Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RI132_RS12095 Genome accession   NZ_CP134783
Coordinates   2630405..2632093 (+) Length   562 a.a.
NCBI ID   WP_047108816.1    Uniprot ID   -
Organism   Vibrio vulnificus strain GCU-01     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2625405..2637093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RI132_RS12075 (RI132_12075) pdhR 2627031..2627798 (-) 768 WP_047108811.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  RI132_RS12080 (RI132_12080) ampD 2628187..2628759 (-) 573 WP_047108812.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RI132_RS12085 (RI132_12085) nadC 2628852..2629739 (+) 888 WP_047108814.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RI132_RS12090 (RI132_12090) - 2629962..2630405 (+) 444 WP_013571141.1 pilin -
  RI132_RS12095 (RI132_12095) pilB 2630405..2632093 (+) 1689 WP_047108816.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RI132_RS12100 (RI132_12100) pilC 2632142..2633368 (+) 1227 WP_047108818.1 type II secretion system F family protein Machinery gene
  RI132_RS12105 (RI132_12105) pilD 2633462..2634331 (+) 870 WP_047108820.1 A24 family peptidase Machinery gene
  RI132_RS12110 (RI132_12110) coaE 2634333..2634941 (+) 609 WP_039554617.1 dephospho-CoA kinase -
  RI132_RS12115 (RI132_12115) zapD 2634974..2635714 (+) 741 WP_011079546.1 cell division protein ZapD -
  RI132_RS12120 (RI132_12120) yacG 2635777..2635971 (+) 195 WP_026060801.1 DNA gyrase inhibitor YacG -
  RI132_RS12125 (RI132_12125) rplS 2636227..2636580 (-) 354 WP_011079544.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62492.52 Da        Isoelectric Point: 5.6848

>NTDB_id=883731 RI132_RS12095 WP_047108816.1 2630405..2632093(+) (pilB) [Vibrio vulnificus strain GCU-01]
MMSNLSTILRQANQLSLTQEQACRETIQASGVTAPEALLRLGFFQPDELTEQLSAIFGLPRTDLNQYDYQELCNQLGLRE
LITRHQALPLQKSNAGLILAVADPTNIQAEDDFRFATGVQVEIVLADCQELQAAIRRLYGKSIKQSQSSGLKEIHQDELA
NLVEVSDDEVESIEDLSQDESPVSRFINQILLDAVRKGASDIHFEPYENQYRVRLRCDGILVEVQQPPSHLSRRLSARIK
ILSKLDIAERRLPQDGRIKLRLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSSSLDIDKLGYNPQQKQLYLDALRKPQGM
ILMTGPTGSGKTVSLYTGLSLLNRPEVNISTAEDPVEINLPGINQVQVKPKIGFGFAEALRSFLRQDPDIVMVGEIRDLE
TAEIAVKAAQTGHLVLSTLHTNSAAETIVRLSNMGIASFNLASSLSLIIAQRLARRLCSHCKQPHPYNATFELLGLKADD
LIYQADRQGCHHCTHGYSGRVGIYEVMPFDEQLAEAIVKGASVQSLEMLARQKGMMTLKDSGLEKLKQGITSLEELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=883731 RI132_RS12095 WP_047108816.1 2630405..2632093(+) (pilB) [Vibrio vulnificus strain GCU-01]
ATGATGTCGAATCTCTCCACTATTCTGCGTCAGGCCAATCAGCTTAGCCTAACGCAAGAACAAGCGTGTCGAGAGACAAT
ACAAGCTTCTGGTGTGACAGCACCGGAAGCTTTGTTGCGACTGGGATTTTTCCAGCCGGATGAATTAACCGAGCAGCTAA
GCGCGATTTTTGGCTTACCACGCACTGACCTCAACCAATATGACTACCAAGAGCTGTGTAATCAACTTGGATTACGTGAG
CTAATCACCCGTCACCAAGCGCTGCCACTGCAAAAAAGCAACGCTGGTTTAATACTCGCGGTTGCAGACCCTACCAATAT
TCAAGCTGAAGATGATTTCCGTTTTGCCACAGGCGTGCAGGTGGAGATTGTTTTAGCCGATTGCCAAGAACTGCAAGCGG
CAATTCGTAGACTCTATGGAAAGAGCATCAAACAGAGCCAAAGCTCTGGGTTAAAAGAGATTCACCAGGATGAGCTGGCG
AATTTGGTCGAGGTTTCAGATGACGAAGTCGAGTCCATTGAAGACTTAAGCCAAGATGAATCTCCCGTTAGCCGCTTTAT
CAACCAAATTCTGCTGGATGCGGTACGCAAAGGCGCGTCCGATATTCATTTTGAACCGTACGAAAACCAATACCGCGTGC
GATTGCGTTGCGATGGTATTTTGGTGGAAGTGCAGCAGCCTCCAAGCCATTTAAGCCGCCGTTTATCCGCGAGGATCAAG
ATCCTCTCCAAGCTGGATATTGCGGAAAGGCGTCTGCCACAAGATGGACGGATTAAGCTGCGCCTCAACCAAGACACCGC
GATTGATATGCGTGTTTCCACCTTACCCACACTGTTTGGTGAAAAAATTGTGTTGCGACTTCTCGACAGCTCGAGCAGTA
GCTTGGATATTGATAAGTTAGGCTACAACCCGCAACAAAAGCAGCTCTACCTCGATGCCCTGCGCAAACCGCAAGGGATG
ATTTTGATGACGGGCCCAACAGGAAGCGGCAAAACCGTTTCGCTGTACACAGGCTTGAGTTTGCTTAACCGGCCAGAAGT
GAATATTTCCACCGCGGAAGACCCAGTCGAGATTAACCTCCCGGGAATCAACCAAGTGCAAGTGAAACCCAAAATTGGTT
TTGGTTTTGCAGAAGCATTGCGTTCTTTTCTCCGTCAAGACCCGGATATCGTCATGGTGGGGGAAATTCGAGATTTGGAA
ACCGCCGAGATCGCCGTCAAAGCAGCCCAAACCGGTCACCTTGTGCTATCCACCTTACATACCAACTCGGCAGCTGAAAC
CATTGTTCGTCTATCTAACATGGGGATCGCCAGCTTTAACTTGGCTTCATCCTTGAGTTTGATCATTGCTCAGCGTCTGG
CTCGTCGGTTATGCAGCCATTGCAAGCAACCTCATCCATACAACGCCACATTTGAGTTACTCGGTCTAAAAGCTGACGAC
TTGATTTATCAAGCTGATAGACAGGGTTGCCATCATTGTACTCATGGTTATTCCGGTCGTGTCGGTATATACGAAGTCAT
GCCTTTTGATGAACAGCTTGCAGAGGCGATCGTTAAAGGTGCCTCGGTACAAAGCTTGGAGATGCTTGCTCGGCAAAAAG
GCATGATGACACTCAAAGATTCCGGCCTTGAAAAACTCAAACAGGGCATCACCAGTTTAGAAGAGCTGCAACGCGTCCTC
TATTTGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(189-456)

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

(38-141)


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 campbellii strain DS40M4

76.868

100

0.769
  pilB Vibrio parahaemolyticus RIMD 2210633

76.335

100

0.763
  pilB Vibrio cholerae strain A1552

74.6

100

0.747
  pilB Legionella pneumophila strain ERS1305867

52.827

91.281

0.482
  pilB Acinetobacter baumannii D1279779

51.731

92.527

0.479
  pilB Acinetobacter baylyi ADP1

50.478

93.06

0.47
  pilF Neisseria gonorrhoeae MS11

45.31

100

0.456
  pilF Thermus thermophilus HB27

40.215

99.11

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.302

94.306

0.361