Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WAX88_RS11400 Genome accession   NZ_CP146973
Coordinates   2511046..2512737 (+) Length   563 a.a.
NCBI ID   WP_151171379.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain WMD-P3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2506046..2517737
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WAX88_RS11385 (WAX88_11385) pdhR 2508516..2509289 (-) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  WAX88_RS11390 (WAX88_11390) ampD 2509648..2510226 (-) 579 WP_106261933.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WAX88_RS11395 (WAX88_11395) - 2510612..2511043 (+) 432 WP_341508791.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  WAX88_RS11400 (WAX88_11400) pilB 2511046..2512737 (+) 1692 WP_151171379.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WAX88_RS11405 (WAX88_11405) pilC 2512803..2514029 (+) 1227 WP_106338472.1 type II secretion system F family protein Machinery gene
  WAX88_RS11410 (WAX88_11410) pilD 2514212..2515090 (+) 879 WP_106338474.1 A24 family peptidase Machinery gene
  WAX88_RS11415 (WAX88_11415) coaE 2515092..2515694 (+) 603 WP_109374725.1 dephospho-CoA kinase -
  WAX88_RS11420 (WAX88_11420) zapD 2515762..2516499 (+) 738 WP_005297594.1 cell division protein ZapD -
  WAX88_RS11425 (WAX88_11425) yacG 2516508..2516717 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  WAX88_RS11430 (WAX88_11430) mutT 2516902..2517309 (+) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62442.01 Da        Isoelectric Point: 5.3583

>NTDB_id=945249 WAX88_RS11400 WP_151171379.1 2511046..2512737(+) (pilB) [Photobacterium damselae subsp. damselae strain WMD-P3]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSAHDYDFEACCKAVYQRD
LVLRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFIQDKLRIPAG
TTLYKANSEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=945249 WAX88_RS11400 WP_151171379.1 2511046..2512737(+) (pilB) [Photobacterium damselae subsp. damselae strain WMD-P3]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCTGCACTGATCCATCTGGGTATTTTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATATTTGGTCTCACCCTCGTTTCGGCTCATGACTACGACTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCACTACCGTTATGCCAAAGCGCCAATACGTTATTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTTCGTTTTGCCACTGGCCGCAATATTGAACCGCTACTCCTAGAAAACAAACAGCTCGAATCGG
CTATCCGCCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTAAAT
AACTTAGTCGATATTGGTGATGATGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGCTATCGGATCC
GCTTTCGTTGTGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGCCGTCTATCTACTCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGTATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTACGGGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGATAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCTGCTTATCTTAATGCACTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCGACGGGCAGTGGCAAGACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCAGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TGGGGTTTGCTGAAGCACTGCGCTCATTTTTACGTCAAGACCCTGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACCGCCTCTATTGCTGTTAAAGCAGCGCAAACCGGACACTTAGTACTATCGACCTTGCACACCAATTCTGCTGCCGAAAC
CATCACCCGCTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATTGACGGCTTTATTCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATTCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCGTTTAGTCGTCGTCTGGCTCAAGCTCTGGTTGATGGAGCGACTACCTTGGAGCTAGAAAACATCGCAGTAGAAG
AAGGGATGCTGACGCTACAACAATCGGGAATAGAAAAGCTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
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

60.391

100

0.604
  pilB Legionella pneumophila strain ERS1305867

50.184

96.625

0.485
  pilB Acinetobacter baylyi ADP1

48.723

97.336

0.474
  pilB Acinetobacter baumannii D1279779

50.672

92.54

0.469
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

40.077

92.185

0.369
  pilB Haemophilus influenzae Rd KW20

42.062

86.146

0.362
  pilB Haemophilus influenzae 86-028NP

41.856

86.146

0.361