Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY55_RS11015 Genome accession   NZ_CP046831
Coordinates   379263..380948 (-) Length   561 a.a.
NCBI ID   WP_031847489.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2012AW-0224     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 374263..385948
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY55_RS10985 rplS 374736..375089 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  GPY55_RS10990 yacG 375435..375629 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY55_RS10995 zapD 375698..376438 (-) 741 WP_083135490.1 cell division protein ZapD -
  GPY55_RS11000 coaE 376466..377080 (-) 615 WP_031847490.1 dephospho-CoA kinase -
  GPY55_RS11005 pilD 377081..377950 (-) 870 WP_025533026.1 A24 family peptidase Machinery gene
  GPY55_RS11010 pilC 378015..379238 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY55_RS11015 pilB 379263..380948 (-) 1686 WP_031847489.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY55_RS11020 - 380948..381412 (-) 465 WP_023585961.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY55_RS11025 nadC 381676..382563 (-) 888 WP_031847488.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY55_RS11030 ampD 382656..383207 (+) 552 WP_020841256.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY55_RS11035 pdhR 383613..384380 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62338.26 Da        Isoelectric Point: 5.2915

>NTDB_id=408546 GPY55_RS11015 WP_031847489.1 379263..380948(-) (pilB) [Vibrio parahaemolyticus strain 2012AW-0224]
MLTNLSTILRQNGLLTFPQEESLIEQVKASGISMPEALLSSGFFTSSELAAHLSSIFGLSQPELSQYEYAALCQQLGLRE
LITRHNALPLHRTSSTLLLAIADPTNLQAEDDFRFATGLQVELVLVDFRELSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=408546 GPY55_RS11015 WP_031847489.1 379263..380948(-) (pilB) [Vibrio parahaemolyticus strain 2012AW-0224]
ATGCTAACCAACCTCTCAACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTCGCCGCACACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAGTATGCTGCGCTTTGCCAACAGCTCGGCCTCAGAGAG
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTTCTTCAACTTTATTATTAGCGATTGCCGACCCCACGAATCT
ACAAGCCGAAGATGACTTCCGCTTTGCCACTGGTTTGCAGGTCGAACTGGTTCTGGTCGATTTTCGCGAACTAAGTGCCG
CAATTCGTCGCTTGTACGGGCGTGCCATTGGTCAGGAACGCTCCCAGCTCAAAGAGATCAACCAGGAAGAGCTAGCCAGC
TTAGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGTC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGATTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAGCCTAAAATTGGTTTTG
GCTTTGCAGAAGCACTACGCTCTTTCCTGCGTCAAGATCCCGACGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATTGCCATCAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
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)

(38-141)


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

96.435

100

0.964
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

50.933

95.544

0.487
  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

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.5

100

0.396
  pilF Thermus thermophilus HB27

37.168

100

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.979

100

0.364

Multiple sequence alignment