Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R1T29_RS02010 Genome accession   NZ_CP136903
Coordinates   422741..424465 (+) Length   574 a.a.
NCBI ID   WP_005456306.1    Uniprot ID   Q87LB1
Organism   Vibrio parahaemolyticus strain X1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 417741..429465
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS01985 (R1T29_01985) gspM 418146..418796 (+) 651 WP_005497276.1 type II secretion system protein GspM -
  R1T29_RS01990 (R1T29_01990) - 418789..419118 (+) 330 WP_005481006.1 MSHA biogenesis protein MshK -
  R1T29_RS01995 (R1T29_01995) mshL 419139..420782 (+) 1644 WP_005456314.1 pilus (MSHA type) biogenesis protein MshL -
  R1T29_RS02000 (R1T29_02000) - 420826..421671 (+) 846 WP_005456312.1 ExeA family protein -
  R1T29_RS02005 (R1T29_02005) - 421668..422744 (+) 1077 WP_203505098.1 lipopolysaccharide assembly protein LapB -
  R1T29_RS02010 (R1T29_02010) pilB 422741..424465 (+) 1725 WP_005456306.1 GspE/PulE family protein Machinery gene
  R1T29_RS02015 (R1T29_02015) - 424474..425697 (+) 1224 WP_021484749.1 type II secretion system F family protein -
  R1T29_RS02020 (R1T29_02020) - 425701..426162 (+) 462 WP_203505100.1 MSHA biogenesis protein MshF -
  R1T29_RS02025 (R1T29_02025) - 426457..426963 (+) 507 WP_140126035.1 type II secretion system protein -
  R1T29_RS02030 (R1T29_02030) - 427030..427263 (+) 234 WP_025795972.1 type II secretion system protein -
  R1T29_RS02035 (R1T29_02035) - 427379..427858 (+) 480 WP_182023913.1 type II secretion system protein -
  R1T29_RS02040 (R1T29_02040) - 427855..428424 (+) 570 WP_182023912.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  R1T29_RS02045 (R1T29_02045) - 428424..429149 (+) 726 WP_203505102.1 PilW family protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 63886.21 Da        Isoelectric Point: 5.2324

>NTDB_id=816110 R1T29_RS02010 WP_005456306.1 422741..424465(+) (pilB) [Vibrio parahaemolyticus strain X1]
MKIQLRKRLGDLLVEEGIVSEDQIQQALSAQRSTGQKLGDALIDLGFITEKQMLEFLSQQLGLPLIDLGRAPVDADAVQI
LPEVHARRLRAMVVARNGDTLRVAMSDPADLFTQESLMNLLGEYNLEFIIASERQLISSFDRYYRRTKEIASFAEQLQAE
HQDVQSFDYGIDEADSEEVTVVKLVNSMFEDAVQVGASDIHIEPDDKVLRLRQRVDGVLHETILNEVNIASALVLRLKLM
AHLDISEKRLPQDGRFNIKVRGQSIDIRMSTLPTQYGESVVMRLLNQSSGLRPLEESGLPPELLARLRRQLSRPHGMILV
TGPTGSGKTTTLYGALSELNEPGKKIITAEDPVEYRLPRITQVQINSKIDLTFSRVLRTFLRQDPDIILIGEMRDQETVE
IGLRAALTGHLVLSTLHTNDAVDSALRMIDMGAPGYLVASAVRAVVAQRLVRRVCPDCKTQDHLDESRQQWLAGRFPNQV
GVTFHKGAGCQNCNLTGYRGRIGVFEMLELEHEMMDKLRANDAVGFAQAARRSENYKPLLASAMELALQGAVSLDEVMTL
GEGDASGKTDPIFM

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=816110 R1T29_RS02010 WP_005456306.1 422741..424465(+) (pilB) [Vibrio parahaemolyticus strain X1]
ATGAAAATTCAGTTGAGAAAACGCTTAGGTGACCTACTCGTTGAAGAAGGCATCGTATCGGAAGATCAAATCCAGCAAGC
TCTATCAGCTCAGCGCAGTACCGGACAAAAATTAGGTGATGCCCTGATTGACCTCGGGTTTATTACCGAAAAGCAAATGC
TGGAGTTTTTGTCTCAGCAACTAGGATTACCGTTGATCGATCTTGGACGTGCTCCAGTGGATGCGGATGCGGTGCAAATA
CTGCCAGAAGTGCATGCTCGTCGCTTACGTGCAATGGTGGTGGCTCGTAATGGTGACACTTTACGTGTTGCGATGAGTGA
TCCGGCGGATCTGTTTACCCAAGAGTCTTTAATGAACTTGCTAGGTGAGTACAACCTTGAGTTCATCATAGCCTCTGAGC
GTCAGTTGATCAGCAGTTTCGACCGTTACTACCGCCGTACCAAAGAGATCGCGTCCTTTGCTGAGCAGTTACAAGCCGAG
CACCAAGACGTACAAAGCTTTGACTATGGCATCGATGAAGCCGACAGTGAAGAAGTCACCGTTGTAAAACTGGTTAATTC
GATGTTTGAAGACGCGGTGCAAGTTGGTGCATCGGATATCCATATCGAACCAGACGATAAAGTCCTGCGTTTACGCCAGC
GTGTCGATGGTGTGCTGCATGAAACCATTCTGAACGAAGTGAACATCGCTTCTGCATTGGTATTACGCCTTAAATTGATG
GCGCACTTGGATATTTCTGAGAAGCGTCTGCCGCAAGATGGTCGCTTCAACATCAAAGTTCGTGGCCAATCGATTGATAT
TCGTATGTCGACGTTACCGACTCAGTACGGTGAATCGGTCGTAATGCGTCTGCTTAACCAGTCGTCAGGTTTACGTCCAT
TAGAAGAATCGGGTTTACCGCCTGAGCTACTGGCGCGCTTGCGTCGTCAGTTATCTCGTCCTCATGGCATGATTTTGGTA
ACCGGCCCTACGGGATCGGGTAAAACCACGACACTTTACGGCGCGTTGAGTGAGCTCAATGAACCGGGTAAAAAGATCAT
CACCGCAGAAGATCCGGTGGAATACCGTTTACCACGTATCACGCAAGTACAGATCAACAGCAAGATCGACCTGACATTTT
CACGCGTTCTACGCACCTTCTTACGCCAAGACCCAGACATCATTTTGATTGGTGAGATGCGTGATCAAGAGACGGTAGAG
ATTGGCTTGCGAGCAGCACTAACCGGCCACTTAGTATTGAGTACGTTGCACACCAACGATGCGGTCGACAGCGCACTGCG
TATGATCGACATGGGAGCGCCAGGCTATCTCGTTGCCAGTGCCGTGCGTGCCGTTGTAGCTCAGCGATTGGTTCGCCGTG
TTTGTCCAGATTGTAAAACTCAAGATCATCTCGATGAGTCGCGTCAACAATGGTTAGCGGGGCGTTTTCCAAATCAAGTT
GGGGTGACTTTCCACAAAGGAGCAGGTTGTCAAAACTGTAATTTGACGGGGTATCGAGGTCGAATCGGTGTGTTTGAAAT
GCTTGAGCTGGAACATGAGATGATGGACAAGCTGCGTGCGAATGATGCGGTTGGCTTTGCACAAGCGGCTCGACGTTCAG
AAAACTACAAACCGCTTCTTGCCTCAGCAATGGAGCTTGCACTGCAAGGTGCTGTGAGCCTAGATGAAGTGATGACCCTC
GGCGAGGGTGACGCTTCGGGTAAAACTGATCCCATTTTCATGTAG

Domains

Predicted by InterProScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(42-148)

Type II/IV secretion system protein (T2SSE)

(187-453)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q87LB1

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.819

97.387

0.378
  pilB/pilB1 Synechocystis sp. PCC 6803

34.272

100

0.361