Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EPB54_RS14240 Genome accession   NZ_CP035701
Coordinates   2839267..2840952 (+) Length   561 a.a.
NCBI ID   WP_062905453.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2012AW-0154     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2834267..2845952
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EPB54_RS14220 pdhR 2835845..2836612 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  EPB54_RS14225 ampD 2837018..2837569 (-) 552 WP_029855964.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EPB54_RS14230 nadC 2837662..2838549 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EPB54_RS14235 pilA 2838814..2839263 (+) 450 WP_031778455.1 pilin Machinery gene
  EPB54_RS14240 pilB 2839267..2840952 (+) 1686 WP_062905453.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EPB54_RS14245 pilC 2840976..2842199 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  EPB54_RS14250 pilD 2842264..2843133 (+) 870 WP_031778454.1 A24 family peptidase Machinery gene
  EPB54_RS14255 coaE 2843134..2843748 (+) 615 WP_031778453.1 dephospho-CoA kinase -
  EPB54_RS14260 zapD 2843776..2844516 (+) 741 WP_062905553.1 cell division protein ZapD -
  EPB54_RS14265 yacG 2844585..2844779 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  EPB54_RS14270 rplS 2845160..2845513 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62445.42 Da        Isoelectric Point: 5.6724

>NTDB_id=343959 EPB54_RS14240 WP_062905453.1 2839267..2840952(+) (pilB) [Vibrio parahaemolyticus strain 2012AW-0154]
MLTNLSTVLRQKGLLTFSQEETLIEHVKASGISMPEALLSSGFFTSSELVEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFAIGLQVELVLADFRELSAAIRRLYGRALGKERSQIKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=343959 EPB54_RS14240 WP_062905453.1 2839267..2840952(+) (pilB) [Vibrio parahaemolyticus strain 2012AW-0154]
ATGTTAACCAACCTATCAACCGTTCTTCGCCAAAAAGGGTTACTGACGTTTTCCCAAGAAGAAACGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGTCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCATTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATACGCCGTCTTTATGGTCGCGCGCTTGGTAAAGAACGATCCCAGATCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTCGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCACCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGTAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAAATTCGAGATCTAGATACT
GCGGAAATCGCGATTAAGGCGTCTCAAACCGGTCACTTAGTGCTTTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-142)

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 parahaemolyticus RIMD 2210633

97.504

100

0.975
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

51.509

94.474

0.487
  pilB Legionella pneumophila strain ERS1305867

48.609

96.078

0.467
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.681

100

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

37.162

100

0.392
  pilF Thermus thermophilus HB27

36.655

100

0.367
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.979

100

0.364

Multiple sequence alignment