Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EKH72_RS03135 Genome accession   NZ_CP034565
Coordinates   588945..590630 (-) Length   561 a.a.
NCBI ID   WP_129829846.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain D3112     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 583945..595630
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EKH72_RS03105 rplS 584378..584731 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  EKH72_RS03110 yacG 585117..585311 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  EKH72_RS03115 zapD 585380..586120 (-) 741 WP_015297254.1 cell division protein ZapD -
  EKH72_RS03120 coaE 586148..586762 (-) 615 WP_129829844.1 dephospho-CoA kinase -
  EKH72_RS03125 pilD 586763..587632 (-) 870 WP_129829845.1 A24 family peptidase Machinery gene
  EKH72_RS03130 pilC 587697..588920 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  EKH72_RS03135 pilB 588945..590630 (-) 1686 WP_129829846.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EKH72_RS03140 pilA 590631..591044 (-) 414 WP_029831396.1 pilin Machinery gene
  EKH72_RS03145 nadC 591307..592194 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EKH72_RS03150 ampD 592287..592838 (+) 552 WP_129830503.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EKH72_RS03155 pdhR 593244..594011 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62284.18 Da        Isoelectric Point: 5.4009

>NTDB_id=331930 EKH72_RS03135 WP_129829846.1 588945..590630(-) (pilB) [Vibrio parahaemolyticus strain D3112]
MLTNLSTVLRQAGILTFSQEELLLEQVKASGISMPEALLNSGLFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=331930 EKH72_RS03135 WP_129829846.1 588945..590630(-) (pilB) [Vibrio parahaemolyticus strain D3112]
GTGCTAACCAACCTCTCAACAGTTCTTCGCCAAGCAGGGATACTGACGTTTTCCCAAGAAGAGCTGTTACTTGAGCAAGT
TAAAGCTTCTGGTATATCAATGCCAGAGGCTTTGCTCAACTCTGGCTTGTTTCAATCTCATGAATTAACGGAGCACCTAA
GCTCTGTTTTTGGGCTTTCTTGCACTTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACGCTAGGTTTGCGAGAT
TTGATCACTCGGCACAACGCTCTGCCGCTTAATCGCACCTCATCAACTTTGATTCTCGCGGTTGCTGACCCAACCAATCT
TCAAGCCGAAGACGACTTTCGTTTTGCAACAGGTTTGCAAGTCGAACTTGTTCTGGCTGATTTTCGCGAACTAAGTGCCG
CAATTCGACGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGATAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATCCAAACAACTGACAAC
ATCTTTAAAGCCAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGTACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

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 parahaemolyticus RIMD 2210633

94.474

100

0.945
  pilB Vibrio campbellii strain DS40M4

93.226

100

0.932
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.823

92.87

0.481
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  pilF Thermus thermophilus HB27

36.702

100

0.369

Multiple sequence alignment