Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPX87_RS03955 Genome accession   NZ_CP046815
Coordinates   847929..849617 (+) Length   562 a.a.
NCBI ID   WP_078926032.1    Uniprot ID   -
Organism   Vibrio cincinnatiensis strain 1398-82     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 842929..854617
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX87_RS03925 dsbC 843335..844078 (-) 744 WP_078926037.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  GPX87_RS03930 xerD 844094..845002 (-) 909 WP_078926036.1 site-specific tyrosine recombinase XerD -
  GPX87_RS03935 fldB 845146..845664 (+) 519 WP_078926035.1 flavodoxin FldB -
  GPX87_RS03940 ampD 845671..846216 (-) 546 WP_078926149.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPX87_RS03945 nadC 846414..847304 (+) 891 WP_078926034.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPX87_RS03950 - 847501..847926 (+) 426 WP_078926033.1 pilin -
  GPX87_RS03955 pilB 847929..849617 (+) 1689 WP_078926032.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX87_RS03960 pilC 849638..850864 (+) 1227 WP_078926031.1 type II secretion system F family protein Machinery gene
  GPX87_RS03965 pilD 850905..851771 (+) 867 WP_078926030.1 A24 family peptidase Machinery gene
  GPX87_RS03970 coaE 851777..852391 (+) 615 WP_078926029.1 dephospho-CoA kinase -
  GPX87_RS03975 zapD 852417..853157 (+) 741 WP_078926028.1 cell division protein ZapD -
  GPX87_RS03980 yacG 853215..853412 (+) 198 WP_078926027.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62413.28 Da        Isoelectric Point: 5.1427

>NTDB_id=408257 GPX87_RS03955 WP_078926032.1 847929..849617(+) (pilB) [Vibrio cincinnatiensis strain 1398-82]
MLTNLIAILRQAQLMSLAQEQAVVDHIQTSGASVPEALLALDIFHHHDLTEHLSQIFGLPETDVTRFDYASLCQQLGLRE
LITQYQALPLQRNGQVLTLAVSDPTHLQIEDEFRFATGLQIELVLADYKALQAAIRRLYGRTINHATAQGKEISQDELAD
LVQISDDEKQSVEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYEQQYRIRLRCDGILVQIQQPASHLGRRLAARIKI
LSKLDIAERRLPQDGRIKLRLNADTAIDMRVSTLPTLWGEKIVLRLLDSSSASLDIDKLGYNDTQKQLYLNALKQPQGMI
LMTGPTGSGKTVSLYTGLSILNTEDVNISTAEDPVEINLPGINQVQVQPKIGFGFAQALRSFLRQDPDIVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGIEPFNLASSLSLIIAQRLARRLCPHCKEAYFPSLTEQQQFALDADQ
TIYQAHSNGCNECTNGYSGRVGIYEVMAFEPQLAEAIMQKASITQIEAIAQTNGMQTLQQSGIEKLKIGITSIQELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=408257 GPX87_RS03955 WP_078926032.1 847929..849617(+) (pilB) [Vibrio cincinnatiensis strain 1398-82]
ATGCTTACCAACCTTATTGCTATCTTGCGACAAGCTCAACTTATGAGTTTGGCGCAAGAGCAAGCCGTGGTCGACCATAT
CCAAACTTCCGGTGCCAGTGTACCGGAAGCTTTATTGGCTCTGGATATTTTTCACCACCATGATTTAACCGAACACCTAA
GCCAAATATTTGGTCTGCCCGAAACCGATGTAACTCGCTTTGACTACGCTTCATTGTGTCAACAGCTGGGTTTGCGAGAA
CTAATAACACAATACCAAGCCTTACCATTACAGCGGAACGGACAGGTACTGACCTTAGCCGTATCCGACCCCACACATCT
ACAAATTGAAGATGAATTTCGCTTTGCCACCGGGCTACAAATTGAACTAGTACTGGCGGACTATAAAGCCTTACAAGCGG
CCATTCGTAGATTGTATGGTCGAACAATCAACCATGCTACGGCGCAAGGTAAAGAGATCAGTCAAGATGAACTGGCTGAT
TTGGTACAGATCTCGGATGATGAAAAGCAATCCGTTGAAGATCTCAGCCAAGATGACTCTCCAGTGAGTCGCTTTATCAA
CCAAATATTATTGGATGCCGTCCGTAAAGGGGCCTCCGACATACACTTTGAGCCTTACGAACAGCAATACCGCATTCGCC
TACGCTGTGACGGAATTCTGGTGCAGATCCAGCAGCCCGCAAGCCACTTAGGACGACGGCTCGCTGCACGGATAAAAATT
CTCTCTAAACTGGATATTGCTGAACGCCGGCTCCCACAAGACGGGCGAATAAAACTGCGCTTAAATGCAGATACCGCCAT
CGATATGCGAGTTTCAACCCTTCCTACATTATGGGGAGAGAAAATTGTCCTGCGCTTACTCGATAGCAGTAGCGCAAGTT
TAGACATTGATAAGTTAGGTTATAACGATACACAAAAACAGCTTTACCTAAACGCGTTGAAACAGCCGCAAGGGATGATC
CTGATGACGGGGCCAACAGGAAGTGGCAAAACGGTTTCACTTTATACAGGCTTAAGCATTCTTAATACTGAAGATGTTAA
TATCTCTACCGCAGAAGATCCGGTGGAGATCAACCTTCCTGGCATTAATCAAGTCCAAGTTCAACCCAAAATTGGCTTTG
GCTTTGCCCAAGCGCTACGCTCATTTTTGCGTCAAGACCCTGATATTGTCATGGTTGGTGAAATCCGCGATTTAGAAACC
GCAGAAATCGCAGTCAAAGCCGCTCAAACAGGACACTTGGTTCTGTCAACGTTACACACCAACTCAGCCGCAGAAACCGT
CATTCGCTTAGCCAATATGGGCATAGAACCCTTTAACCTCGCCTCTTCACTCAGTTTAATCATTGCTCAGCGCTTAGCCA
GACGGTTATGTCCACACTGCAAAGAAGCCTATTTTCCAAGCTTAACCGAGCAACAACAGTTTGCGTTAGACGCCGATCAA
ACCATTTACCAAGCCCATTCGAATGGCTGTAACGAATGCACCAATGGTTACAGTGGACGAGTCGGTATTTATGAAGTGAT
GGCCTTTGAGCCTCAACTGGCTGAAGCCATTATGCAAAAAGCTTCCATTACTCAAATTGAAGCCATCGCTCAAACCAATG
GCATGCAAACTTTGCAGCAATCTGGCATAGAAAAACTCAAAATCGGCATCACCAGTATTCAAGAATTACAGCGTGTACTC
TATTTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(40-141)


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

81.673

100

0.817
  pilB Vibrio campbellii strain DS40M4

72.242

100

0.722
  pilB Vibrio parahaemolyticus RIMD 2210633

70.641

100

0.706
  pilB Legionella pneumophila strain ERS1305867

52.724

91.459

0.482
  pilB Acinetobacter baumannii D1279779

51.257

91.993

0.472
  pilB Acinetobacter baylyi ADP1

51.262

91.637

0.47
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.45
  pilB/pilB1 Synechocystis sp. PCC 6803

38.364

97.865

0.375

Multiple sequence alignment