Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPY12_RS02340 Genome accession   NZ_CP053794
Coordinates   484260..485948 (-) Length   562 a.a.
NCBI ID   WP_057567631.1    Uniprot ID   -
Organism   Vibrio cholerae strain W10G     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 479260..490948
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY12_RS02315 (HPY12_02315) yacG 480326..480523 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  HPY12_RS02320 (HPY12_02320) zapD 480681..481421 (-) 741 WP_000207194.1 cell division protein ZapD -
  HPY12_RS02325 (HPY12_02325) coaE 481453..482061 (-) 609 WP_057567633.1 dephospho-CoA kinase -
  HPY12_RS02330 (HPY12_02330) pilD 482058..482933 (-) 876 WP_057567632.1 A24 family peptidase Machinery gene
  HPY12_RS02335 (HPY12_02335) pilC 482991..484217 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  HPY12_RS02340 (HPY12_02340) pilB 484260..485948 (-) 1689 WP_057567631.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY12_RS02345 (HPY12_02345) pilA 485955..486374 (-) 420 WP_057567630.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  HPY12_RS02350 (HPY12_02350) nadC 486619..487509 (-) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPY12_RS02355 (HPY12_02355) ampD 487807..488352 (+) 546 WP_057567629.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HPY12_RS02360 (HPY12_02360) fldB 488473..488991 (-) 519 WP_000690112.1 flavodoxin FldB -
  HPY12_RS02365 (HPY12_02365) xerD 489129..490037 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  HPY12_RS02370 (HPY12_02370) dsbC 490054..490806 (+) 753 WP_175234136.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62018.12 Da        Isoelectric Point: 6.0856

>NTDB_id=447315 HPY12_RS02340 WP_057567631.1 484260..485948(-) (pilB) [Vibrio cholerae strain W10G]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHPQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAT
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYEAQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=447315 HPY12_RS02340 WP_057567631.1 484260..485948(-) (pilB) [Vibrio cholerae strain W10G]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAATTAATCAGCGCGACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGAACTTCAGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACCCCCAAGAACTGACCGAGCAACTAA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTCGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTTGCGGTCTCTGACCCGACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCGACTGGGCTGCAAGTCGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGATCGATTCAAGGTGCCGCCAATCAGGGTAAAGAGATCAGCCAAGATGAGCTCGCCACT
CTGGTTAAAGTCAGTGATGACGAACTGCAATCGATCGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGACATTCATTTTGAGCCTTATGAAGCGCAATACCGCATTCGCC
TGCGCTGTGATGGTATTTTGGTGGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGTTTGCCGCAAGACGGGCGAATTAAACTGCGCCTAAGCCGCGATACCGCGAT
TGATATGCGCGTTTCAACACTCCCAACCTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTACCTCAACGCCCTCAAAAGACCACAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTTAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTAGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAACCGAAAATCGGCTTTG
GCTTCGCCGAAGCGCTACGCTCGTTTCTACGTCAAGACCCTGATGTGGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTAAAAGCCGCACAAACCGGTCACTTGGTGCTTTCCACCCTGCACACCAACTCAGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAATCTGGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGCCAATTTGCATTTCAACCCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTACAGCGTGTGCTT
TATTTTTAA

Domains

Predicted by InterproScan.

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

(40-141)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

99.11

100

0.991
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.488

100

0.735
  pilB Legionella pneumophila strain ERS1305867

52.838

90.925

0.48
  pilB Acinetobacter baylyi ADP1

50.385

92.527

0.466
  pilB Acinetobacter baumannii D1279779

50

92.883

0.464
  pilF Neisseria gonorrhoeae MS11

45.907

100

0.459
  pilB/pilB1 Synechocystis sp. PCC 6803

36.667

100

0.391
  pilF Thermus thermophilus HB27

39.483

96.441

0.381
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.279

93.772

0.368