Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R1T29_RS03145 Genome accession   NZ_CP136903
Coordinates   639214..640899 (-) Length   561 a.a.
NCBI ID   WP_203503823.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain X1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 634214..645899
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS03115 (R1T29_03115) rplS 634688..635041 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  R1T29_RS03120 (R1T29_03120) yacG 635387..635581 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  R1T29_RS03125 (R1T29_03125) zapD 635650..636390 (-) 741 WP_023624252.1 cell division protein ZapD -
  R1T29_RS03130 (R1T29_03130) coaE 636418..637032 (-) 615 WP_203503821.1 dephospho-CoA kinase -
  R1T29_RS03135 (R1T29_03135) pilD 637033..637902 (-) 870 WP_025552578.1 A24 family peptidase Machinery gene
  R1T29_RS03140 (R1T29_03140) pilC 637967..639190 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  R1T29_RS03145 (R1T29_03145) pilB 639214..640899 (-) 1686 WP_203503823.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R1T29_RS03150 (R1T29_03150) pilA 640900..641313 (-) 414 WP_029831396.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  R1T29_RS03155 (R1T29_03155) nadC 641576..642463 (-) 888 WP_029798874.1 carboxylating nicotinate-nucleotide diphosphorylase -
  R1T29_RS03160 (R1T29_03160) ampD 642556..643107 (+) 552 WP_203503996.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  R1T29_RS03165 (R1T29_03165) pdhR 643513..644280 (+) 768 WP_029823257.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62285.17 Da        Isoelectric Point: 5.2891

>NTDB_id=893292 R1T29_RS03145 WP_203503823.1 639214..640899(-) (pilB) [Vibrio parahaemolyticus strain X1]
MLTNLSTVLRQAGILTFSQEELLLEQAKASGISMPEALLNSGLFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSRLKEINQDELAS
LVEIGDDEIENIEDLSQDDSPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILVEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=893292 R1T29_RS03145 WP_203503823.1 639214..640899(-) (pilB) [Vibrio parahaemolyticus strain X1]
GTGCTAACCAACCTCTCAACAGTTCTTCGCCAAGCAGGGATACTGACGTTTTCCCAAGAAGAGCTGTTACTTGAGCAAGC
TAAAGCTTCTGGTATATCAATGCCAGAGGCTTTGCTCAACTCTGGCTTGTTTCAATCTCATGAATTAACGGAGCACCTAA
GCTCTGTTTTTGGGCTTTCTTGCACTTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACGCTAGGTTTGCGAGAT
TTGATCACTCGGCACAACGCTCTGCCGCTTAATCGCACCTCATCAACTTTGATTCTCGCGGTTGCTGACCCAACCAATCT
TCAAGCCGAAGACGACTTTCGTTTTGCAACAGGTTTGCAAGTCGAACTTGTTCTGGCTGATTTTCGAGAGCTGACCGCTG
CCATTCGGCGCTTATATGGCCGAGCACTTGGGCAGGAAAAGTCGAGGTTAAAAGAAATAAACCAAGACGAACTCGCAAGC
TTGGTTGAGATTGGAGATGATGAGATTGAGAACATCGAAGACCTCAGCCAAGATGATTCTCCGGTCAGTCGTTATATCAA
CCAAATCTTACTCGATGCCGTTCGTAAAGGGGCTTCGGATATTCACTTCGAACCCTACGAAAACATGTACCGAGTCCGTT
TACGCTGCGATGGCATCTTGGTTGAAATTCAACAGCCACCTAGCCACTTAAGCCGTCGTCTCTCTGCCCGAATAAAGATC
CTATCTAAGCTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGTATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
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 campbellii strain DS40M4

94.118

100

0.941
  pilB Vibrio parahaemolyticus RIMD 2210633

92.692

100

0.927
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.638

92.513

0.478
  pilB Legionella pneumophila strain ERS1305867

49.077

96.613

0.474
  pilB Acinetobacter baylyi ADP1

48.708

96.613

0.471
  pilF Neisseria gonorrhoeae MS11

43.794

100

0.44
  pilB/pilB1 Synechocystis sp. PCC 6803

37.416

100

0.398
  pilF Thermus thermophilus HB27

36.749

100

0.371
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.494

99.643

0.364