Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VPUCM_RS13035 Genome accession   NZ_CP007004
Coordinates   2826408..2828093 (+) Length   561 a.a.
NCBI ID   WP_025442239.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus UCM-V493     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2821408..2833093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VPUCM_RS13015 (VPUCM_2606) pdhR 2823014..2823781 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VPUCM_RS13020 (VPUCM_2607) ampD 2824187..2824738 (-) 552 WP_025442236.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VPUCM_RS13025 (VPUCM_2608) nadC 2824831..2825718 (+) 888 WP_025442237.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VPUCM_RS13030 (VPUCM_2609) pilA 2825983..2826402 (+) 420 WP_025442238.1 pilin Machinery gene
  VPUCM_RS13035 (VPUCM_2610) pilB 2826408..2828093 (+) 1686 WP_025442239.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VPUCM_RS13040 (VPUCM_2611) pilC 2828117..2829340 (+) 1224 WP_025442240.1 type II secretion system F family protein Machinery gene
  VPUCM_RS13045 (VPUCM_2612) pilD 2829405..2830274 (+) 870 WP_025442241.1 A24 family peptidase Machinery gene
  VPUCM_RS13050 (VPUCM_2613) coaE 2830275..2830889 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  VPUCM_RS13055 (VPUCM_2614) zapD 2830917..2831657 (+) 741 WP_023624252.1 cell division protein ZapD -
  VPUCM_RS13060 (VPUCM_2615) yacG 2831726..2831920 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  VPUCM_RS13065 (VPUCM_2616) rplS 2832300..2832653 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62382.27 Da        Isoelectric Point: 5.5393

>NTDB_id=115458 VPUCM_RS13035 WP_025442239.1 2826408..2828093(+) (pilB) [Vibrio parahaemolyticus UCM-V493]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLVDFRELSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGANEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=115458 VPUCM_RS13035 WP_025442239.1 2826408..2828093(+) (pilB) [Vibrio parahaemolyticus UCM-V493]
ATGTTAACAAACCTCTCAACGGTTCTTCGTCAAAAAGGATTATTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTGCAGGTCGAACTGGTTCTGGTCGATTTTCGCGAACTAAGTGCCG
CAATTCGTCGCTTGTACGGGCGTGCCATTGGTCAGGAACGCTCCCAGCTCAAAGAGATCAACCAAGAAGAGCTAGCCAGC
TTAGTGGATGTCGGTGCAAATGAAATCGACAACATCGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGTC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCGCAAGACGGGCGTATTAAGCTCAAGTTGAATCAAGACACAGCAAT
TGATATGCGTGTATCCACGCTACCTACTCTATTCGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

97.683

100

0.977
  pilB Vibrio campbellii strain DS40M4

90.553

100

0.906
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.894

94.118

0.488
  pilB Acinetobacter baylyi ADP1

48.294

99.287

0.479
  pilB Legionella pneumophila strain ERS1305867

49.162

95.722

0.471
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.563

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.348

100

0.365

Multiple sequence alignment