Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QZD84_RS13500 Genome accession   NZ_CP141290
Coordinates   2874401..2876086 (+) Length   561 a.a.
NCBI ID   WP_020835398.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain BM26A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2869401..2881086
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QZD84_RS13480 pdhR 2871030..2871797 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  QZD84_RS13485 ampD 2872203..2872754 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QZD84_RS13490 nadC 2872847..2873734 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QZD84_RS13495 pilA 2873997..2874401 (+) 405 WP_015297250.1 pilin Machinery gene
  QZD84_RS13500 pilB 2874401..2876086 (+) 1686 WP_020835398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QZD84_RS13505 - 2876110..2877332 (+) 1223 Protein_2624 type II secretion system F family protein -
  QZD84_RS13510 pilD 2877397..2878266 (+) 870 WP_308386333.1 A24 family peptidase Machinery gene
  QZD84_RS13515 coaE 2878267..2878881 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  QZD84_RS13520 zapD 2878909..2879649 (+) 741 WP_015297254.1 cell division protein ZapD -
  QZD84_RS13525 yacG 2879718..2879912 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  QZD84_RS13530 rplS 2880291..2880644 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62218.06 Da        Isoelectric Point: 5.6500

>NTDB_id=916979 QZD84_RS13500 WP_020835398.1 2874401..2876086(+) (pilB) [Vibrio parahaemolyticus strain BM26A]
MHTNLSTILRQSGLLSLTQEESLIEHVKASGISMPEALLSSGLLTSSELAEHLSSLFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=916979 QZD84_RS13500 WP_020835398.1 2874401..2876086(+) (pilB) [Vibrio parahaemolyticus strain BM26A]
ATGCACACCAACCTCTCTACGATTCTTCGCCAATCTGGATTACTTAGTTTAACCCAGGAAGAATCGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTATTGACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTGAGTCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGGCATAACGCACTCCCACTCCAGCGTACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAGGATGACTTCCGCTTTGCCACTGGTTTACAAATTGAATTGGTGTTAGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGCCATGAGAAATCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAT
CTGGTCGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATAGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCTCTGTACACTGGGCTAAGTATCCTCAATAAGCCAGAGATCAA
CATTTCCACGGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAGGCTCTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(38-144)

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

97.148

100

0.971
  pilB Vibrio campbellii strain DS40M4

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.81

93.583

0.485
  pilB Legionella pneumophila strain ERS1305867

48.561

99.109

0.481
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.437

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.213

100

0.376
  pilF Thermus thermophilus HB27

36.879

100

0.371