Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IL982_RS00825 Genome accession   NZ_CP063049
Coordinates   134786..136477 (-) Length   563 a.a.
NCBI ID   WP_197573559.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain KC-Dl-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 129786..141477
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IL982_RS00795 (IL982_00795) mutT 130218..130640 (-) 423 WP_148109395.1 8-oxo-dGTP diphosphatase MutT -
  IL982_RS00800 (IL982_00800) yacG 130805..131014 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IL982_RS00805 (IL982_00805) zapD 131023..131760 (-) 738 WP_005297594.1 cell division protein ZapD -
  IL982_RS00810 (IL982_00810) coaE 131828..132430 (-) 603 WP_086367532.1 dephospho-CoA kinase -
  IL982_RS00815 (IL982_00815) pilD 132432..133310 (-) 879 WP_188013997.1 prepilin peptidase Machinery gene
  IL982_RS00820 (IL982_00820) pilC 133493..134719 (-) 1227 WP_086367530.1 type II secretion system F family protein Machinery gene
  IL982_RS00825 (IL982_00825) pilB 134786..136477 (-) 1692 WP_197573559.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IL982_RS00830 (IL982_00830) pilA 136478..136912 (-) 435 WP_197573560.1 pilin Machinery gene
  IL982_RS00835 (IL982_00835) ampD 137333..137911 (+) 579 WP_086367527.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IL982_RS00840 (IL982_00840) pdhR 138271..139044 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62548.09 Da        Isoelectric Point: 5.3568

>NTDB_id=492546 IL982_RS00825 WP_197573559.1 134786..136477(-) (pilB) [Photobacterium damselae subsp. damselae strain KC-Dl-1]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDYEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDEDLN
NLVDMGDDELDHTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDTLGYNQQQKAAYLNALQQPQGM
ILITGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=492546 IL982_RS00825 WP_197573559.1 134786..136477(-) (pilB) [Photobacterium damselae subsp. damselae strain KC-Dl-1]
ATGCACACTACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATATTTGGTCTTACCCTCGTATCAGTCCATGACTACGATTATGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
TTGGTATTACGTCATCGCGCACTACCCCTCGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGCCGCAATATTGAGCCGCTACTGCTGGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGGGATGTCAGCGATGAGGATCTCAAT
AACTTAGTCGATATGGGGGATGACGAGCTGGATCACACCACAGATCTAGGCCAAGAAAACGAACCAGTTACTCGCTATAT
CAACCAAGTGCTACTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGCTATCGGATCC
GCTTTCGTTGTGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGTATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTGCGGGTTTCTACCCTGCCCACTTTATGGGGGGAAAAAGTGGTGCTGCGTATTTTAGATAGCTCCAGTGCCA
ACTTAGACATTGATACTTTAGGTTACAACCAACAACAAAAAGCCGCTTATCTTAATGCTCTGCAACAACCGCAAGGGATG
ATCTTAATAACAGGGCCGACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGACTTAACATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAGGATCCAGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TGGGGTTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCAGCGCAAACCGGACACTTAGTACTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATTACCCGTTTAACCAATATGGGTATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATAGACGGCTTTATGCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGCCGACTTGCTCAAGCTCTGGTTGATGGCGCTACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
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

61.812

100

0.618
  pilB Vibrio parahaemolyticus RIMD 2210633

61.456

100

0.615
  pilB Vibrio campbellii strain DS40M4

60.036

100

0.6
  pilB Legionella pneumophila strain ERS1305867

50.185

96.27

0.483
  pilB Acinetobacter baylyi ADP1

49.27

97.336

0.48
  pilB Acinetobacter baumannii D1279779

51.44

92.54

0.476
  pilF Neisseria gonorrhoeae MS11

44.718

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

39.388

92.895

0.366
  pilF Thermus thermophilus HB27

38.23

94.316

0.361