.87  E-value: 4.27e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887  381 ESIYQLAitNKLLGNKD--EAIKYYKKYINTYTkNDQYYDDSYYELGMLYYDNGDLKNAQQTF------YSLRSEVPDSM 452
Cdd:TIGR02795   1 EAYYDAA--LLVLKAGDyaDAIQAFQAFLKKYP-KSTYAPNAHYWLGEAYYAQGDYADAAKAFlavvkkYPKSPKAPDAL 77

                          90
                  ....*....|..
gi 489533887  453 YnnsKIKEILSE 464
Cdd:TIGR02795  78 L---KLGMSLQE 86
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 381-441 6.02e-03

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: 37.09  E-value: 6.02e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489533887 381 ESIYQLAITNKLLGNKDEAIKYYKKYINTYTKNDQYyddsYYELGMLYYDNGDLKNAQQTF 441
Cdd:COG4783    5 EALYALAQALLLAGDYDEAEALLEKALELDPDNPEA----FALLGEILLQLGDLDEAIVLL 61
YfiO pfam13525
Outer membrane lipoprotein; This outer membrane lipoprotein carries a TPR-like region towards ...
 341-453 7.63e-03

Outer membrane lipoprotein; This outer membrane lipoprotein carries a TPR-like region towards its N-terminal. YfiO in E.coli is one of three outer membrane lipoproteins that form a multicomponent YaeT complex in the outer membrane of Gram-negative bacteria that is involved in the targeting and folding of beta-barrel outer membrane proteins. YfiO is the only essential lipoprotein component of the complex. It is required for the proper assembly and/or targeting of outer membrane proteins to the outer membrane. Through its interactions with NlpB it maintains the functional integrity of the YaeT complex.


Pssm-ID: 433282 [Multi-domain]  Cd Length: 200  Bit Score: 37.69  E-value: 7.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489533887  341 ADEEDLYYQALNLKKNKEYEKAIDNFKSVVSSGKTKKYISESIYQLAITNKLLGNKDEAIKYYKKYINTYT--KNDQYyd 418
Cdd:pfam13525   2 DPASELYEAGQTALQKGDYGDAIKKLEALDNRYPFSPYAEQAQLDLIYAYYKDADYADALAAAERFLRLYPthPNIDY-- 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 489533887  419 dSYYELGMLYYDNG--------DLKNAQQT---FYSLRSEVPDSMY 453
Cdd:pfam13525  80 -VYYMRGLSNFAQDrdffrsdrDPESARQAfedFATLIRKYPDSEY 124
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 393-454 8.49e-03

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


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 36.86  E-value: 8.49e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489533887 393 LGNKDEAIKYYKKYIntytKNDQYYDDSYYELGMLYYDNGDLKNAQQTF---YSLRSEVPDSMYN 454
Cdd:COG5010   67 LGDFEESLALLEQAL----QLDPNNPELYYNLALLYSRSGDKDEAKEYYekaLALSPDNPNAYSN 127
 
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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