Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WDM00_RS02535 Genome accession   NZ_CP147726
Coordinates   523725..525413 (-) Length   562 a.a.
NCBI ID   WP_367007827.1    Uniprot ID   -
Organism   Vibrio cholerae strain CNCTC 6536     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 518725..530413
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WDM00_RS02510 (WDM00_02510) yacG 519791..519988 (-) 198 WP_367007825.1 DNA gyrase inhibitor YacG -
  WDM00_RS02515 (WDM00_02515) zapD 520146..520886 (-) 741 WP_000207194.1 cell division protein ZapD -
  WDM00_RS02520 (WDM00_02520) coaE 520918..521526 (-) 609 WP_337227815.1 dephospho-CoA kinase -
  WDM00_RS02525 (WDM00_02525) pilD 521523..522398 (-) 876 WP_000418747.1 A24 family peptidase Machinery gene
  WDM00_RS02530 (WDM00_02530) pilC 522456..523682 (-) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  WDM00_RS02535 (WDM00_02535) pilB 523725..525413 (-) 1689 WP_367007827.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WDM00_RS02540 (WDM00_02540) pilA 525420..525842 (-) 423 WP_148553901.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  WDM00_RS02545 (WDM00_02545) nadC 526087..526977 (-) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  WDM00_RS02550 (WDM00_02550) ampD 527279..527824 (+) 546 WP_148553902.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WDM00_RS02555 (WDM00_02555) fldB 528006..528524 (-) 519 WP_019828645.1 flavodoxin FldB -
  WDM00_RS02560 (WDM00_02560) xerD 528662..529570 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  WDM00_RS02565 (WDM00_02565) dsbC 529587..530339 (+) 753 WP_000115049.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62101.17 Da        Isoelectric Point: 6.2025

>NTDB_id=948226 WDM00_RS02535 WP_367007827.1 523725..525413(-) (pilB) [Vibrio cholerae strain CNCTC 6536]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFTTGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFIHQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=948226 WDM00_RS02535 WP_367007827.1 523725..525413(-) (pilB) [Vibrio cholerae strain CNCTC 6536]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGACGCAAGAGCAAGCGGTGGTTACCCAGGT
TAGCGCTTCGGGGACTTCAGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAACTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTCGGGCTGCGTGAA
CTGATCACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTCGCGGTCTCTGACCCAACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTACCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGACGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCCA
CCAAGTGCTGCTCGATGCGGTACGTAAAGGTGCCTCGGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTAAAAAGACCGCAAGGGATGATT
TTGATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTTAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTAAAAGCCGCACAAACCGGTCACTTGGTGCTTTCCACCCTGCACACCAACTCAGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACACTGCAAAATCGCGGTGCGTCCTTCCGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTATATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCAGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(41-141)


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

99.288

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

73.488

100

0.735
  pilB Vibrio campbellii strain DS40M4

73.31

100

0.733
  pilB Legionella pneumophila strain ERS1305867

51.619

93.416

0.482
  pilB Acinetobacter baylyi ADP1

50.29

91.993

0.463
  pilB Acinetobacter baumannii D1279779

50.097

91.993

0.461
  pilF Neisseria gonorrhoeae MS11

45.552

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

36.833

100

0.393
  pilF Thermus thermophilus HB27

39.926

96.263

0.384
  pilB Haemophilus influenzae 86-028NP

39.469

93.772

0.37
  pilB Haemophilus influenzae Rd KW20

39.089

93.772

0.367