Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WAX87_RS13465 Genome accession   NZ_CP146967
Coordinates   2909835..2911526 (+) Length   563 a.a.
NCBI ID   WP_341496133.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain WMD-P1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2904835..2916526
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WAX87_RS13450 (WAX87_13450) pdhR 2907334..2908107 (-) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  WAX87_RS13455 (WAX87_13455) ampD 2908466..2909044 (-) 579 WP_106141850.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WAX87_RS13460 (WAX87_13460) pilA 2909429..2909827 (+) 399 WP_106142458.1 pilin Machinery gene
  WAX87_RS13465 (WAX87_13465) pilB 2909835..2911526 (+) 1692 WP_341496133.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WAX87_RS13470 (WAX87_13470) pilC 2911592..2912818 (+) 1227 WP_068969232.1 type II secretion system F family protein Machinery gene
  WAX87_RS13475 (WAX87_13475) pilD 2913001..2913879 (+) 879 WP_106142459.1 A24 family peptidase Machinery gene
  WAX87_RS13480 (WAX87_13480) coaE 2913881..2914483 (+) 603 WP_341495847.1 dephospho-CoA kinase -
  WAX87_RS13485 (WAX87_13485) zapD 2914551..2915288 (+) 738 WP_005297594.1 cell division protein ZapD -
  WAX87_RS13490 (WAX87_13490) yacG 2915297..2915506 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  WAX87_RS13495 (WAX87_13495) mutT 2915753..2916193 (+) 441 WP_086957272.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62514.12 Da        Isoelectric Point: 5.3603

>NTDB_id=945184 WAX87_RS13465 WP_341496133.1 2909835..2911526(+) (pilB) [Photobacterium damselae subsp. damselae strain WMD-P1]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVFRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELEQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFVQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=945184 WAX87_RS13465 WP_341496133.1 2909835..2911526(+) (pilB) [Photobacterium damselae subsp. damselae strain WMD-P1]
ATGCACACCACTCTTGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTACAGCAACAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGTATATTTAGCGATCGCGAACTGGCTCAACACCTTA
GCCACATTTTTGGTCTCACCCTCGTTTCGGTTCATGACTACGACTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
TTGGTATTTCGTCATCGTGCGCTACCGTTATGCCAAAGCGCCAATACGTTATTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGACGCAATATTGAACCGCTACTACTAGAAAACAAACAGCTCGAATCAG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGATGAGTTGGAGCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGTTATCGGATCC
GCTTTCGTTGTGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGACTCTCAACTCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGTATAAAACTCAAGCTCACAGCCAACTTAGC
TGTAGATCTGCGTGTTTCTACCCTACCCACTTTATGGGGTGAAAAAGTGGTACTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCTGCTTATCTTAATGCACTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCAACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCAGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCTGGCC
TCGGATTTGCTGAAGCGTTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCTGCGCAAACTGGGCACTTAGTGCTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATTACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCGCTAACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTGTGCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGTCGGCTGGCTCAAGCTTTGGTTGATGGCGCGACTACCTTAGAGCTGGAAAATATCGCAGTAGAAG
AAGGGATGCTGACGCTACAACAATCGGGAATAGAAAAACTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
CTGCATTTTTAA

Domains

Predicted by InterproScan.

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

(38-143)

Type II/IV secretion system protein (T2SSE)

(189-456)


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

61.989

100

0.62
  pilB Vibrio parahaemolyticus RIMD 2210633

60.924

100

0.609
  pilB Vibrio campbellii strain DS40M4

60.746

100

0.607
  pilB Legionella pneumophila strain ERS1305867

50

96.625

0.483
  pilB Acinetobacter baylyi ADP1

48.723

97.336

0.474
  pilB Acinetobacter baumannii D1279779

50.864

92.54

0.471
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

39.306

92.185

0.362