Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KBU60_RS02925 Genome accession   NZ_CP073068
Coordinates   600678..602363 (-) Length   561 a.a.
NCBI ID   WP_140287838.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain FB-11     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 595678..607363
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KBU60_RS02895 (KBU60_02895) rplS 596103..596456 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  KBU60_RS02900 (KBU60_02900) yacG 596851..597045 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  KBU60_RS02905 (KBU60_02905) zapD 597114..597854 (-) 741 WP_005480890.1 cell division protein ZapD -
  KBU60_RS02910 (KBU60_02910) coaE 597882..598496 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  KBU60_RS02915 (KBU60_02915) pilD 598497..599366 (-) 870 WP_025552578.1 A24 family peptidase Machinery gene
  KBU60_RS02920 (KBU60_02920) pilC 599431..600654 (-) 1224 WP_021453293.1 type II secretion system F family protein Machinery gene
  KBU60_RS02925 (KBU60_02925) pilB 600678..602363 (-) 1686 WP_140287838.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KBU60_RS02930 (KBU60_02930) pilA 602370..602834 (-) 465 WP_025524817.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  KBU60_RS02935 (KBU60_02935) nadC 603098..603985 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  KBU60_RS02940 (KBU60_02940) ampD 604078..604629 (+) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KBU60_RS02945 (KBU60_02945) pdhR 605035..605802 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62381.19 Da        Isoelectric Point: 5.4089

>NTDB_id=557651 KBU60_RS02925 WP_140287838.1 600678..602363(-) (pilB) [Vibrio parahaemolyticus strain FB-11]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRYNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKSEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=557651 KBU60_RS02925 WP_140287838.1 600678..602363(-) (pilB) [Vibrio parahaemolyticus strain FB-11]
CTGCTCACCAACCTCTCTACGGTTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTAGGCCTACGTGAA
TTAATCACACGATATAATGCACTCCCACTCCACCGTACTCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCGTCAC
TGGATATTGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAATCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCAGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
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

98.752

100

0.988
  pilB Vibrio campbellii strain DS40M4

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

74.555

100

0.747
  pilB Acinetobacter baumannii D1279779

51.796

94.296

0.488
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

51.064

92.157

0.471
  pilF Neisseria gonorrhoeae MS11

45.213

100

0.455
  pilB/pilB1 Synechocystis sp. PCC 6803

36.931

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.525

100

0.367