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Conserved domains on  [gi|2207988164|ref|WP_241393101|]
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MULTISPECIES: lipopolysaccharide assembly protein LapB [Clostridium]

Protein Classification

tetratricopeptide repeat protein( domain architecture ID 11459274)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 13-145 6.72e-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: 6.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  13 KCFEEARKLEEKVGSKA--SLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSNTP------INEILKK 83
Cdd:COG2956   128 KAIEVLERLLKLGPENAhaYCELAELYLEQGDYDEAIEALEKALKLDpDCARALLLLAELYLEQGDYeeaiaaLERALEQ 207

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2207988164  84 AGKVKIHNSLLADIFCFEGNYEVALKIIDTCLKEDEvTRDLELIKIKCLLKLKQYDKCKDYI 145
Cdd:COG2956   208 DPDYLPALPRLAELYEKLGDPEEALELLRKALELDP-SDDLLLALADLLERKEGLEAALALL 268
 
Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 13-145 6.72e-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: 6.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  13 KCFEEARKLEEKVGSKA--SLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSNTP------INEILKK 83
Cdd:COG2956   128 KAIEVLERLLKLGPENAhaYCELAELYLEQGDYDEAIEALEKALKLDpDCARALLLLAELYLEQGDYeeaiaaLERALEQ 207

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2207988164  84 AGKVKIHNSLLADIFCFEGNYEVALKIIDTCLKEDEvTRDLELIKIKCLLKLKQYDKCKDYI 145
Cdd:COG2956   208 DPDYLPALPRLAELYEKLGDPEEALELLRKALELDP-SDDLLLALADLLERKEGLEAALALL 268
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 11-108 2.46e-04

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 42.38  E-value: 2.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  11 AVKCFeeaRKLEEKVGSK--ASLELAKIYAYFKDYEEAYKYCKEAIS-KSNYIEAYYLMVRILLLSNTP-----INEILK 82
Cdd:TIGR02917 620 AVSSF---KKLLALQPDSalALLLLADAYAVMKNYAKAITSLKRALElKPDNTEAQIGLAQLLLAAKRTesakkIAKSLQ 696

                          90       100
                  ....*....|....*....|....*...
gi 2207988164  83 KAgKVKIH--NSLLADIFCFEGNYEVAL 108
Cdd:TIGR02917 697 KQ-HPKAAlgFELEGDLYLRQKDYPAAI 723
 
Name Accession Description Interval E-value
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 13-145 6.72e-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: 6.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  13 KCFEEARKLEEKVGSKA--SLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSNTP------INEILKK 83
Cdd:COG2956   128 KAIEVLERLLKLGPENAhaYCELAELYLEQGDYDEAIEALEKALKLDpDCARALLLLAELYLEQGDYeeaiaaLERALEQ 207

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2207988164  84 AGKVKIHNSLLADIFCFEGNYEVALKIIDTCLKEDEvTRDLELIKIKCLLKLKQYDKCKDYI 145
Cdd:COG2956   208 DPDYLPALPRLAELYEKLGDPEEALELLRKALELDP-SDDLLLALADLLERKEGLEAALALL 268
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 11-144 1.57e-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: 42.41  E-value: 1.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  11 AVKCFEEARKLEEKVgSKASLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSN------TPINEILKK 83
Cdd:COG2956    61 AIRIHQKLLERDPDR-AEALLELAQDYLKAGLLDRAEELLEKLLELDpDDAEALRLLAEIYEQEGdwekaiEVLERLLKL 139

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2207988164  84 AGKVKIHNSLLADIFCFEGNYEVALKIIDTCLKEDEVTRDLELIKIKCLLKLKQYDKCKDY 144
Cdd:COG2956   140 GPENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAA 200
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 11-108 2.46e-04

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 42.38  E-value: 2.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  11 AVKCFeeaRKLEEKVGSK--ASLELAKIYAYFKDYEEAYKYCKEAIS-KSNYIEAYYLMVRILLLSNTP-----INEILK 82
Cdd:TIGR02917 620 AVSSF---KKLLALQPDSalALLLLADAYAVMKNYAKAITSLKRALElKPDNTEAQIGLAQLLLAAKRTesakkIAKSLQ 696

                          90       100
                  ....*....|....*....|....*...
gi 2207988164  83 KAgKVKIH--NSLLADIFCFEGNYEVAL 108
Cdd:TIGR02917 697 KQ-HPKAAlgFELEGDLYLRQKDYPAAI 723
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 11-152 2.82e-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: 41.64  E-value: 2.82e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  11 AVKCFEEARKLEEKvGSKASLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSNTPIN--EILKKAGKV 87
Cdd:COG2956    95 AEELLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLGpENAHAYCELAELYLEQGDYDEaiEALEKALKL 173

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2207988164  88 KIHNS----LLADIFCFEGNYEVALKIIDTCLKEDEVTRDLELIKIKCLLKLKQYDKCKDYIDNFSQSY 152
Cdd:COG2956   174 DPDCArallLLAELYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGDPEEALELLRKALELD 242
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 11-118 3.99e-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: 38.17  E-value: 3.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  11 AVKCFEEARKLEEKvGSKASLELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSNTPIN--EILKKAGKV 87
Cdd:COG2956   163 AIEALEKALKLDPD-CARALLLLAELYLEQGDYEEAIAALERALEQDpDYLPALPRLAELYEKLGDPEEalELLRKALEL 241

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2207988164  88 KIHNSL---LADIFCFEGNYEVALKIIDTCLKED 118
Cdd:COG2956   242 DPSDDLllaLADLLERKEGLEAALALLERQLRRH 275
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 31-140 4.81e-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: 36.71  E-value: 4.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2207988164  31 LELAKIYAYFKDYEEAYKYCKEAISKS-NYIEAYYLMVRILLLSN------TPINEILKKAGKVKIHNSLLADIFCFEGN 103
Cdd:COG4783     8 YALAQALLLAGDYDEAEALLEKALELDpDNPEAFALLGEILLQLGdldeaiVLLHEALELDPDEPEARLNLGLALLKAGD 87

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2207988164 104 YEVALKIIDTCLKEDEVTRDLELIKIKCLLKLKQYDK 140
Cdd:COG4783    88 YDEALALLEKALKLDPEHPEAYLRLARAYRALGRPDE 124
 
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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