Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PY372_RS12890 Genome accession   NZ_CP119301
Coordinates   2767938..2769623 (+) Length   561 a.a.
NCBI ID   WP_053339791.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LC     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2762938..2774623
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PY372_RS12870 (PY372_13045) pdhR 2764567..2765334 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  PY372_RS12875 (PY372_13050) ampD 2765740..2766291 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  PY372_RS12880 (PY372_13055) nadC 2766384..2767271 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PY372_RS12885 (PY372_13060) pilA 2767534..2767938 (+) 405 WP_015297250.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  PY372_RS12890 (PY372_13065) pilB 2767938..2769623 (+) 1686 WP_053339791.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PY372_RS12895 (PY372_13070) pilC 2769647..2770870 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  PY372_RS12900 (PY372_13075) pilD 2770935..2771804 (+) 870 WP_025552578.1 prepilin peptidase Machinery gene
  PY372_RS12905 (PY372_13080) coaE 2771805..2772419 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  PY372_RS12910 (PY372_13085) zapD 2772447..2773187 (+) 741 WP_005480890.1 cell division protein ZapD -
  PY372_RS12915 (PY372_13090) yacG 2773256..2773450 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  PY372_RS12920 (PY372_13095) rplS 2773801..2774154 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62511.36 Da        Isoelectric Point: 5.6536

>NTDB_id=798396 PY372_RS12890 WP_053339791.1 2767938..2769623(+) (pilB) [Vibrio parahaemolyticus strain LC]
MHTNLSTILRQKGLLTFSQEETLIEHVKASGISMPEALLSSGFFTSSELAEHLSSIFCLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTTSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGTDEIDNIEDLSQDESPVSRYINQILLDAIRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=798396 PY372_RS12890 WP_053339791.1 2767938..2769623(+) (pilB) [Vibrio parahaemolyticus strain LC]
ATGCACACCAACCTCTCTACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAAACGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTGCTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTTGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCCAGCGCACGACTTCAACGTTATTACTCGCCGTTGCCGACCCCACGAACCA
ACAAGCAGAAGACGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGCGCGG
CGATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAAT
CTGGTTGATGTGGGCACAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTATACGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAATATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-144)


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 parahaemolyticus RIMD 2210633

98.217

100

0.982
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

52.174

94.296

0.492
  pilB Legionella pneumophila strain ERS1305867

49.071

95.9

0.471
  pilB Acinetobacter baylyi ADP1

53.086

86.631

0.46
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

36.577

100

0.389
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.525

100

0.367