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Conserved domains on  [gi|772925645|gb|AJX16316|]
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hypothetical protein BW23_933 [Burkholderia ubonensis MSMB22]

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];
9-72 3.09e-18

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


:

Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 74.50  E-value: 3.09e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRALLGALSFARAEAARLGVRVTL 72
Cdd:COG4970    7 RQRGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
GspH pfam12019
Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all ...
 50-170 3.23e-04

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: 38.34  E-value: 3.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 772925645   50 RALLGALSFARAEAARLGVRVTLCRAGndgacirpgqrcddgeWSCGWLV------SGHFDERAQVLRRYPRDPDVIVE- 122
Cdd:pfam12019   3 NRLAAALQLARSEAIKRGRPVTVCPSD----------------WSGGWIVfvdanaNGDLDGGEDLLRVGAALAGGDVLv 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 772925645  123 ---GVAHELAFAPPAGQAIGGILRFelrprrsahEADAPRASRCVRIAAGG 170
Cdd:pfam12019  67 tasSASPQITFNPDGRAATPGTLTL---------CSGGSGRSRRVVVSASG 108
 
Name Accession Description Interval E-value
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
9-72 3.09e-18

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


Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 74.50  E-value: 3.09e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRALLGALSFARAEAARLGVRVTL 72
Cdd:COG4970    7 RQRGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
PRK10506 PRK10506
prepilin peptidase-dependent protein;
12-130 2.45e-05

prepilin peptidase-dependent protein;


Pssm-ID: 236704 [Multi-domain]  Cd Length: 162  Bit Score: 42.67  E-value: 2.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 772925645  12 GFTLVELMVV---VAVLAGLGLYaapSFEQWRMRERVDARSRALLGALSFARAEAARLGVRVTLcRAGNDGA--CI---- 82
Cdd:PRK10506  10 GYTLIELLVVmtiVSILSAWGLY---GWQRWQQRQRLWQTAQQLLDFLLRLQEDANWHNRDHIL-WLIREGQgwCLvssv 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 772925645  83 RPGQRCDDGEwscgwlvsghfderaqVLRRYPRDPDV-IVEGVAHELAF 130
Cdd:PRK10506  86 AGANTCTGSS----------------PFVFTPPWPDVaLASDTTPSLAF 118
TIGR02596 TIGR02596
Verru_Chthon cassette protein D; This model describes a nearly twenty member protein family in ...
 13-70 9.13e-05

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: 41.31  E-value: 9.13e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 772925645   13 FTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRALLGALSFARAEAARLGVRV 70
Cdd:TIGR02596   1 FTLVELLVVIAIAALLMALSTPVVNQVLAAQQLGSSATRLANELAAAAQLAVRENRPV 58
GspH pfam12019
Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all ...
 50-170 3.23e-04

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: 38.34  E-value: 3.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 772925645   50 RALLGALSFARAEAARLGVRVTLCRAGndgacirpgqrcddgeWSCGWLV------SGHFDERAQVLRRYPRDPDVIVE- 122
Cdd:pfam12019   3 NRLAAALQLARSEAIKRGRPVTVCPSD----------------WSGGWIVfvdanaNGDLDGGEDLLRVGAALAGGDVLv 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 772925645  123 ---GVAHELAFAPPAGQAIGGILRFelrprrsahEADAPRASRCVRIAAGG 170
Cdd:pfam12019  67 tasSASPQITFNPDGRAATPGTLTL---------CSGGSGRSRRVVVSASG 108
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 9-26 2.33e-03

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: 34.27  E-value: 2.33e-03
                          10
                  ....*....|....*...
gi 772925645    9 RAGGFTLVELMVVVAVLA 26
Cdd:pfam07963   3 KQRGFTLIELLVALAILA 20
 
Name Accession Description Interval E-value
FimT COG4970
Type IV pilus assembly protein FimT [Cell motility, Extracellular structures];
9-72 3.09e-18

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


Pssm-ID: 443996 [Multi-domain]  Cd Length: 73  Bit Score: 74.50  E-value: 3.09e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRALLGALSFARAEAARLGVRVTL 72
Cdd:COG4970    7 RQRGFTLIELLVVLAILAILAAIAVPSFSSLIARQRLRAAANELAAALRLARSEAIRRGQPVTL 70
PulG COG2165
Type II secretory pathway, pseudopilin PulG [Cell motility, Intracellular trafficking, ...
 9-52 6.50e-07

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: 45.67  E-value: 6.50e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRAL 52
Cdd:COG2165    9 RQRGFTLIELLVVIAIIGILAALALPALQGARERARRAELRSNL 52
PilE COG4968
Type IV pilus assembly protein PilE [Cell motility, Extracellular structures];
9-49 7.39e-07

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


Pssm-ID: 443994 [Multi-domain]  Cd Length: 124  Bit Score: 46.22  E-value: 7.39e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQWRMR-ERVDARS 49
Cdd:COG4968    8 RQRGFTLIELMIVVAIIGILAAIAIPSYQDYVERaRRAEAKA 49
PilA COG4969
Type IV pilus assembly protein, major pilin PilA [Cell motility, Extracellular structures];
12-79 1.90e-06

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


Pssm-ID: 443995 [Multi-domain]  Cd Length: 134  Bit Score: 45.08  E-value: 1.90e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 772925645  12 GFTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVdARSRALLGALSFARAEAARLGVRVTLCRAGNDG 79
Cdd:COG4969    7 GFTLIELMIVVAIIGILAAIAIPAYQDYVARARV-SEALALASPLKTAVEECALENGSLPNCNAGDNG 73
PRK10506 PRK10506
prepilin peptidase-dependent protein;
12-130 2.45e-05

prepilin peptidase-dependent protein;


Pssm-ID: 236704 [Multi-domain]  Cd Length: 162  Bit Score: 42.67  E-value: 2.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 772925645  12 GFTLVELMVV---VAVLAGLGLYaapSFEQWRMRERVDARSRALLGALSFARAEAARLGVRVTLcRAGNDGA--CI---- 82
Cdd:PRK10506  10 GYTLIELLVVmtiVSILSAWGLY---GWQRWQQRQRLWQTAQQLLDFLLRLQEDANWHNRDHIL-WLIREGQgwCLvssv 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 772925645  83 RPGQRCDDGEwscgwlvsghfderaqVLRRYPRDPDV-IVEGVAHELAF 130
Cdd:PRK10506  86 AGANTCTGSS----------------PFVFTPPWPDVaLASDTTPSLAF 118
TIGR02596 TIGR02596
Verru_Chthon cassette protein D; This model describes a nearly twenty member protein family in ...
 13-70 9.13e-05

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: 41.31  E-value: 9.13e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 772925645   13 FTLVELMVVVAVLAGLGLYAAPSFEQWRMRERVDARSRALLGALSFARAEAARLGVRV 70
Cdd:TIGR02596   1 FTLVELLVVIAIAALLMALSTPVVNQVLAAQQLGSSATRLANELAAAAQLAVRENRPV 58
GspH pfam12019
Type II transport protein GspH; GspH is involved in bacterial type II export systems. Like all ...
 50-170 3.23e-04

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: 38.34  E-value: 3.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 772925645   50 RALLGALSFARAEAARLGVRVTLCRAGndgacirpgqrcddgeWSCGWLV------SGHFDERAQVLRRYPRDPDVIVE- 122
Cdd:pfam12019   3 NRLAAALQLARSEAIKRGRPVTVCPSD----------------WSGGWIVfvdanaNGDLDGGEDLLRVGAALAGGDVLv 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 772925645  123 ---GVAHELAFAPPAGQAIGGILRFelrprrsahEADAPRASRCVRIAAGG 170
Cdd:pfam12019  67 tasSASPQITFNPDGRAATPGTLTL---------CSGGSGRSRRVVVSASG 108
PulJ COG4795
Type II secretory pathway, PulJ/GspJ component [Intracellular trafficking, secretion, and ...
 9-52 1.41e-03

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


Pssm-ID: 443823 [Multi-domain]  Cd Length: 118  Bit Score: 36.92  E-value: 1.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 772925645   9 RAGGFTLVELMVVVAVLAGLGLYAAPSFEQ-WRMRERVDARSRAL 52
Cdd:COG4795    7 RQRGFTLLELLVALAIFALLLLAAYRGLDSvLRSRERLEQQAERL 51
PRK10574 PRK10574
putative major pilin subunit; Provisional
 12-37 1.68e-03

putative major pilin subunit; Provisional


Pssm-ID: 236718 [Multi-domain]  Cd Length: 146  Bit Score: 36.93  E-value: 1.68e-03
                         10        20
                 ....*....|....*....|....*.
gi 772925645  12 GFTLVELMVVVAVLAGLGLYAAPSFE 37
Cdd:PRK10574   6 GFTLIELMVVIAIIAILSAIGIPAYQ 31
IV_pilin_GFxxxE TIGR02532
prepilin-type N-terminal cleavage/methylation domain; This model describes many but not all ...
 12-33 2.08e-03

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: 34.20  E-value: 2.08e-03
                          10        20
                  ....*....|....*....|..
gi 772925645   12 GFTLVELMVVVAVLAGLGLYAA 33
Cdd:TIGR02532   3 GFTLIELLVVLAILGILALIAL 24
N_methyl pfam07963
Prokaryotic N-terminal methylation motif; This short motif directs methylation of the ...
 9-26 2.33e-03

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: 34.27  E-value: 2.33e-03
                          10
                  ....*....|....*...
gi 772925645    9 RAGGFTLVELMVVVAVLA 26
Cdd:pfam07963   3 KQRGFTLIELLVALAILA 20
 
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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