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Conserved domains on  [gi|1084901211|gb|OGR23282|]
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hypothetical protein A2559_08090 [Deltaproteobacteria bacterium RIFOXYD2_FULL_66_9]

Protein Classification

type IV pilin protein( domain architecture ID 11471939)

type IV pilin protein similar to fimbrial protein PilE, which is required for pilus biogenesis

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PilE COG4968
Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];
1-115 7.68e-22

Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];


:

Pssm-ID: 443994 [Multi-domain]  Cd Length: 124  Bit Score: 83.97  E-value: 7.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1084901211   1 MNRLTPANHRngrcGFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRYTDNIVLLN 80
Cdd:COG4968     1 MKKRMRRRQR----GFTLIELMIVVAIIGILAAIAIPSYQDYVERARRAEAKAALLELAQAQERYYADNGSYPSALADLG 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1084901211  81 FDPVKYNFYEVSVVldNDALNYTGTATGV--GVMTGD 115
Cdd:COG4968    77 LPASTSGYYTISIA--AAATTYTLTATPQadGTLTLD 111
 
Name Accession Description Interval E-value
PilE COG4968
Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];
1-115 7.68e-22

Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];


Pssm-ID: 443994 [Multi-domain]  Cd Length: 124  Bit Score: 83.97  E-value: 7.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1084901211   1 MNRLTPANHRngrcGFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRYTDNIVLLN 80
Cdd:COG4968     1 MKKRMRRRQR----GFTLIELMIVVAIIGILAAIAIPSYQDYVERARRAEAKAALLELAQAQERYYADNGSYPSALADLG 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1084901211  81 FDPVKYNFYEVSVVldNDALNYTGTATGV--GVMTGD 115
Cdd:COG4968    77 LPASTSGYYTISIA--AAATTYTLTATPQadGTLTLD 111
typeII_sec_gspG TIGR01710
type II secretion system protein G; This model represents GspG, protein G of the main terminal ...
 15-72 2.20e-08

type II secretion system protein G; This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]


Pssm-ID: 130771 [Multi-domain]  Cd Length: 134  Bit Score: 49.35  E-value: 2.20e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRY 72
Cdd:TIGR01710   2 GFTLLEIMVVLVILGLLAALVAPKLFSQADKAKAQVAKAQIKALKNALDMYRLDNGRY 59
PRK10574 PRK10574
putative major pilin subunit; Provisional
 15-49 1.82e-06

putative major pilin subunit; Provisional


Pssm-ID: 236718 [Multi-domain]  Cd Length: 146  Bit Score: 44.25  E-value: 1.82e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMT 49
Cdd:PRK10574    6 GFTLIELMVVIAIIAILSAIGIPAYQNYLQKAALT 40
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 10-36 4.20e-06

Prokaryotic N-terminal methylation motif; This short motif directs methylation of the conserved phenylalanine residue. It is most often found at the N-terminus of pilins and other proteins involved in secretion, see pfam00114, pfam05946, pfam02501 and pfam07596.


Pssm-ID: 429756 [Multi-domain]  Cd Length: 27  Bit Score: 40.82  E-value: 4.20e-06
                          10        20
                  ....*....|....*....|....*..
gi 1084901211  10 RNGRCGFTLIEIAIVLVLIGILAAMAI 36
Cdd:pfam07963   1 MRKQRGFTLIELLVALAILAILLAAAL 27
 
Name Accession Description Interval E-value
PilE COG4968
Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];
1-115 7.68e-22

Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];


Pssm-ID: 443994 [Multi-domain]  Cd Length: 124  Bit Score: 83.97  E-value: 7.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1084901211   1 MNRLTPANHRngrcGFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRYTDNIVLLN 80
Cdd:COG4968     1 MKKRMRRRQR----GFTLIELMIVVAIIGILAAIAIPSYQDYVERARRAEAKAALLELAQAQERYYADNGSYPSALADLG 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1084901211  81 FDPVKYNFYEVSVVldNDALNYTGTATGV--GVMTGD 115
Cdd:COG4968    77 LPASTSGYYTISIA--AAATTYTLTATPQadGTLTLD 111
PulG COG2165
Type II secretory pathway, pseudopilin PulG [Cell motility, Intracellular trafficking, ...
 1-90 6.50e-15

Type II secretory pathway, pseudopilin PulG [Cell motility, Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 441768 [Multi-domain]  Cd Length: 99  Bit Score: 65.32  E-value: 6.50e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1084901211   1 MNRLTPANHRNGrcgFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRYTDNIVLLN 80
Cdd:COG2165     1 MKLRRRRRRQRG---FTLIELLVVIAIIGILAALALPALQGARERARRAELRSNLRQIQQALERYRLDNGRYPSSLTGLL 77

                          90
                  ....*....|
gi 1084901211  81 FDPVKYNFYE 90
Cdd:COG2165    78 ADVRGGGYLG 87
PilA COG4969
Type IV pilus assembly protein, major pilin PilA [Cell motility, Extracellular structures];
15-111 4.16e-12

Type IV pilus assembly protein, major pilin PilA [Cell motility, Extracellular structures];


Pssm-ID: 443995 [Multi-domain]  Cd Length: 134  Bit Score: 58.95  E-value: 4.16e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLtKTEAT-YFSDHDRYTD-NIVLLNFDPVKYNFYEVS 92
Cdd:COG4969     7 GFTLIELMIVVAIIGILAAIAIPAYQDYVARARVSEALALASPL-KTAVEeCALENGSLPNcNAGDNGLPATIATKYVSS 85

                          90
                  ....*....|....*....
gi 1084901211  93 VVLDNDALNYTGTATGVGV 111
Cdd:COG4969    86 VSVDNGVITVTGTAALAGL 104
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
1-63 1.49e-10

Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];


Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 53.31  E-value: 1.49e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1084901211   1 MNRLTPANHrngrcGFTLIEIAIVLVLIGILAAMAIATYRMMINKARM-TQAKTVLSHL--TKTEA 63
Cdd:COG4970     1 MKRLRRRQR-----GFTLIELLVVLAILAILAAIAVPSFSSLIARQRLrAAANELAAALrlARSEA 61
typeII_sec_gspG TIGR01710
type II secretion system protein G; This model represents GspG, protein G of the main terminal ...
 15-72 2.20e-08

type II secretion system protein G; This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]


Pssm-ID: 130771 [Multi-domain]  Cd Length: 134  Bit Score: 49.35  E-value: 2.20e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATYFSDHDRY 72
Cdd:TIGR01710   2 GFTLLEIMVVLVILGLLAALVAPKLFSQADKAKAQVAKAQIKALKNALDMYRLDNGRY 59
ComGC COG4537
Competence protein ComGC [Mobilome: prophages, transposons];
15-76 2.12e-07

Competence protein ComGC [Mobilome: prophages, transposons];


Pssm-ID: 443603 [Multi-domain]  Cd Length: 108  Bit Score: 46.07  E-value: 2.12e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHL-TKTEAtYFSDHDRYTDNI 76
Cdd:COG4537    13 GFTLIEMLIVLLIISILLLIAVPNLTKQRETAQEKGCEANIKMVqSQVEL-YELDHGTYPASL 74
PRK10574 PRK10574
putative major pilin subunit; Provisional
 15-49 1.82e-06

putative major pilin subunit; Provisional


Pssm-ID: 236718 [Multi-domain]  Cd Length: 146  Bit Score: 44.25  E-value: 1.82e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMT 49
Cdd:PRK10574    6 GFTLIELMVVIAIIAILSAIGIPAYQNYLQKAALT 40
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 10-36 4.20e-06

Prokaryotic N-terminal methylation motif; This short motif directs methylation of the conserved phenylalanine residue. It is most often found at the N-terminus of pilins and other proteins involved in secretion, see pfam00114, pfam05946, pfam02501 and pfam07596.


Pssm-ID: 429756 [Multi-domain]  Cd Length: 27  Bit Score: 40.82  E-value: 4.20e-06
                          10        20
                  ....*....|....*....|....*..
gi 1084901211  10 RNGRCGFTLIEIAIVLVLIGILAAMAI 36
Cdd:pfam07963   1 MRKQRGFTLIELLVALAILAILLAAAL 27
IV_pilin_GFxxxE TIGR02532
prepilin-type N-terminal cleavage/methylation domain; This model describes many but not all ...
 13-36 1.43e-05

prepilin-type N-terminal cleavage/methylation domain; This model describes many but not all examples of the N-terminal region of bacterial proteins that resemble type IV pilins at their N-terminus, with a cleavage site G^FxxxE followed by a hydrophobic stretch. The new N-terminal residue, usually Phe, is methylated. Separate domains of the prepilin peptidase appear responsible for cleavage and methylation. Proteins with this N-terminal region include type IV pilins and other components of pilus biogenesis, competence proteins, and type II secretion proteins. Typically several proteins in a single operon have this N-terminal domain. The N-terminal cleavage and methylation site is described by PROSITE motif PS00409 as [KRHEQSTAG]-G-[FYLIVM]-[ST]-[LT]-[LIVP]-E-[LIVMFWSTAG](14). [Cell envelope, Surface structures, Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 274182 [Multi-domain]  Cd Length: 24  Bit Score: 39.21  E-value: 1.43e-05
                          10        20
                  ....*....|....*....|....
gi 1084901211  13 RCGFTLIEIAIVLVLIGILAAMAI 36
Cdd:TIGR02532   1 QRGFTLIELLVVLAILGILALIAL 24
PulJ COG4795
Type II secretory pathway, PulJ/GspJ component [Intracellular trafficking, secretion, and ...
 8-55 2.10e-04

Type II secretory pathway, PulJ/GspJ component [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443823 [Multi-domain]  Cd Length: 118  Bit Score: 38.46  E-value: 2.10e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1084901211   8 NHRNGRCGFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVL 55
Cdd:COG4795     3 RARRRQRGFTLLELLVALAIFALLLLAAYRGLDSVLRSRERLEQQAER 50
typeII_sec_gspH TIGR01708
type II secretion system protein H; This model represents GspH, protein H of the main terminal ...
 15-65 4.49e-04

type II secretion system protein H; This model represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]


Pssm-ID: 130769 [Multi-domain]  Cd Length: 143  Bit Score: 37.93  E-value: 4.49e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1084901211  15 GFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVLSHLTKTEATY 65
Cdd:TIGR01708   5 GFTLIELLVVLAIMGLVAAAAALSLVSHYGTKSLDQVAGRLAARLRLAQTS 55
PilV COG4967
Type IV pilus assembly protein PilV [Cell motility, Extracellular structures];
1-51 1.19e-03

Type IV pilus assembly protein PilV [Cell motility, Extracellular structures];


Pssm-ID: 443993 [Multi-domain]  Cd Length: 86  Bit Score: 35.73  E-value: 1.19e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1084901211   1 MNRLTPANHRNGrcgFTLIE--IAIVLVLIGILA--AMAIATYRMMINKARMTQA 51
Cdd:COG4967     1 MSRRRRRRRQRG---FTLIEvlVALVILSIGLLGlaGLQAASLRSSQDARQRTQA 52
PilW COG4966
Type IV pilus assembly protein PilW [Cell motility, Extracellular structures];
10-55 2.78e-03

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


Pssm-ID: 443992 [Multi-domain]  Cd Length: 158  Bit Score: 35.93  E-value: 2.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1084901211  10 RNGRCGFTLIEIAIVLVLIGILAAMAIATYRMMINKARMTQAKTVL 55
Cdd:COG4966     1 RRRQRGFTLVELMVALAIGLIVLAAVLQLFLSSRRSYRTQEALARL 46
ComP_DUS pfam16732
Type IV minor pilin ComP, DNA uptake sequence receptor; ComP-DUS is the DNA-uptake sequence ...
 45-116 2.90e-03

Type IV minor pilin ComP, DNA uptake sequence receptor; ComP-DUS is the DNA-uptake sequence receptor of pathogenic Proteobacteria. ComP is a type IV minor pilin -site on the minor type IV pilin, C one of three minor (low abundance) pilins in pathogenic Proteobacteria Neisseria species (with PilV and PilX). These modulate Tfp-mediated properties without affecting Tfp biogenesis. ComP plays a prominent role in competence at the level of DNA uptake. Comp is exposed on the surface of Neisseria filaments, and it is this that recognizes homotypic DNA through genus-specific DNA uptake sequence (DUS) motifs.


Pssm-ID: 435546  Cd Length: 83  Bit Score: 34.60  E-value: 2.90e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084901211  45 KARMTQAKTVLSHLTKTEATYFSDHDRYTDNIVLLNFDPVKY---NFYEVSVVlDNDALNYTGTATGVGVMTGDR 116
Cdd:pfam16732   4 KSRRADAKAALLEAAQAQERYYTQNGTYADLTALGDLASSPTsgnGYYTISLS-AATATTYTLTATPTGGQAGDS 77
gspJ TIGR01711
type II secretion system protein J; This model represents GspJ, one of two proteins highly ...
 15-42 5.73e-03

type II secretion system protein J; This model represents GspJ, one of two proteins highly conserved at their N-termini and described by pfam02501 but easily separable phylogenetically. The other is GspI. Both GspI and GspJ are proteins of the type II secretion pathway, or main terminal branch of the general secretion pathway. This pathway carries proteins across the outer membrane. Note that proteins of type II secretion are cryptic in E. coli K-12 - present but not yet demonstrated to act on any target.


Pssm-ID: 130772 [Multi-domain]  Cd Length: 192  Bit Score: 35.27  E-value: 5.73e-03
                          10        20
                  ....*....|....*....|....*...
gi 1084901211  15 GFTLIEiaiVLVLIGILAAMAIATYRMM 42
Cdd:TIGR01711   2 GFTLLE---LLVAIAIFASLSLGAYQVL 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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