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Conserved domains on  [gi|931550897|gb|KPL25677|]
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hypothetical protein AMJ75_00175 [Phycisphaerae bacterium SM1_79]

Protein Classification

TolB family protein( domain architecture ID 11435293)

TolB family protein with similarity to Tol-Pal system protein TolB that is part of the Tol-Pal system, which plays a role in outer membrane invagination during cell division and is important for maintaining outer membrane integrity

CATH:  2.120.10.30|3.40.50.10070
Gene Ontology:  GO:0005515|GO:0030288
PubMed:  9761825|19696740
SCOP:  4000514|4002720
TCDB:  2.C.1

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TolB COG0823
Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, ...
 37-98 2.24e-08

Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, secretion, and vesicular transport];


:

Pssm-ID: 440585 [Multi-domain]  Cd Length: 158  Bit Score: 53.52  E-value: 2.24e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897  37 PAWSPDCSKIAiLVSPRGDTPDkfaLFTYDIAADTHTLLdeVRADGILSAPSWSPDGKWIAY 98
Cdd:COG0823   36 PAWSPDGRRIA-FTSDRGGGPQ---IYVVDADGGEPRRL--TFGGGYNASPSWSPDGKRLAF 91
COG4946 super family cl27624
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 249-339 1.32e-04

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


The actual alignment was detected with superfamily member COG4946:

Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 45.03  E-value: 1.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931550897  249 PVLSHDGKWVAsYL--EDG-DTLIVARIDGGlskyfrldfdVESEVL-----SWLDGIFWSKDSNRLFVVAKDTTLHVVD 320
Cdd:COG4946   348 PAWSPDGKSIA-YFsdASGeYELYIAPADGS----------GEPKQLtlgdlGRVFNPVWSPDGKKIAFTDNRGRLWVVD 416

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 931550897  321 FATGTTE--------------------KWIA---PDPNHMNA 339
Cdd:COG4946   417 LASGKVRkvdtdgygdgisdlawspdsKWLAyskPGPNQLSQ 458
 
Name Accession Description Interval E-value
TolB COG0823
Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, ...
 37-98 2.24e-08

Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440585 [Multi-domain]  Cd Length: 158  Bit Score: 53.52  E-value: 2.24e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897  37 PAWSPDCSKIAiLVSPRGDTPDkfaLFTYDIAADTHTLLdeVRADGILSAPSWSPDGKWIAY 98
Cdd:COG0823   36 PAWSPDGRRIA-FTSDRGGGPQ---IYVVDADGGEPRRL--TFGGGYNASPSWSPDGKRLAF 91
propeller_TolB TIGR02800
tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB ...
 33-98 8.93e-08

tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB periplasmic protein of Gram-negative bacteria. TolB is part of the Tol-Pal (peptidoglycan-associated lipoprotein) multiprotein complex, comprising five envelope proteins, TolQ, TolR, TolA, TolB and Pal, which form two complexes. The TolQ, TolR and TolA inner-membrane proteins interact via their transmembrane domains. The {beta}-propeller domain of the periplasmic protein TolB is responsible for its interaction with Pal. TolB also interacts with the outer-membrane peptidoglycan-associated proteins Lpp and OmpA. TolA undergoes a conformational change in response to changes in the proton-motive force, and interacts with Pal in an energy-dependent manner. The C-terminal periplasmic domain of TolA also interacts with the N-terminal domain of TolB. The Tol-PAL system is required for bacterial outer membrane integrity. E. coli TolB is involved in the tonB-independent uptake of group A colicins (colicins A, E1, E2, E3 and K), and is necessary for the colicins to reach their respective targets after initial binding to the bacteria. It is also involved in uptake of filamentous DNA. Study of its structure suggest that the TolB protein might be involved in the recycling of peptidoglycan or in its covalent linking with lipoproteins. The Tol-Pal system is also implicated in pathogenesis of E. coli, Haemophilus ducreyi , Salmonella enterica and Vibrio cholerae, but the mechanism(s) is unclear. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274305 [Multi-domain]  Cd Length: 417  Bit Score: 54.59  E-value: 8.93e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 931550897   33 VVSPPAWSPDCSKIAILVSPRGDtPDkfaLFTYDiaADTHTLLDEVRADGILSAPSWSPDGKWIAY 98
Cdd:TIGR02800 235 MNGAPAFSPDGSKLAVSLSKDGN-PD---IYVMD--LDGKQLTRLTNGPGIDTEPSWSPDGKSIAF 294
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 249-339 1.32e-04

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 45.03  E-value: 1.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931550897  249 PVLSHDGKWVAsYL--EDG-DTLIVARIDGGlskyfrldfdVESEVL-----SWLDGIFWSKDSNRLFVVAKDTTLHVVD 320
Cdd:COG4946   348 PAWSPDGKSIA-YFsdASGeYELYIAPADGS----------GEPKQLtlgdlGRVFNPVWSPDGKKIAFTDNRGRLWVVD 416

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 931550897  321 FATGTTE--------------------KWIA---PDPNHMNA 339
Cdd:COG4946   417 LASGKVRkvdtdgygdgisdlawspdsKWLAyskPGPNQLSQ 458
tolB PRK01029
Tol-Pal system protein TolB;
37-98 4.58e-04

Tol-Pal system protein TolB;


Pssm-ID: 234889 [Multi-domain]  Cd Length: 428  Bit Score: 42.83  E-value: 4.58e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897  37 PAWSPDCSKIAiLVSPRGDTPdKFALFTYDIAADTHTLLDEVRADGilSAPSWSPDGKWIAY 98
Cdd:PRK01029 286 PSFSPDGTRLV-FVSNKDGRP-RIYIMQIDPEGQSPRLLTKKYRNS--SCPAWSPDGKKIAF 343
PD40 pfam07676
WD40-like Beta Propeller Repeat; This family appears to be related to the pfam00400 repeat. ...
 82-99 8.93e-03

WD40-like Beta Propeller Repeat; This family appears to be related to the pfam00400 repeat. This repeat corresponds to the RIVW repeat identified in cell surface proteins [Adindla et al. Comparative and Functional Genomics 2004; 5:2-16].


Pssm-ID: 429587 [Multi-domain]  Cd Length: 37  Bit Score: 34.03  E-value: 8.93e-03
                          10
                  ....*....|....*...
gi 931550897   82 GILSAPSWSPDGKWIAYY 99
Cdd:pfam07676   9 GNETAPSWSPDGKRLAFS 26
 
Name Accession Description Interval E-value
TolB COG0823
Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, ...
 37-98 2.24e-08

Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440585 [Multi-domain]  Cd Length: 158  Bit Score: 53.52  E-value: 2.24e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897  37 PAWSPDCSKIAiLVSPRGDTPDkfaLFTYDIAADTHTLLdeVRADGILSAPSWSPDGKWIAY 98
Cdd:COG0823   36 PAWSPDGRRIA-FTSDRGGGPQ---IYVVDADGGEPRRL--TFGGGYNASPSWSPDGKRLAF 91
TolB COG0823
Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, ...
 48-276 2.82e-08

Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440585 [Multi-domain]  Cd Length: 158  Bit Score: 53.14  E-value: 2.82e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931550897  48 ILVSPRGDTPDkfaLFTYDIAADTHTLLdeVRADGILSAPSWSPDGKWIAYYkveqppevtapsesdvaepnqlpnkvpv 127
Cdd:COG0823    2 AFTLSRDGNSD---IYVVDLDGGEPRRL--TNSPGIDTSPAWSPDGRRIAFT---------------------------- 48

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931550897 128 pADRERTTEtvaeflsednlmlpsfIWdileeksdetedpeafdvkliIVAPDGSDKRVLDTMKWigdeemravlAYVRP 207
Cdd:COG0823   49 -SDRGGGPQ----------------IY---------------------VVDADGGEPRRLTFGGG----------YNASP 80

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 931550897 208 VWSPDCKCLFYVRAFEGLFYVSSLELATGKTSAhILSSIGTPVLSHDGKWVA--SYLEDGDTLIVARIDGG 276
Cdd:COG0823   81 SWSPDGKRLAFVSRSDGRFDIYVLDLDGGAPRR-LTDGPGSPSWSPDGRRIVfsSDRGGRPDLYVVDLDGR 150
propeller_TolB TIGR02800
tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB ...
 33-98 8.93e-08

tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB periplasmic protein of Gram-negative bacteria. TolB is part of the Tol-Pal (peptidoglycan-associated lipoprotein) multiprotein complex, comprising five envelope proteins, TolQ, TolR, TolA, TolB and Pal, which form two complexes. The TolQ, TolR and TolA inner-membrane proteins interact via their transmembrane domains. The {beta}-propeller domain of the periplasmic protein TolB is responsible for its interaction with Pal. TolB also interacts with the outer-membrane peptidoglycan-associated proteins Lpp and OmpA. TolA undergoes a conformational change in response to changes in the proton-motive force, and interacts with Pal in an energy-dependent manner. The C-terminal periplasmic domain of TolA also interacts with the N-terminal domain of TolB. The Tol-PAL system is required for bacterial outer membrane integrity. E. coli TolB is involved in the tonB-independent uptake of group A colicins (colicins A, E1, E2, E3 and K), and is necessary for the colicins to reach their respective targets after initial binding to the bacteria. It is also involved in uptake of filamentous DNA. Study of its structure suggest that the TolB protein might be involved in the recycling of peptidoglycan or in its covalent linking with lipoproteins. The Tol-Pal system is also implicated in pathogenesis of E. coli, Haemophilus ducreyi , Salmonella enterica and Vibrio cholerae, but the mechanism(s) is unclear. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274305 [Multi-domain]  Cd Length: 417  Bit Score: 54.59  E-value: 8.93e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 931550897   33 VVSPPAWSPDCSKIAILVSPRGDtPDkfaLFTYDiaADTHTLLDEVRADGILSAPSWSPDGKWIAY 98
Cdd:TIGR02800 235 MNGAPAFSPDGSKLAVSLSKDGN-PD---IYVMD--LDGKQLTRLTNGPGIDTEPSWSPDGKSIAF 294
TolB COG0823
Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, ...
 35-98 3.52e-07

Periplasmic component TolB of the Tol biopolymer transport system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440585 [Multi-domain]  Cd Length: 158  Bit Score: 50.06  E-value: 3.52e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 931550897  35 SPPAWSPDCSKIAILVSPRGdtpdKFALFTYDIAADTHTLLdevrADGILSaPSWSPDGKWIAY 98
Cdd:COG0823   78 ASPSWSPDGKRLAFVSRSDG----RFDIYVLDLDGGAPRRL----TDGPGS-PSWSPDGRRIVF 132
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 37-98 1.20e-06

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 51.58  E-value: 1.20e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897   37 PAWSPDCSKIAIlvsprgdTPDKFALFTYDIAADTHTLLDEVRADGILSAPSWSPDGKWIAY 98
Cdd:COG4946   394 PVWSPDGKKIAF-------TDNRGRLWVVDLASGKVRKVDTDGYGDGISDLAWSPDSKWLAY 448
propeller_TolB TIGR02800
tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB ...
 37-98 2.36e-06

tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB periplasmic protein of Gram-negative bacteria. TolB is part of the Tol-Pal (peptidoglycan-associated lipoprotein) multiprotein complex, comprising five envelope proteins, TolQ, TolR, TolA, TolB and Pal, which form two complexes. The TolQ, TolR and TolA inner-membrane proteins interact via their transmembrane domains. The {beta}-propeller domain of the periplasmic protein TolB is responsible for its interaction with Pal. TolB also interacts with the outer-membrane peptidoglycan-associated proteins Lpp and OmpA. TolA undergoes a conformational change in response to changes in the proton-motive force, and interacts with Pal in an energy-dependent manner. The C-terminal periplasmic domain of TolA also interacts with the N-terminal domain of TolB. The Tol-PAL system is required for bacterial outer membrane integrity. E. coli TolB is involved in the tonB-independent uptake of group A colicins (colicins A, E1, E2, E3 and K), and is necessary for the colicins to reach their respective targets after initial binding to the bacteria. It is also involved in uptake of filamentous DNA. Study of its structure suggest that the TolB protein might be involved in the recycling of peptidoglycan or in its covalent linking with lipoproteins. The Tol-Pal system is also implicated in pathogenesis of E. coli, Haemophilus ducreyi , Salmonella enterica and Vibrio cholerae, but the mechanism(s) is unclear. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274305 [Multi-domain]  Cd Length: 417  Bit Score: 49.96  E-value: 2.36e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 931550897   37 PAWSPDCSKIAiLVSPRGDTPdkfALFTYDIAADTHtlldEVRAD--GILSAPSWSPDGKWIAY 98
Cdd:TIGR02800 195 PAWSPDGQKLA-YVSFESGKP---EIYVQDLATGQR----EKVASfpGMNGAPAFSPDGSKLAV 250
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 249-339 1.32e-04

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 45.03  E-value: 1.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931550897  249 PVLSHDGKWVAsYL--EDG-DTLIVARIDGGlskyfrldfdVESEVL-----SWLDGIFWSKDSNRLFVVAKDTTLHVVD 320
Cdd:COG4946   348 PAWSPDGKSIA-YFsdASGeYELYIAPADGS----------GEPKQLtlgdlGRVFNPVWSPDGKKIAFTDNRGRLWVVD 416

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 931550897  321 FATGTTE--------------------KWIA---PDPNHMNA 339
Cdd:COG4946   417 LASGKVRkvdtdgygdgisdlawspdsKWLAyskPGPNQLSQ 458
tolB PRK01029
Tol-Pal system protein TolB;
37-98 4.58e-04

Tol-Pal system protein TolB;


Pssm-ID: 234889 [Multi-domain]  Cd Length: 428  Bit Score: 42.83  E-value: 4.58e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897  37 PAWSPDCSKIAiLVSPRGDTPdKFALFTYDIAADTHTLLDEVRADGilSAPSWSPDGKWIAY 98
Cdd:PRK01029 286 PSFSPDGTRLV-FVSNKDGRP-RIYIMQIDPEGQSPRLLTKKYRNS--SCPAWSPDGKKIAF 343
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 37-99 1.54e-03

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 41.56  E-value: 1.54e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 931550897   37 PAWSPDCSKIAiLVSprgDTPDKFALFTYDIAAdthtlLDEVRA-----DGILSAPSWSPDGKWIAYY 99
Cdd:COG4946   348 PAWSPDGKSIA-YFS---DASGEYELYIAPADG-----SGEPKQltlgdLGRVFNPVWSPDGKKIAFT 406
propeller_TolB TIGR02800
tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB ...
 37-103 1.79e-03

tol-pal system beta propeller repeat protein TolB; Members of this protein family are the TolB periplasmic protein of Gram-negative bacteria. TolB is part of the Tol-Pal (peptidoglycan-associated lipoprotein) multiprotein complex, comprising five envelope proteins, TolQ, TolR, TolA, TolB and Pal, which form two complexes. The TolQ, TolR and TolA inner-membrane proteins interact via their transmembrane domains. The {beta}-propeller domain of the periplasmic protein TolB is responsible for its interaction with Pal. TolB also interacts with the outer-membrane peptidoglycan-associated proteins Lpp and OmpA. TolA undergoes a conformational change in response to changes in the proton-motive force, and interacts with Pal in an energy-dependent manner. The C-terminal periplasmic domain of TolA also interacts with the N-terminal domain of TolB. The Tol-PAL system is required for bacterial outer membrane integrity. E. coli TolB is involved in the tonB-independent uptake of group A colicins (colicins A, E1, E2, E3 and K), and is necessary for the colicins to reach their respective targets after initial binding to the bacteria. It is also involved in uptake of filamentous DNA. Study of its structure suggest that the TolB protein might be involved in the recycling of peptidoglycan or in its covalent linking with lipoproteins. The Tol-Pal system is also implicated in pathogenesis of E. coli, Haemophilus ducreyi , Salmonella enterica and Vibrio cholerae, but the mechanism(s) is unclear. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274305 [Multi-domain]  Cd Length: 417  Bit Score: 41.10  E-value: 1.79e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 931550897   37 PAWSPDCSKIAilVSPRGDTpdKFALFTYDIAAD-----THTLLDEvradgilsAPSWSPDGKWIAYYKVEQ 103
Cdd:TIGR02800 327 PSWSPDGDLIA--FVHREGG--GFNIAVMDLDGGgervlTDTGLDE--------SPSFAPNGRMILYATTRG 386
PD40 pfam07676
WD40-like Beta Propeller Repeat; This family appears to be related to the pfam00400 repeat. ...
 82-99 8.93e-03

WD40-like Beta Propeller Repeat; This family appears to be related to the pfam00400 repeat. This repeat corresponds to the RIVW repeat identified in cell surface proteins [Adindla et al. Comparative and Functional Genomics 2004; 5:2-16].


Pssm-ID: 429587 [Multi-domain]  Cd Length: 37  Bit Score: 34.03  E-value: 8.93e-03
                          10
                  ....*....|....*...
gi 931550897   82 GILSAPSWSPDGKWIAYY 99
Cdd:pfam07676   9 GNETAPSWSPDGKRLAFS 26
 
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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