Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   L0992_RS13295 Genome accession   NZ_CP090854
Coordinates   3059006..3060691 (+) Length   561 a.a.
NCBI ID   WP_373948806.1    Uniprot ID   -
Organism   Vibrio pomeroyi strain YSX02     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3054006..3065691
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L0992_RS13275 (L0992_13275) pdhR 3055468..3056229 (-) 762 WP_017629813.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  L0992_RS13280 (L0992_13280) ampD 3056713..3057313 (-) 601 Protein_2562 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  L0992_RS13285 (L0992_13285) nadC 3057397..3058287 (+) 891 WP_373948802.1 carboxylating nicotinate-nucleotide diphosphorylase -
  L0992_RS13290 (L0992_13290) - 3058542..3059006 (+) 465 WP_373948804.1 pilin -
  L0992_RS13295 (L0992_13295) pilB 3059006..3060691 (+) 1686 WP_373948806.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L0992_RS13300 (L0992_13300) pilC 3060707..3061936 (+) 1230 WP_373948808.1 type II secretion system F family protein Machinery gene
  L0992_RS13305 (L0992_13305) pilD 3062004..3062873 (+) 870 WP_373948810.1 A24 family peptidase Machinery gene
  L0992_RS13310 (L0992_13310) coaE 3062876..3063490 (+) 615 WP_373948812.1 dephospho-CoA kinase -
  L0992_RS13315 (L0992_13315) zapD 3063517..3064257 (+) 741 WP_017629805.1 cell division protein ZapD -
  L0992_RS13320 (L0992_13320) yacG 3064338..3064535 (+) 198 WP_010435916.1 DNA gyrase inhibitor YacG -
  L0992_RS13325 (L0992_13325) rplS 3064955..3065308 (-) 354 WP_004738151.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62245.90 Da        Isoelectric Point: 4.9837

>NTDB_id=645259 L0992_RS13295 WP_373948806.1 3059006..3060691(+) (pilB) [Vibrio pomeroyi strain YSX02]
MLTNLPTVLRQADLLSMTQEQAVAEHVQASGVSTPEALLILDFFTSESLAHNIQAIFGLPLVQLANVDYEVLCDQLGLRE
LITKYHAIPISVSSSTLTLASADPTDLQAEDDFRFATGLQIELVVANYSELEGAIRKLYGRSISGQDSKRKEITQDELAN
LVEVSDDEMTSIEDLSQDDSPVSRFINQILVDAVRKGASDIHFEPYEEHYRVRLRCDGILVEIQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSSANLDIDKLGYSEDQKTLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRVLNTTERNISTAEDPVEINLCGINQVQVTPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSAAETVTRLAHMGIEPFNLASSLSLIIAQRLARRLCNHCKAEDGSPDIYLRHSIPNSQT
IYKANSQGCNECNQGYSGRVGIYEVMPFTDKLKNSLINKPNALAIEDLARREGMRTLQESGLDKLLEGTTSYQELQRVLY
I

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=645259 L0992_RS13295 WP_373948806.1 3059006..3060691(+) (pilB) [Vibrio pomeroyi strain YSX02]
GTGCTAACCAACCTCCCAACCGTTCTACGTCAGGCTGATTTACTTAGCATGACTCAAGAACAAGCCGTGGCGGAACATGT
ACAAGCTTCAGGAGTTTCTACGCCTGAAGCTTTACTCATTCTTGATTTCTTCACTAGCGAGAGTCTCGCACATAACATTC
AGGCCATCTTCGGTTTGCCGTTAGTACAACTTGCCAATGTTGACTACGAAGTCTTGTGCGATCAATTAGGACTTCGTGAA
CTCATTACCAAATATCACGCTATCCCGATTTCAGTCTCTAGCTCGACTCTCACCCTCGCCTCTGCTGATCCGACGGATTT
ACAAGCAGAAGATGATTTCCGATTCGCGACTGGATTGCAGATAGAACTCGTTGTCGCTAACTATTCTGAATTAGAAGGCG
CAATACGAAAGTTGTATGGCCGCTCTATTTCAGGGCAAGACTCTAAGCGTAAAGAGATCACCCAAGACGAACTTGCCAAC
CTGGTTGAAGTCTCCGACGATGAGATGACTTCGATTGAAGACCTCAGCCAAGACGACTCCCCCGTTAGCCGATTTATCAA
TCAGATACTGGTCGATGCGGTGCGTAAGGGCGCTTCTGATATTCACTTCGAACCTTATGAAGAACACTACCGTGTGCGCC
TGCGCTGTGATGGAATCCTTGTTGAAATACAGCAACCCGCCTCCCATTTAAGTCGCCGTTTATCTGCTCGTTTAAAGATT
CTCGCCAAACTTGATATTGCCGAACGGCGCTTGCCGCAAGATGGGCGCATTAAGCTCCGTCTGAATGATGAACTCGCGAT
AGATATGCGTGTATCAACACTGCCGACCTTATGGGGGGAGAAGATAGTACTGCGACTGCTTGATAGCAGTTCGGCCAATC
TCGATATCGACAAGCTTGGCTACAGTGAAGATCAAAAAACCCTATACCTTAATGCCTTAAAACGCCCACAAGGAATGATC
TTAATGACCGGGCCAACCGGCAGTGGCAAAACCGTTTCTCTTTATACTGGGCTTCGAGTACTGAATACCACTGAACGTAA
TATCTCTACAGCCGAAGACCCTGTTGAAATTAACCTATGTGGTATCAATCAGGTACAGGTGACACCTAAGATCGGCTTTG
GATTCGCGGAAGCACTGAGATCGTTTTTACGACAAGATCCTGATGTGGTGATGGTCGGTGAGATCCGAGATTTAGAAACT
GCAGAGATCGCGATCAAAGCATCGCAAACTGGTCACTTGGTCCTTTCTACACTGCACACCAACTCCGCAGCTGAAACCGT
GACTCGACTCGCTCACATGGGTATTGAACCCTTTAACCTTGCTTCATCCTTAAGCTTGATTATTGCTCAACGTCTTGCGA
GACGCTTATGTAACCACTGTAAAGCTGAAGACGGTTCACCAGATATTTACTTGCGTCACTCTATCCCAAATAGCCAAACC
ATCTACAAAGCTAACTCTCAAGGCTGTAATGAGTGTAATCAAGGATACTCCGGTCGCGTTGGTATCTATGAAGTAATGCC
ATTTACCGACAAACTTAAAAACAGCCTAATTAACAAACCTAATGCGTTAGCGATTGAAGATCTCGCCCGCCGAGAAGGCA
TGAGAACACTGCAAGAGTCTGGTTTAGACAAACTGCTTGAAGGCACCACCAGCTATCAAGAGCTACAACGTGTTCTGTAC
ATATAA

Domains

Predicted by InterproScan.

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

(43-141)

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 cholerae strain A1552

73.31

100

0.734
  pilB Vibrio campbellii strain DS40M4

70.641

100

0.708
  pilB Vibrio parahaemolyticus RIMD 2210633

70.641

100

0.708
  pilB Acinetobacter baumannii D1279779

50.564

94.831

0.48
  pilB Legionella pneumophila strain ERS1305867

49.427

93.405

0.462
  pilB Acinetobacter baylyi ADP1

49.031

91.979

0.451
  pilF Neisseria gonorrhoeae MS11

43.034

100

0.435
  pilF Thermus thermophilus HB27

38.964

92.87

0.362