Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FDV79_RS14025 Genome accession   NZ_CP040103
Coordinates   2953449..2955134 (+) Length   561 a.a.
NCBI ID   WP_025541880.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LVP66     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2948449..2960134
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FDV79_RS14005 (FDV79_15020) pdhR 2950020..2950787 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  FDV79_RS14010 (FDV79_15025) ampD 2951193..2951744 (-) 552 WP_140380320.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FDV79_RS14015 (FDV79_15030) nadC 2951837..2952724 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FDV79_RS14020 (FDV79_15035) pilA 2952988..2953449 (+) 462 WP_025541878.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  FDV79_RS14025 (FDV79_15040) pilB 2953449..2955134 (+) 1686 WP_025541880.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FDV79_RS14030 (FDV79_15045) pilC 2955158..2956381 (+) 1224 WP_140380223.1 type II secretion system F family protein Machinery gene
  FDV79_RS14035 (FDV79_15050) pilD 2956446..2957315 (+) 870 WP_015297252.1 A24 family peptidase Machinery gene
  FDV79_RS14040 (FDV79_15055) coaE 2957316..2957930 (+) 615 WP_025523092.1 dephospho-CoA kinase -
  FDV79_RS14045 (FDV79_15060) zapD 2957958..2958698 (+) 741 WP_023624252.1 cell division protein ZapD -
  FDV79_RS14050 (FDV79_15065) yacG 2958767..2958961 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  FDV79_RS14055 (FDV79_15070) rplS 2959310..2959663 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62447.35 Da        Isoelectric Point: 5.4035

>NTDB_id=319910 FDV79_RS14025 WP_025541880.1 2953449..2955134(+) (pilB) [Vibrio parahaemolyticus strain LVP66]
MLTNLSTILRQKGLLTFSQEETLIEHVKASGISMPEALLGSGFFTSSELAEHLSSIFCLSQPELSQYEYASLCQQLGLRE
LITRHNALPLYRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=319910 FDV79_RS14025 WP_025541880.1 2953449..2955134(+) (pilB) [Vibrio parahaemolyticus strain LVP66]
ATGCTAACCAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAAACGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCGGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTTGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCTACCGTACTCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGGGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterProScan.

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

(41-144)

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

98.217

100

0.982
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.321

94.474

0.485
  pilB Legionella pneumophila strain ERS1305867

48.799

96.435

0.471
  pilB Acinetobacter baylyi ADP1

52.469

86.631

0.455
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

36.745

100

0.39
  pilF Thermus thermophilus HB27

36.46

100

0.367