Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KQY33_RS01995 Genome accession   NZ_CP076733
Coordinates   407867..409558 (-) Length   563 a.a.
NCBI ID   WP_284633964.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd2008     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 402867..414558
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KQY33_RS01965 (KQY33_01965) mutT 403356..403778 (-) 423 WP_068968360.1 8-oxo-dGTP diphosphatase MutT -
  KQY33_RS01970 (KQY33_01970) yacG 403887..404096 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KQY33_RS01975 (KQY33_01975) zapD 404105..404842 (-) 738 WP_284633960.1 cell division protein ZapD -
  KQY33_RS01980 (KQY33_01980) coaE 404913..405512 (-) 600 WP_284633961.1 dephospho-CoA kinase -
  KQY33_RS01985 (KQY33_01985) pilD 405514..406392 (-) 879 WP_106338474.1 A24 family peptidase Machinery gene
  KQY33_RS01990 (KQY33_01990) pilC 406575..407801 (-) 1227 WP_284633963.1 type II secretion system F family protein Machinery gene
  KQY33_RS01995 (KQY33_01995) pilB 407867..409558 (-) 1692 WP_284633964.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KQY33_RS02000 (KQY33_02000) pilA 409570..409971 (-) 402 WP_284633965.1 pilin Machinery gene
  KQY33_RS02005 (KQY33_02005) ampD 410359..410937 (+) 579 WP_068969016.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KQY33_RS02010 (KQY33_02010) pdhR 411297..412070 (+) 774 Protein_374 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62552.12 Da        Isoelectric Point: 5.1729

>NTDB_id=577805 KQY33_RS01995 WP_284633964.1 407867..409558(-) (pilB) [Photobacterium damselae strain Pdd2008]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDDFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=577805 KQY33_RS01995 WP_284633964.1 407867..409558(-) (pilB) [Photobacterium damselae strain Pdd2008]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATTTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
TAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATTTTTGGTCTCACCCTCGTTTCGGTTCATGACTACGACTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGTGCACTGCCCCTTGCTCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAACAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGCCGTAATATTGAACCGCTACTGCTAGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCTAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGATGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGCTATCGGATCC
GCTTTCGTTGTGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTCCGTGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTGCTACGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAGCAACAAAAAGCCGCTTATCTTAATGCACTGCAACAACCGCAAGGGATG
ATCTTAATGACAGGGCCTACGGGTAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCGGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TAGGGTTTGCTGAAGCACTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTAGAA
ACCGCCTCTATTGCCGTTAAAGCAGCGCAAACCGGGCACTTAGTTCTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATCACCCGCTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACTCTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATTGACGACTTTATGCAAGACAAACTGCGTATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGTTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGCCGTCTGGCTCAAGCTCTGGTTGATGGCGCGACTACCTTAGAGCTGGAAAATATCGCAGTAGAAG
AAGGGATGCTGACCCTACAACAATCGGGAATAGAAAAGCTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
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

61.101

100

0.611
  pilB Vibrio campbellii strain DS40M4

60.568

100

0.606
  pilB Legionella pneumophila strain ERS1305867

50.551

96.625

0.488
  pilB Acinetobacter baylyi ADP1

48.723

97.336

0.474
  pilB Acinetobacter baumannii D1279779

50.672

92.54

0.469
  pilF Neisseria gonorrhoeae MS11

44.092

100

0.444
  pilB/pilB1 Synechocystis sp. PCC 6803

39.692

92.185

0.366