Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   vpachn25_RS13790 Genome accession   NZ_CP010883
Coordinates   3001884..3003608 (-) Length   574 a.a.
NCBI ID   WP_005456306.1    Uniprot ID   Q87LB1
Organism   Vibrio parahaemolyticus strain CHN25     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2996884..3008608
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  vpachn25_RS13755 (VpaChn25_2623) - 2997199..2997912 (-) 714 WP_017449441.1 PilW family protein -
  vpachn25_RS13760 (VpaChn25_2624) - 2997913..2998479 (-) 567 WP_017449442.1 type II secretion system protein -
  vpachn25_RS13765 (VpaChn25_2625) - 2998476..2998961 (-) 486 WP_021453808.1 type II secretion system protein -
  vpachn25_RS13770 (VpaChn25_2626) - 2999077..2999310 (-) 234 WP_005388453.1 type II secretion system protein -
  vpachn25_RS13775 (VpaChn25_2627) - 2999374..2999892 (-) 519 WP_031847360.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  vpachn25_RS13780 (VpaChn25_2629) - 3000187..3000648 (-) 462 WP_005456302.1 MSHA biogenesis protein MshF -
  vpachn25_RS13785 (VpaChn25_2630) - 3000652..3001875 (-) 1224 WP_021484749.1 type II secretion system F family protein -
  vpachn25_RS13790 (VpaChn25_2631) pilB 3001884..3003608 (-) 1725 WP_005456306.1 GspE/PulE family protein Machinery gene
  vpachn25_RS13795 (VpaChn25_2632) - 3003605..3004681 (-) 1077 WP_162780936.1 tetratricopeptide repeat protein -
  vpachn25_RS13800 (VpaChn25_2633) - 3004678..3005523 (-) 846 WP_005497278.1 ExeA family protein -
  vpachn25_RS13805 (VpaChn25_2634) mshL 3005567..3007210 (-) 1644 WP_020835331.1 pilus (MSHA type) biogenesis protein MshL -
  vpachn25_RS13810 (VpaChn25_2635) - 3007231..3007560 (-) 330 WP_005481006.1 MSHA biogenesis protein MshK -
  vpachn25_RS13815 (VpaChn25_2636) gspM 3007553..3008203 (-) 651 WP_005497276.1 type II secretion system protein GspM -

Sequence

Protein


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

>NTDB_id=125249 vpachn25_RS13790 WP_005456306.1 3001884..3003608(-) (pilB) [Vibrio parahaemolyticus strain CHN25]
MKIQLRKRLGDLLVEEGIVSEDQIQQALSAQRSTGQKLGDALIDLGFITEKQMLEFLSQQLGLPLIDLGRAPVDADAVQI
LPEVHARRLRAMVVARNGDTLRVAMSDPADLFTQESLMNLLGEYNLEFIIASERQLISSFDRYYRRTKEIASFAEQLQAE
HQDVQSFDYGIDEADSEEVTVVKLVNSMFEDAVQVGASDIHIEPDDKVLRLRQRVDGVLHETILNEVNIASALVLRLKLM
AHLDISEKRLPQDGRFNIKVRGQSIDIRMSTLPTQYGESVVMRLLNQSSGLRPLEESGLPPELLARLRRQLSRPHGMILV
TGPTGSGKTTTLYGALSELNEPGKKIITAEDPVEYRLPRITQVQINSKIDLTFSRVLRTFLRQDPDIILIGEMRDQETVE
IGLRAALTGHLVLSTLHTNDAVDSALRMIDMGAPGYLVASAVRAVVAQRLVRRVCPDCKTQDHLDESRQQWLAGRFPNQV
GVTFHKGAGCQNCNLTGYRGRIGVFEMLELEHEMMDKLRANDAVGFAQAARRSENYKPLLASAMELALQGAVSLDEVMTL
GEGDASGKTDPIFM

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=125249 vpachn25_RS13790 WP_005456306.1 3001884..3003608(-) (pilB) [Vibrio parahaemolyticus strain CHN25]
ATGAAAATTCAGTTGAGAAAACGCTTAGGTGACCTACTTGTTGAAGAAGGCATCGTATCGGAAGATCAAATCCAGCAAGC
TCTATCCGCTCAGCGCAGTACCGGACAAAAATTAGGTGATGCCCTGATTGATCTCGGGTTTATTACCGAAAAGCAAATGC
TGGAGTTCTTGTCTCAGCAACTAGGATTACCGTTGATCGATCTTGGACGCGCTCCAGTGGATGCGGATGCGGTGCAAATA
CTGCCAGAAGTGCATGCTCGTCGTTTACGTGCAATGGTGGTGGCTCGTAATGGTGACACTCTACGTGTTGCGATGAGTGA
TCCGGCGGATCTGTTTACCCAAGAGTCTTTAATGAACTTGCTCGGTGAGTACAACCTTGAGTTCATCATAGCCTCTGAGC
GTCAGTTGATCAGCAGTTTCGACCGTTACTACCGCCGTACTAAAGAGATCGCGTCCTTTGCTGAGCAGTTACAAGCCGAG
CACCAAGACGTACAAAGCTTTGACTATGGCATCGATGAAGCCGACAGTGAAGAAGTCACCGTTGTAAAACTGGTTAATTC
GATGTTTGAAGACGCGGTGCAAGTTGGTGCATCGGATATCCATATCGAACCAGACGATAAAGTCCTGCGTTTACGCCAGC
GTGTCGATGGTGTGCTGCATGAAACCATTCTGAACGAAGTGAACATCGCTTCTGCATTGGTATTACGCCTTAAATTGATG
GCGCACTTGGATATTTCTGAGAAGCGTCTGCCACAAGATGGTCGCTTCAACATCAAAGTTCGTGGGCAATCGATTGATAT
TCGTATGTCGACGTTACCGACTCAGTACGGTGAATCGGTCGTAATGCGTCTGCTTAACCAGTCGTCAGGCTTACGTCCAT
TAGAAGAATCGGGTTTACCGCCTGAGCTACTGGCGCGCTTGCGTCGTCAGTTATCTCGTCCTCATGGCATGATTTTGGTA
ACCGGCCCTACGGGGTCGGGTAAAACCACGACACTTTACGGCGCGTTGAGTGAGCTCAATGAACCGGGTAAAAAGATCAT
CACCGCAGAAGATCCGGTGGAATACCGTTTACCACGTATCACGCAAGTACAGATCAACAGCAAGATCGACTTAACGTTTT
CACGCGTGCTACGCACCTTCTTACGCCAAGACCCAGACATCATTTTGATTGGTGAGATGCGCGACCAAGAGACGGTAGAG
ATTGGCTTACGAGCAGCATTAACTGGTCACTTAGTATTGAGTACGTTGCATACCAACGATGCGGTCGACAGCGCACTGCG
TATGATCGACATGGGGGCGCCAGGCTATCTCGTTGCCAGTGCCGTGCGTGCCGTTGTAGCTCAGCGATTGGTTCGCCGTG
TTTGTCCAGATTGTAAAACTCAAGATCATCTCGATGAGTCGCGTCAACAATGGTTAGCGGGGCGTTTTCCAAATCAAGTT
GGGGTGACTTTCCACAAAGGAGCAGGTTGTCAAAACTGTAATTTGACGGGGTATCGAGGTCGAATCGGTGTGTTTGAAAT
GCTTGAGCTGGAACATGAGATGATGGACAAGCTGCGTGCGAATGATGCGGTTGGCTTTGCACAAGCGGCTCGACGTTCAG
AAAACTACAAACCGCTTCTTGCCTCAGCAATGGAGCTTGCGCTGCAAGGTGCTGTGAGCCTGGATGAAGTGATGACCCTC
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

Multiple sequence alignment