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Conserved domains on  [gi|880805692|ref|WP_048657872|]
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MULTISPECIES: GspH/FimT family pseudopilin [Vibrio]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
3-64 3.83e-19

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


:

Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 76.42  E-value: 3.83e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWV 64
Cdd:COG4970    9 RGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
PRK10506 super family cl26825
prepilin peptidase-dependent protein;
3-162 3.05e-08

prepilin peptidase-dependent protein;


The actual alignment was detected with superfamily member PRK10506:

Pssm-ID: 236704 [Multi-domain]  Cd Length: 162  Bit Score: 50.38  E-value: 3.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQD--LWVhfsmdKNEEQStgeWS 80
Cdd:PRK10506   9 RGYTLIELLVVMTIVSILSAWGLYGWQRWQQRQRLWQTAQQLLDFLLRLQEDANWHNRDhiLWL-----IREGQG---WC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692  81 LLL--KPTED---LSGETLVmlsgQPFRDVSFSHNyTGARISFESVRGRPARGTIYLSpNASSTDRLLIklsSPPGRIKV 155
Cdd:PRK10506  81 LVSsvAGANTctgSSPFVFT----PPWPDVALASD-TTPSLAFYGLRNTAWAGHIRLK-NSAGEWRLVI---SSRGRIRL 151


                 ....*..
gi 880805692 156 CGESSAL 162
Cdd:PRK10506 152 CSEGESE 158
 
Name Accession Description Interval E-value
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
3-64 3.83e-19

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


Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 76.42  E-value: 3.83e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWV 64
Cdd:COG4970    9 RGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
PRK10506 PRK10506
prepilin peptidase-dependent protein;
3-162 3.05e-08

prepilin peptidase-dependent protein;


Pssm-ID: 236704 [Multi-domain]  Cd Length: 162  Bit Score: 50.38  E-value: 3.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQD--LWVhfsmdKNEEQStgeWS 80
Cdd:PRK10506   9 RGYTLIELLVVMTIVSILSAWGLYGWQRWQQRQRLWQTAQQLLDFLLRLQEDANWHNRDhiLWL-----IREGQG---WC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692  81 LLL--KPTED---LSGETLVmlsgQPFRDVSFSHNyTGARISFESVRGRPARGTIYLSpNASSTDRLLIklsSPPGRIKV 155
Cdd:PRK10506  81 LVSsvAGANTctgSSPFVFT----PPWPDVALASD-TTPSLAFYGLRNTAWAGHIRLK-NSAGEWRLVI---SSRGRIRL 151


                 ....*..
gi 880805692 156 CGESSAL 162
Cdd:PRK10506 152 CSEGESE 158
GspH pfam12019
Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all ...
 41-144 1.53e-06

Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all pilins, GspH has an N terminus alpha helix. This helix is followed by nine beta strands forming two beta sheets, one of five antiparallel strands and one of four antiparallel strands. GspH is a minor pseudopilin; it is expressed much less than other pseudopilins in the type II secretion pilus (major pilins). The function and localization of minor pseudo-pilins are still to be fully unraveled. It has been suggested that some minor pseudopilins may assemble either into the base or the tip of pili, or both. They function as initiators or regulators of pilus biogenesis and dynamics, and/or as adaptors between various pseudopilin component and other members of the T2SS.


Pssm-ID: 463433  Cd Length: 108  Bit Score: 44.50  E-value: 1.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692   41 AGELNGFLIQAKSESVKRNQDLWVHFSmdkneeQSTGEWSLLLKPTE--DLSGETLVMLSGQPFR--DVSFSHNYTGARI 116
Cdd:pfam12019   2 ANRLAAALQLARSEAIKRGRPVTVCPS------DWSGGWIVFVDANAngDLDGGEDLLRVGAALAggDVLVTASSASPQI 75

                          90       100
                  ....*....|....*....|....*....
gi 880805692  117 SFESvRGRPAR-GTIYLSPNASSTDRLLI 144
Cdd:pfam12019  76 TFNP-DGRAATpGTLTLCSGGSGRSRRVV 103
typeII_sec_gspH TIGR01708
type II secretion system protein H; This model represents GspH, protein H of the main terminal ...
 2-60 4.23e-05

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: 41.40  E-value: 4.23e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 880805692    2 TRGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQ 60
Cdd:TIGR01708   3 QSGFTLIELLVVLAIMGLVAAAAALSLVSHYGTKSLDQVAGRLAARLRLAQTSARATGR 61
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 3-25 4.31e-05

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: 38.89  E-value: 4.31e-05
                          10        20
                  ....*....|....*....|...
gi 880805692    3 RGFTLLELLVTVSVLSILIAAAA 25
Cdd:pfam07963   5 RGFTLIELLVALAILAILLAAAL 27
ComGD NF040982
competence type IV pilus minor pilin ComGD;
2-74 1.02e-03

competence type IV pilus minor pilin ComGD;


Pssm-ID: 468912 [Multi-domain]  Cd Length: 140  Bit Score: 37.22  E-value: 1.02e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880805692   2 TRGFTLLE-LLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWVHFSMDKNEEQ 74
Cdd:NF040982   1 IKGFTLLEsLLVLLIVSSLLLLTLSLSIPQTYEQVEEKLFFEQFENDLLYAQQYAIASQQSTTITFSPDEIQYQ 74
 
Name Accession Description Interval E-value
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
3-64 3.83e-19

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


Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 76.42  E-value: 3.83e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWV 64
Cdd:COG4970    9 RGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
PulG COG2165
Type II secretory pathway, pseudopilin PulG [Cell motility, Intracellular trafficking, ...
 3-45 9.45e-10

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: 52.99  E-value: 9.45e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELN 45
Cdd:COG2165   11 RGFTLIELLVVIAIIGILAALALPALQGARERARRAELRSNLR 53
PRK10506 PRK10506
prepilin peptidase-dependent protein;
3-162 3.05e-08

prepilin peptidase-dependent protein;


Pssm-ID: 236704 [Multi-domain]  Cd Length: 162  Bit Score: 50.38  E-value: 3.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQD--LWVhfsmdKNEEQStgeWS 80
Cdd:PRK10506   9 RGYTLIELLVVMTIVSILSAWGLYGWQRWQQRQRLWQTAQQLLDFLLRLQEDANWHNRDhiLWL-----IREGQG---WC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692  81 LLL--KPTED---LSGETLVmlsgQPFRDVSFSHNyTGARISFESVRGRPARGTIYLSpNASSTDRLLIklsSPPGRIKV 155
Cdd:PRK10506  81 LVSsvAGANTctgSSPFVFT----PPWPDVALASD-TTPSLAFYGLRNTAWAGHIRLK-NSAGEWRLVI---SSRGRIRL 151


                 ....*..
gi 880805692 156 CGESSAL 162
Cdd:PRK10506 152 CSEGESE 158
ComGC COG4537
Competence protein ComGC [Mobilome: prophages, transposons];
3-36 3.85e-07

Competence protein ComGC [Mobilome: prophages, transposons];


Pssm-ID: 443603 [Multi-domain]  Cd Length: 108  Bit Score: 46.07  E-value: 3.85e-07
                         10        20        30
                 ....*....|....*....|....*....|....
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVK 36
Cdd:COG4537   12 KGFTLIEMLIVLLIISILLLIAVPNLTKQRETAQ 45
PilE COG4968
Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];
1-44 6.46e-07

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


Pssm-ID: 443994 [Multi-domain]  Cd Length: 124  Bit Score: 45.84  E-value: 6.46e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 880805692   1 MTRGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGEL 44
Cdd:COG4968    8 RQRGFTLIELMIVVAIIGILAAIAIPSYQDYVERARRAEAKAAL 51
GspH pfam12019
Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all ...
 41-144 1.53e-06

Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all pilins, GspH has an N terminus alpha helix. This helix is followed by nine beta strands forming two beta sheets, one of five antiparallel strands and one of four antiparallel strands. GspH is a minor pseudopilin; it is expressed much less than other pseudopilins in the type II secretion pilus (major pilins). The function and localization of minor pseudo-pilins are still to be fully unraveled. It has been suggested that some minor pseudopilins may assemble either into the base or the tip of pili, or both. They function as initiators or regulators of pilus biogenesis and dynamics, and/or as adaptors between various pseudopilin component and other members of the T2SS.


Pssm-ID: 463433  Cd Length: 108  Bit Score: 44.50  E-value: 1.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880805692   41 AGELNGFLIQAKSESVKRNQDLWVHFSmdkneeQSTGEWSLLLKPTE--DLSGETLVMLSGQPFR--DVSFSHNYTGARI 116
Cdd:pfam12019   2 ANRLAAALQLARSEAIKRGRPVTVCPS------DWSGGWIVFVDANAngDLDGGEDLLRVGAALAggDVLVTASSASPQI 75

                          90       100
                  ....*....|....*....|....*....
gi 880805692  117 SFESvRGRPAR-GTIYLSPNASSTDRLLI 144
Cdd:pfam12019  76 TFNP-DGRAATpGTLTLCSGGSGRSRRVV 103
PilW COG4966
Type IV pilus assembly protein PilW [Cell motility, Extracellular structures];
3-45 2.08e-05

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


Pssm-ID: 443992 [Multi-domain]  Cd Length: 158  Bit Score: 42.47  E-value: 2.08e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELN 45
Cdd:COG4966    5 RGFTLVELMVALAIGLIVLAAVLQLFLSSRRSYRTQEALARLQ 47
typeII_sec_gspH TIGR01708
type II secretion system protein H; This model represents GspH, protein H of the main terminal ...
 2-60 4.23e-05

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: 41.40  E-value: 4.23e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 880805692    2 TRGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQ 60
Cdd:TIGR01708   3 QSGFTLIELLVVLAIMGLVAAAAALSLVSHYGTKSLDQVAGRLAARLRLAQTSARATGR 61
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 3-25 4.31e-05

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: 38.89  E-value: 4.31e-05
                          10        20
                  ....*....|....*....|...
gi 880805692    3 RGFTLLELLVTVSVLSILIAAAA 25
Cdd:pfam07963   5 RGFTLIELLVALAILAILLAAAL 27
PulJ COG4795
Type II secretory pathway, PulJ/GspJ component [Intracellular trafficking, secretion, and ...
 3-45 4.55e-05

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


Pssm-ID: 443823 [Multi-domain]  Cd Length: 118  Bit Score: 40.77  E-value: 4.55e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELN 45
Cdd:COG4795    9 RGFTLLELLVALAIFALLLLAAYRGLDSVLRSRERLEQQAERL 51
IV_pilin_GFxxxE TIGR02532
prepilin-type N-terminal cleavage/methylation domain; This model describes many but not all ...
 2-25 7.50e-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: 38.05  E-value: 7.50e-05
                          10        20
                  ....*....|....*....|....
gi 880805692    2 TRGFTLLELLVTVSVLSILIAAAA 25
Cdd:TIGR02532   1 QRGFTLIELLVVLAILGILALIAL 24
TIGR02596 TIGR02596
Verru_Chthon cassette protein D; This model describes a nearly twenty member protein family in ...
 5-66 1.35e-04

Verru_Chthon cassette protein D; This model describes a nearly twenty member protein family in Verrucomicrobium spinosum and a somewhat smaller paralogous family in Chthoniobacter flavus. All members share a type IV pilin-like N-terminal leader sequence (TIGR02532). These proteins occur in the four-gene Verru_Chthon cassette, in which two other genes likewise encode a cleavage/methylation domain. Most of these cassettes occur next to an unusually large PEP-CTERM protein with an autotransporter domain. [Cell envelope, Surface structures]


Pssm-ID: 274219 [Multi-domain]  Cd Length: 195  Bit Score: 40.54  E-value: 1.35e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 880805692    5 FTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWVHF 66
Cdd:TIGR02596   1 FTLVELLVVIAIAALLMALSTPVVNQVLAAQQLGSSATRLANELAAAAQLAVRENRPVEVRF 62
typeII_sec_gspG TIGR01710
type II secretion system protein G; This model represents GspG, protein G of the main terminal ...
 3-46 5.47e-04

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: 38.18  E-value: 5.47e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 880805692    3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNG 46
Cdd:TIGR01710   1 RGFTLLEIMVVLVILGLLAALVAPKLFSQADKAKAQVAKAQIKA 44
ComGD NF040982
competence type IV pilus minor pilin ComGD;
2-74 1.02e-03

competence type IV pilus minor pilin ComGD;


Pssm-ID: 468912 [Multi-domain]  Cd Length: 140  Bit Score: 37.22  E-value: 1.02e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880805692   2 TRGFTLLE-LLVTVSVLSILIAAAAPSFSSVTETVKMQRLAGELNGFLIQAKSESVKRNQDLWVHFSMDKNEEQ 74
Cdd:NF040982   1 IKGFTLLEsLLVLLIVSSLLLLTLSLSIPQTYEQVEEKLFFEQFENDLLYAQQYAIASQQSTTITFSPDEIQYQ 74
PilA COG4969
Type IV pilus assembly protein, major pilin PilA [Cell motility, Extracellular structures];
3-37 1.08e-03

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


Pssm-ID: 443995 [Multi-domain]  Cd Length: 134  Bit Score: 37.38  E-value: 1.08e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAAPSFSSVTETVKM 37
Cdd:COG4969    6 KGFTLIELMIVVAIIGILAAIAIPAYQDYVARARV 40
PilV COG4967
Type IV pilus assembly protein PilV [Cell motility, Extracellular structures];
3-25 4.74e-03

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


Pssm-ID: 443993 [Multi-domain]  Cd Length: 86  Bit Score: 34.57  E-value: 4.74e-03
                         10        20
                 ....*....|....*....|...
gi 880805692   3 RGFTLLELLVTVSVLSILIAAAA 25
Cdd:COG4967   11 RGFTLIEVLVALVILSIGLLGLA 33
 
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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