Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ITG12_RS14075 Genome accession   NZ_CP080238
Coordinates   3002309..3003994 (-) Length   561 a.a.
NCBI ID   WP_038878901.1    Uniprot ID   -
Organism   Vibrio sp. ED002     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2997309..3008994
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ITG12_RS14045 (ITG12_13965) rplS 2997792..2998145 (+) 354 WP_038870475.1 50S ribosomal protein L19 -
  ITG12_RS14050 (ITG12_13970) yacG 2998471..2998665 (-) 195 WP_038870477.1 DNA gyrase inhibitor YacG -
  ITG12_RS14055 (ITG12_13975) zapD 2998730..2999470 (-) 741 WP_038870479.1 cell division protein ZapD -
  ITG12_RS14060 (ITG12_13980) coaE 2999498..3000112 (-) 615 WP_038870481.1 dephospho-CoA kinase -
  ITG12_RS14065 (ITG12_13985) pilD 3000113..3000982 (-) 870 WP_038870483.1 A24 family peptidase Machinery gene
  ITG12_RS14070 (ITG12_13990) pilC 3001054..3002277 (-) 1224 WP_038878900.1 type II secretion system F family protein Machinery gene
  ITG12_RS14075 (ITG12_13995) pilB 3002309..3003994 (-) 1686 WP_038878901.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ITG12_RS14080 (ITG12_14000) pilA 3003994..3004398 (-) 405 WP_038878904.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  ITG12_RS14085 (ITG12_14005) nadC 3004663..3005550 (-) 888 WP_038878907.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ITG12_RS14090 (ITG12_14010) ampD 3005643..3006194 (+) 552 WP_038870491.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ITG12_RS14095 (ITG12_14015) pdhR 3006598..3007365 (+) 768 WP_038870493.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62027.71 Da        Isoelectric Point: 5.2826

>NTDB_id=591587 ITG12_RS14075 WP_038878901.1 3002309..3003994(-) (pilB) [Vibrio sp. ED002]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLNSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRSSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGADEIDNIEDLSQDEAPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILVESQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLNIDRLGYSDEQKQLYLDALKRPQGMI
LMTGPTGSGKTVSLYTGLSLLNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFSEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPQCKQPQEPNAQLQHIGIHSTEN
IFQANPDGCNECTQGYSGRTGIYEVMRFDETLSEALIKGASVHELEKLAIKNGMHTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=591587 ITG12_RS14075 WP_038878901.1 3002309..3003994(-) (pilB) [Vibrio sp. ED002]
GTGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTAACCTTCTCCCAAGAAGAATCGTTACTTGAGCAAGC
TAAAGCTTCTGGCATTTCAATGCCGGAGGCTTTGCTCAATTCTGGTTTTTTCCAATCTCATGAATTGACGGAGCACCTAA
GCTCTGTTTTTGGGCTTTCTTGCACCTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACGCTGGGCTTACGTGAT
CTGATCACTCGCCATAATGCTCTGCCACTTAATCGCAGTTCTTCTACTTTGATATTGGCGGTGGCTGATCCGACTAATCT
TCAGGCTGAAGATGACTTTCGTTTTGCGACAGGACTACAGGTTGAGCTTGTTCTTGCGGATTTTCGTGAACTCAGTGCGG
CAATTAGGCGCTTATATGGTCGAGCACTAGGACAAGAAAAGTCCGGATTAAAAGAGATCAACCAAGATGAACTGGCAGGT
CTGGTTGATATTGGTGCAGATGAAATCGACAACATCGAAGACCTCAGCCAAGACGAAGCACCTGTCAGTCGTTACATTAA
TCAGATTTTGTTGGATGCCGTGCGTAAAGGCGCTTCGGATATTCACTTTGAACCCTACGAAAACATGTATCGCGTGCGCT
TACGTTGTGATGGTATTCTCGTTGAAAGCCAACAACCACCGAGTCATTTAAGTCGCCGTTTATCGGCGCGTATTAAAATC
TTATCCAAACTCGATATCGCCGAGCGACGCTTACCGCAAGATGGTCGTATCAAGCTTAAGCTAAACCAAGATACTGCAAT
TGATATGCGCGTATCGACACTACCAACGCTATTCGGCGAAAAAATAGTACTGCGTTTGCTCGACAGCAGCTCCGCCTCAC
TAAATATTGACCGCTTGGGTTACAGCGATGAGCAGAAGCAACTTTATCTGGATGCGCTAAAACGGCCACAAGGCATGATT
TTAATGACAGGCCCGACGGGAAGTGGCAAAACCGTCTCGCTCTATACAGGCTTAAGTCTTCTAAACAAAACAGAGATCAA
TATCTCTACAGCGGAAGACCCCGTTGAAATTAACCTGCCTGGCATCAACCAAGTGCAAGTCCAGCCCAAAATTGGCTTTG
GTTTTTCTGAAGCACTTCGTTCTTTCTTACGTCAGGATCCTGATGTGGTCATGGTGGGTGAGATCCGCGATCTAGACACG
GCAGAAATCGCTATTAAAGCCTCACAAACTGGCCACTTAGTTCTGTCTACTCTGCACACCAACTCTGCCGCTGAAACCGT
GATTCGCTTATCCAATATGGGGGTTGAGAGCTTTAACCTTGCTTCATCATTGAGCTTGATCATCGCTCAACGCTTGGCAA
GAAAGCTATGCCCTCAGTGCAAACAACCTCAAGAGCCGAATGCACAACTGCAACATATTGGCATCCACTCCACGGAAAAC
ATCTTTCAAGCGAACCCAGATGGCTGTAACGAATGTACCCAAGGTTATTCTGGTCGAACCGGCATTTATGAAGTGATGCG
CTTTGACGAGACGCTTTCCGAAGCACTAATCAAAGGCGCATCCGTTCATGAATTAGAAAAACTTGCTATCAAAAACGGCA
TGCACACCTTACAAATGTCCGGTATAGAAAAACTCAAACAAGGCATCACCAGCTTTAGCGAATTGCAACGCGTTCTCTAC
TTCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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 campbellii strain DS40M4

94.296

100

0.943
  pilB Vibrio parahaemolyticus RIMD 2210633

89.305

100

0.893
  pilB Vibrio cholerae strain A1552

72.954

100

0.731
  pilB Legionella pneumophila strain ERS1305867

49.723

96.435

0.48
  pilB Acinetobacter baylyi ADP1

48.022

99.109

0.476
  pilB Acinetobacter baumannii D1279779

51.252

92.513

0.474
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.937

100

0.406
  pilF Thermus thermophilus HB27

36.429

99.822

0.364