Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VPBB_RS11905 Genome accession   NC_019955
Coordinates   2629070..2630755 (+) Length   561 a.a.
NCBI ID   WP_015297251.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus BB22OP     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2624070..2635755
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VPBB_RS11885 (VPBB_2342) pdhR 2625699..2626466 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VPBB_RS11890 (VPBB_2343) ampD 2626872..2627423 (-) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VPBB_RS11895 (VPBB_2344) nadC 2627516..2628403 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VPBB_RS11900 (VPBB_2345) pilA 2628666..2629070 (+) 405 WP_015297250.1 pilin Machinery gene
  VPBB_RS11905 (VPBB_2346) pilB 2629070..2630755 (+) 1686 WP_015297251.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VPBB_RS11910 (VPBB_2347) pilC 2630779..2632002 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  VPBB_RS11915 (VPBB_2348) pilD 2632067..2632936 (+) 870 WP_015297252.1 A24 family peptidase Machinery gene
  VPBB_RS11920 (VPBB_2349) coaE 2632937..2633551 (+) 615 WP_015297253.1 dephospho-CoA kinase -
  VPBB_RS11925 (VPBB_2350) zapD 2633579..2634319 (+) 741 WP_015297254.1 cell division protein ZapD -
  VPBB_RS11930 (VPBB_2351) yacG 2634388..2634582 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  VPBB_RS11935 (VPBB_2352) rplS 2634897..2635250 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62387.20 Da        Isoelectric Point: 5.5288

>NTDB_id=55492 VPBB_RS11905 WP_015297251.1 2629070..2630755(+) (pilB) [Vibrio parahaemolyticus BB22OP]
MHTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLYRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=55492 VPBB_RS11905 WP_015297251.1 2629070..2630755(+) (pilB) [Vibrio parahaemolyticus BB22OP]
ATGCACACCAACCTCTCCACGGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCTACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAAT
CTGGTTGATGTGGGCGCCGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTTCTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACAGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
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

98.93

100

0.989
  pilB Vibrio campbellii strain DS40M4

90.909

100

0.909
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.601

94.652

0.488
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.268

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.702

100

0.369

Multiple sequence alignment