Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HK86_RS14615 Genome accession   NC_021847
Coordinates   3128480..3130165 (+) Length   561 a.a.
NCBI ID   WP_020841259.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus O1:Kuk str. FDA_R31     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3123480..3135165
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HK86_RS14595 (M634_14975) pdhR 3125072..3125839 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  HK86_RS14600 (M634_14980) ampD 3126245..3126796 (-) 552 WP_020841256.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HK86_RS14605 (M634_14985) nadC 3126889..3127776 (+) 888 WP_020841257.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HK86_RS14610 (M634_14990) - 3128040..3128480 (+) 441 WP_020841258.1 pilin -
  HK86_RS14615 (M634_14995) pilB 3128480..3130165 (+) 1686 WP_020841259.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HK86_RS14620 (M634_15000) pilC 3130190..3131413 (+) 1224 WP_020841260.1 type II secretion system F family protein Machinery gene
  HK86_RS14625 (M634_15005) pilD 3131478..3132347 (+) 870 WP_020841261.1 A24 family peptidase Machinery gene
  HK86_RS14630 (M634_15010) coaE 3132348..3132962 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  HK86_RS14635 (M634_15015) zapD 3132990..3133730 (+) 741 WP_023624252.1 cell division protein ZapD -
  HK86_RS14640 (M634_15020) yacG 3133799..3133993 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  HK86_RS14645 (M634_15030) rplS 3134288..3134641 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62327.28 Da        Isoelectric Point: 6.1128

>NTDB_id=60541 HK86_RS14615 WP_020841259.1 3128480..3130165(+) (pilB) [Vibrio parahaemolyticus O1:Kuk str. FDA_R31]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLNIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLHMSGISKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=60541 HK86_RS14615 WP_020841259.1 3128480..3130165(+) (pilB) [Vibrio parahaemolyticus O1:Kuk str. FDA_R31]
ATGCTAACCAACCTCTCAACAGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTTAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTGAATCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGAGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCAGCATCAC
TGAATATCGACAAGCTTGGTTATAGTGAGCAACAAAAGCAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGTGGAAAAACCGTTTCTCTGTACACTGGACTAAGTATCCTCAATAAGCCAGAGATCAA
CATTTCCACGGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAAATTCGAGATCTAGATACT
GCGGAAATCGCGATTAAGGCGTCTCAAACCGGTCACTTAGTGCTTTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCATATGTCCGGAATATCAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

96.613

100

0.966
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

51.521

93.761

0.483
  pilB Legionella pneumophila strain ERS1305867

48.794

96.078

0.469
  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

37.838

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.572

100

0.369
  pilF Thermus thermophilus HB27

36.348

100

0.365

Multiple sequence alignment