Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NP165_RS10985 Genome accession   NZ_CP102096
Coordinates   2352935..2354623 (+) Length   562 a.a.
NCBI ID   WP_257084005.1    Uniprot ID   -
Organism   Vibrio japonicus strain JCM 31412     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2347935..2359623
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NP165_RS10955 (NP165_10955) - 2348190..2348933 (-) 744 WP_257084000.1 thioredoxin fold domain-containing protein -
  NP165_RS10960 (NP165_10960) xerD 2348961..2349857 (-) 897 WP_257085590.1 site-specific tyrosine recombinase XerD -
  NP165_RS10965 (NP165_10965) fldB 2350020..2350541 (+) 522 WP_257084001.1 flavodoxin FldB -
  NP165_RS10970 (NP165_10970) ampD 2350608..2351159 (-) 552 WP_257084002.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NP165_RS10975 (NP165_10975) nadC 2351292..2352194 (+) 903 WP_257084003.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NP165_RS10980 (NP165_10980) - 2352453..2352935 (+) 483 WP_257084004.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NP165_RS10985 (NP165_10985) pilB 2352935..2354623 (+) 1689 WP_257084005.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NP165_RS10990 (NP165_10990) pilC 2354637..2355863 (+) 1227 WP_257084006.1 type II secretion system F family protein Machinery gene
  NP165_RS10995 (NP165_10995) pilD 2355930..2356799 (+) 870 WP_257084007.1 A24 family peptidase Machinery gene
  NP165_RS11000 (NP165_11000) coaE 2356801..2357409 (+) 609 WP_257084008.1 dephospho-CoA kinase -
  NP165_RS11005 (NP165_11005) zapD 2357444..2358184 (+) 741 WP_257084009.1 cell division protein ZapD -
  NP165_RS11010 (NP165_11010) yacG 2358242..2358436 (+) 195 WP_257084010.1 DNA gyrase inhibitor YacG -
  NP165_RS11015 (NP165_11015) rplS 2358638..2358991 (-) 354 WP_257084011.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62040.83 Da        Isoelectric Point: 4.9574

>NTDB_id=714357 NP165_RS10985 WP_257084005.1 2352935..2354623(+) (pilB) [Vibrio japonicus strain JCM 31412]
MLTNLPSILHKACLIDSSQEEQILEYINASGQSVPEALTTLNIFSSHDLTNQLSSIFGLPVTKPDQFNYSELCNTLGLRE
LITRSHALPLQQSGALLTVAIADPADMSIEDDFRFATGLQIELVLADFKDLQSAIRKLYGKSISGAQNSKKEINEQELAN
LVDVSDDEINLIEDLSQDDAPVSRYINQILLDAVRKGASDIHFEPYEESYRVRLRCDGILIETQQPAHHLSRRLSARIKI
LSKLDISERRLPQDGRIKLKLNQDTAIDMRVSTLPTLWGEKIVLRLLDSSEANLNIDVLGYNDVQKALYVQALKKPQGMI
LMTGPTGSGKTVSLYTGLRILNTPEVNIATAEDPVEINLPGINQVQVQPQIGFGFAQALRAFLRQDPDIVMVGEIRDFET
AEIAVKAAQTGHLVLSTLHTNSAAESVVRLSNMGIELFNIASSLSLIIAQRLARRLCSHCKVPYIPSPEVNERFELESGL
TIYKASPNGCSECNNGYSGRVGIYEVMNFSAALSQAVAEGASIQQIERIARQEGMKTLKESGVEKLLQGTTSLQELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=714357 NP165_RS10985 WP_257084005.1 2352935..2354623(+) (pilB) [Vibrio japonicus strain JCM 31412]
ATGCTCACTAACTTACCTTCAATCTTGCACAAAGCTTGCTTGATCGATTCAAGCCAAGAAGAGCAAATATTGGAATACAT
TAATGCTTCAGGCCAATCTGTGCCTGAAGCATTAACTACTTTGAATATTTTTAGTAGTCACGATTTAACCAACCAACTTT
CTAGTATATTTGGCTTGCCTGTAACAAAACCAGATCAGTTCAACTACTCTGAACTTTGCAACACCTTAGGTTTACGTGAA
TTAATTACTCGTTCACATGCTTTGCCTTTACAACAGAGTGGAGCACTTTTGACAGTTGCGATAGCTGATCCAGCCGACAT
GAGTATTGAAGACGATTTCCGCTTCGCGACAGGTTTACAAATAGAACTAGTGCTGGCTGACTTTAAAGATCTTCAAAGCG
CAATAAGGAAACTATACGGAAAGTCAATCTCTGGCGCTCAAAACAGCAAGAAAGAGATCAATGAACAAGAACTCGCTAAC
TTAGTTGATGTTTCTGATGACGAAATAAACTTAATCGAAGATTTGAGCCAAGACGATGCCCCTGTTAGCCGCTACATCAA
CCAAATTTTGTTGGATGCGGTCCGAAAAGGTGCGTCCGATATCCATTTTGAACCGTACGAAGAATCTTACCGAGTTCGCC
TTCGTTGTGATGGCATCTTAATAGAGACGCAGCAACCAGCCCACCACCTAAGCCGCCGTTTATCTGCACGAATAAAAATT
CTGTCCAAACTTGATATATCCGAACGCCGTTTACCTCAGGATGGACGCATTAAGCTGAAACTCAATCAGGACACCGCAAT
TGATATGCGTGTTTCTACTCTGCCGACGCTGTGGGGTGAAAAAATTGTACTTCGTCTACTCGATAGCAGTGAAGCGAACT
TAAATATTGATGTTTTAGGCTACAACGACGTGCAGAAAGCACTGTACGTTCAAGCTCTGAAAAAGCCTCAAGGCATGATT
TTGATGACTGGCCCTACGGGAAGTGGAAAAACCGTATCGCTCTACACAGGGTTAAGAATTCTCAATACGCCCGAGGTGAA
TATTGCAACGGCCGAAGACCCTGTTGAAATTAACTTACCCGGAATCAACCAAGTACAAGTGCAGCCTCAAATCGGTTTTG
GCTTCGCACAGGCGTTAAGAGCCTTCCTGCGTCAAGACCCTGACATTGTCATGGTGGGCGAAATTCGCGACTTTGAAACC
GCAGAAATCGCCGTTAAAGCCGCACAGACTGGCCACTTAGTTCTGTCTACTCTGCACACAAACTCAGCAGCAGAGAGTGT
AGTTCGCTTAAGTAATATGGGAATAGAGCTTTTTAACATCGCTTCATCTCTCAGCTTGATCATCGCTCAACGTCTTGCTC
GTCGATTGTGTTCACACTGCAAAGTTCCTTATATCCCTTCGCCAGAGGTCAATGAACGGTTCGAGCTTGAATCAGGATTA
ACCATTTATAAGGCATCACCTAATGGCTGCTCGGAGTGTAACAACGGCTATTCGGGACGCGTCGGTATTTATGAAGTGAT
GAATTTCAGCGCAGCTTTATCGCAAGCCGTTGCGGAAGGCGCAAGCATCCAGCAGATTGAACGCATCGCACGCCAAGAAG
GGATGAAAACGCTAAAAGAGTCTGGCGTTGAAAAGTTGCTGCAAGGGACAACGAGCTTACAAGAGCTGCAGCGCGTCCTG
TATTTATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(39-141)


Secondary structure

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



3D structure

Source ID Structure

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 Vibrio cholerae strain A1552

71.174

100

0.712
  pilB Vibrio campbellii strain DS40M4

69.395

100

0.694
  pilB Vibrio parahaemolyticus RIMD 2210633

69.039

100

0.69
  pilB Acinetobacter baumannii D1279779

51.243

93.06

0.477
  pilB Legionella pneumophila strain ERS1305867

47.321

99.644

0.472
  pilB Acinetobacter baylyi ADP1

52.041

87.189

0.454
  pilF Neisseria gonorrhoeae MS11

44.424

97.331

0.432
  pilB/pilB1 Synechocystis sp. PCC 6803

37.583

100

0.404
  pilF Thermus thermophilus HB27

38.188

100

0.383
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.364

97.865

0.375
  pilB Haemophilus influenzae 86-028NP

39.279

93.772

0.368