Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY39_RS11140 Genome accession   NZ_CP046783
Coordinates   2208119..2209804 (+) Length   561 a.a.
NCBI ID   WP_021450017.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2013V-1181     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2203119..2214804
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY39_RS11120 pdhR 2204687..2205454 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  GPY39_RS11125 ampD 2205860..2206411 (-) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY39_RS11130 nadC 2206504..2207391 (+) 888 WP_021450015.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY39_RS11135 - 2207655..2208119 (+) 465 WP_021450016.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY39_RS11140 pilB 2208119..2209804 (+) 1686 WP_021450017.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY39_RS11145 pilC 2209828..2211051 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY39_RS11150 pilD 2211116..2211985 (+) 870 WP_021450018.1 A24 family peptidase Machinery gene
  GPY39_RS11155 coaE 2211986..2212600 (+) 615 WP_021450019.1 dephospho-CoA kinase -
  GPY39_RS11160 zapD 2212628..2213368 (+) 741 WP_021450020.1 cell division protein ZapD -
  GPY39_RS11165 yacG 2213437..2213631 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY39_RS11170 rplS 2213983..2214336 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62305.06 Da        Isoelectric Point: 5.4031

>NTDB_id=407685 GPY39_RS11140 WP_021450017.1 2208119..2209804(+) (pilB) [Vibrio parahaemolyticus strain 2013V-1181]
MSNHLSTVLRQSGLLSLAQEESLIEQINASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLRRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=407685 GPY39_RS11140 WP_021450017.1 2208119..2209804(+) (pilB) [Vibrio parahaemolyticus strain 2013V-1181]
ATGTCTAATCATCTATCAACCGTTCTTCGCCAATCAGGCTTGCTTAGCTTAGCCCAGGAAGAATCGTTAATAGAACAAAT
CAACGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCAGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCGCCGTACTCCTTCAACGTTATTGTTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAGCAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
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

96.613

100

0.966
  pilB Vibrio campbellii strain DS40M4

89.127

100

0.891
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  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

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.332

100

0.367

Multiple sequence alignment