Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OFY13_RS02340 Genome accession   NZ_CP110188
Coordinates   484403..486091 (-) Length   562 a.a.
NCBI ID   WP_000957192.1    Uniprot ID   -
Organism   Vibrio cholerae strain E1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 479403..491091
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OFY13_RS02315 (OFY13_02315) yacG 480469..480666 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  OFY13_RS02320 (OFY13_02320) zapD 480824..481564 (-) 741 WP_000207194.1 cell division protein ZapD -
  OFY13_RS02325 (OFY13_02325) coaE 481596..482204 (-) 609 WP_000011556.1 dephospho-CoA kinase -
  OFY13_RS02330 (OFY13_02330) pilD 482201..483076 (-) 876 WP_000418751.1 A24 family peptidase Machinery gene
  OFY13_RS02335 (OFY13_02335) pilC 483134..484360 (-) 1227 WP_000648513.1 type II secretion system F family protein Machinery gene
  OFY13_RS02340 (OFY13_02340) pilB 484403..486091 (-) 1689 WP_000957192.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OFY13_RS02345 (OFY13_02345) - 486091..486576 (-) 486 WP_000649332.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OFY13_RS02350 (OFY13_02350) nadC 486821..487711 (-) 891 WP_000665278.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OFY13_RS02355 (OFY13_02355) ampD 488009..488554 (+) 546 WP_000567319.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OFY13_RS02360 (OFY13_02360) fldB 488705..489223 (-) 519 WP_000690112.1 flavodoxin FldB -
  OFY13_RS02365 (OFY13_02365) xerD 489361..490269 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  OFY13_RS02370 (OFY13_02370) dsbC 490286..491038 (+) 753 WP_000115049.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62197.32 Da        Isoelectric Point: 6.2600

>NTDB_id=752936 OFY13_RS02340 WP_000957192.1 484403..486091(-) (pilB) [Vibrio cholerae strain E1]
MLTNLVAILRQAELISAMQEQAVVTQVSASGTSVPEALLGLGFFHPRELTEQLSHIFGLQETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=752936 OFY13_RS02340 WP_000957192.1 484403..486091(-) (pilB) [Vibrio cholerae strain E1]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGATGCAAGAACAAGCGGTGGTTACCCAGGT
TAGCGCTTCGGGGACGTCAGTACCCGAGGCGCTGCTTGGTTTAGGTTTTTTTCACCCCCGAGAACTCACCGAACAACTGA
GCCATATTTTCGGCTTGCAGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTCGGGCTGCGTGAA
CTGATCACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTGGCGGTCTCTGACCCAACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCGACTGGGCTGCAAGTCGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCGG
CGATTCGCCGTTTGTATGGCAGATCTATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCGATTGAAGATCTCAGCCAAGATGACTCGCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTACGTAAAGGTGCCTCGGATATTCATTTTGAGCCTTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAATGCCCTCAAAAGACCGCAAGGGATGATC
TTGATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTAGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCGGATGTGGTGATGGTCGGCGAAATACGCGATCTGGAAACC
GCCGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCAACACTGCACACCAACTCGGCCGCTGAAACCGT
GATTCGCTTAGCCAATATGGGGGTGGAGCCGTTTAACCTCGCGTCCTCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCTTGTGTAAACATTGCAAAATCGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCATTTCAGCCCAATGAA
ATCTTGTATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

Domains

Predicted by InterproScan.

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

(39-141)

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

98.754

100

0.988
  pilB Vibrio parahaemolyticus RIMD 2210633

74.021

100

0.74
  pilB Vibrio campbellii strain DS40M4

73.843

100

0.738
  pilB Legionella pneumophila strain ERS1305867

52.642

90.925

0.479
  pilB Acinetobacter baylyi ADP1

50.192

92.527

0.464
  pilB Acinetobacter baumannii D1279779

50

92.527

0.463
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

36.65

100

0.393
  pilF Thermus thermophilus HB27

39.483

96.441

0.381
  pilB Haemophilus influenzae 86-028NP

39.469

93.772

0.37