Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   Q7W79_RS09870 Genome accession   NZ_CP131931
Coordinates   416749..418434 (-) Length   561 a.a.
NCBI ID   WP_258510752.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain RP0132     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 411749..423434
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q7W79_RS09840 (Q7W79_09840) rplS 412202..412555 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  Q7W79_RS09845 (Q7W79_09845) yacG 412922..413116 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  Q7W79_RS09850 (Q7W79_09850) zapD 413185..413925 (-) 741 WP_023624252.1 cell division protein ZapD -
  Q7W79_RS09855 (Q7W79_09855) coaE 413953..414567 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  Q7W79_RS09860 (Q7W79_09860) pilD 414568..415437 (-) 870 WP_140154970.1 A24 family peptidase Machinery gene
  Q7W79_RS09865 (Q7W79_09865) pilC 415502..416725 (-) 1224 WP_023585959.1 type II secretion system F family protein Machinery gene
  Q7W79_RS09870 (Q7W79_09870) pilB 416749..418434 (-) 1686 WP_258510752.1 type IV-A pilus assembly ATPase PilB Machinery gene
  Q7W79_RS09875 (Q7W79_09875) - 418434..418898 (-) 465 WP_021450016.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  Q7W79_RS09880 (Q7W79_09880) nadC 419162..420049 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  Q7W79_RS09885 (Q7W79_09885) ampD 420142..420693 (+) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  Q7W79_RS09890 (Q7W79_09890) pdhR 421099..421866 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62335.09 Da        Isoelectric Point: 5.4031

>NTDB_id=866344 Q7W79_RS09870 WP_258510752.1 416749..418434(-) (pilB) [Vibrio parahaemolyticus strain RP0132]
MSNHLSTVLRQSGLLSLAQEESLIEQINASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLRRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSETLIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=866344 Q7W79_RS09870 WP_258510752.1 416749..418434(-) (pilB) [Vibrio parahaemolyticus strain RP0132]
ATGTCTAATCATCTATCAACCGTTCTTCGCCAATCAGGCTTGCTTAGCTTAGCCCAGGAAGAATCGTTAATAGAACAAAT
CAACGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCAGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCGCCGTACTCCTTCAACGTTATTGTTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAGCAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTCTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAACTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
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

96.435

100

0.964
  pilB Vibrio campbellii strain DS40M4

88.948

100

0.889
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

51.698

94.474

0.488
  pilB Legionella pneumophila strain ERS1305867

49.162

95.722

0.471
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.162

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.213

100

0.376
  pilF Thermus thermophilus HB27

36.155

100

0.365