Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VS_RS12010 Genome accession   NC_011753
Coordinates   2739964..2741649 (+) Length   561 a.a.
NCBI ID   WP_041472903.1    Uniprot ID   -
Organism   Vibrio atlanticus     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2734964..2746649
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VS_RS11980 (VS_2543) pdhR 2736481..2737242 (-) 762 WP_009847596.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VS_RS11990 (VS_2545) ampD 2737725..2738325 (-) 601 Protein_2343 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VS_RS12000 (VS_2546) nadC 2738409..2739299 (+) 891 WP_012604742.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VS_RS12005 (VS_2547) pilA 2739554..2739964 (+) 411 WP_009847601.1 pilin Machinery gene
  VS_RS12010 (VS_2548) pilB 2739964..2741649 (+) 1686 WP_041472903.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VS_RS12015 (VS_2549) pilC 2741665..2742891 (+) 1227 WP_012604744.1 type II secretion system F family protein Machinery gene
  VS_RS12020 (VS_2550) pilD 2742960..2743829 (+) 870 WP_012604745.1 prepilin peptidase Machinery gene
  VS_RS12025 coaE 2743832..2744453 (+) 622 Protein_2349 dephospho-CoA kinase -
  VS_RS12030 (VS_2553) zapD 2744480..2745220 (+) 741 WP_012604748.1 cell division protein ZapD -
  VS_RS12035 (VS_2554) yacG 2745301..2745498 (+) 198 WP_012604749.1 DNA gyrase inhibitor YacG -
  VS_RS12040 (VS_2555) rplS 2745814..2746167 (-) 354 WP_009847607.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62232.95 Da        Isoelectric Point: 4.9795

>NTDB_id=32286 VS_RS12010 WP_041472903.1 2739964..2741649(+) (pilB) [Vibrio atlanticus]
MLTNLPTVLRQANLLSLTQEQAVAEHVQASGISTPEALLTLGLFTSESLANNIKTIFGLPLVQLANTDYEILCDQLGLRE
LITKYRAIPVVLTNSTLTLASADPTDLQAEDDFRFATGLQIELVVANYSELEGAIRKLYGRSISGQDSKRKEITQDELAN
LVEVSDDEMSSIEDLSQDDSPVSRFINQILVDAVRKGASDIHFEPYEENYRVRLRCDGILVEVQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYSEDQKALYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRMLNTSERNISTAEDPVEINLCGINQVQVTPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSASETVTRLAHMGIEPFNLASSLSLIIAQRLARRLCNHCKAADNSPDIFLRHSIPNSQN
IYQANPQGCNECNQGYSGRVGIYEVMPFTDKLKNSLINKPNALEIEDLARREGMRTLQESGIDKLLEGTTSYQELQRVLY
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=32286 VS_RS12010 WP_041472903.1 2739964..2741649(+) (pilB) [Vibrio atlanticus]
GTGCTAACCAACCTCCCAACAGTTCTCCGTCAGGCTAACTTACTTAGCCTGACTCAAGAACAAGCCGTTGCGGAACATGT
ACAAGCTTCAGGTATTTCTACACCTGAAGCTTTGCTCACTCTGGGCTTATTCACCAGCGAGAGCCTCGCTAATAACATCA
AAACCATTTTCGGTTTGCCGTTAGTGCAACTGGCCAATACTGACTATGAAATCTTGTGTGACCAATTGGGACTTCGAGAA
TTGATCACTAAGTATCGTGCTATCCCAGTTGTCCTCACTAACTCTACTCTCACGCTCGCCTCTGCCGATCCAACCGACTT
GCAAGCTGAAGACGATTTTAGATTCGCGACTGGATTGCAGATAGAACTCGTTGTCGCTAACTATTCAGAATTAGAAGGCG
CCATACGAAAGCTGTATGGTCGCTCTATTTCCGGGCAAGACTCTAAGCGCAAAGAGATCACCCAAGATGAGCTCGCCAAT
CTTGTTGAAGTCTCTGACGATGAAATGAGTTCAATTGAAGATCTCAGTCAAGACGATTCCCCTGTCAGTCGATTTATCAA
TCAGATACTGGTTGATGCGGTGCGTAAAGGCGCATCAGACATCCACTTCGAACCTTATGAAGAAAACTACCGAGTGCGTC
TGCGTTGCGATGGCATTCTTGTTGAGGTCCAACAGCCCGCGTCTCATTTAAGCCGTCGGTTATCCGCTCGTTTAAAGATT
CTCGCCAAACTTGATATCGCTGAACGTCGCTTACCTCAAGACGGCCGTATTAAGCTGCGTTTGAACGACGAGCTGGCGAT
CGATATGCGTGTGTCGACTCTACCGACATTGTGGGGAGAAAAGATCGTACTGCGTCTTCTAGACAGCAGCGCAGCCAATT
TAGATATCGATAAATTAGGTTACAGCGAGGATCAAAAAGCGCTCTATCTCAATGCCCTAAAACGCCCGCAAGGGATGATC
TTAATGACTGGGCCCACAGGCAGTGGCAAAACGGTCTCTCTTTACACTGGACTTCGCATGCTTAACACCTCTGAGCGTAA
TATCTCAACAGCTGAAGATCCGGTGGAGATCAACCTGTGTGGTATCAATCAGGTACAGGTGACGCCAAAGATCGGTTTTG
GGTTTGCCGAAGCACTACGATCGTTCTTGCGACAAGACCCTGATGTAGTGATGGTCGGTGAGATCCGTGATTTAGAAACC
GCAGAGATCGCGATCAAAGCGTCGCAAACGGGTCACTTAGTCCTCTCGACACTCCATACTAACTCAGCTTCGGAAACCGT
GACTCGGCTCGCCCATATGGGGATTGAGCCCTTTAACCTCGCTTCGTCATTGAGCCTGATTATCGCGCAGCGACTGGCAA
GGCGACTGTGCAACCACTGTAAAGCAGCTGACAACTCGCCGGACATATTTTTACGTCACTCTATTCCTAATAGCCAAAAC
ATCTACCAAGCCAATCCTCAAGGATGCAATGAGTGTAATCAGGGTTACTCCGGTCGAGTGGGTATCTACGAAGTGATGCC
GTTTACCGACAAACTAAAAAATAGTCTGATTAATAAACCTAACGCGTTAGAGATTGAAGATCTCGCGCGTAGAGAAGGAA
TGAGAACACTGCAAGAATCCGGTATCGATAAGTTGCTTGAAGGCACCACCAGCTATCAAGAACTGCAACGTGTTCTGTAT
CTATAA

Domains

Predicted by InterproScan.

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

(38-141)

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

73.357

100

0.736
  pilB Vibrio parahaemolyticus RIMD 2210633

71.352

100

0.715
  pilB Vibrio campbellii strain DS40M4

70.996

100

0.711
  pilB Legionella pneumophila strain ERS1305867

48.364

98.039

0.474
  pilB Acinetobacter baumannii D1279779

50.581

91.979

0.465
  pilB Acinetobacter baylyi ADP1

49.225

91.979

0.453
  pilF Neisseria gonorrhoeae MS11

43.794

100

0.44
  pilF Thermus thermophilus HB27

37.59

99.109

0.373

Multiple sequence alignment