Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IHC87_RS01955 Genome accession   NZ_CP090501
Coordinates   393595..395286 (-) Length   563 a.a.
NCBI ID   WP_237033350.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain CSP DAM1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 388595..400286
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC87_RS01925 (IHC87_01925) mutT 389088..389528 (-) 441 WP_237033346.1 8-oxo-dGTP diphosphatase MutT -
  IHC87_RS01930 (IHC87_01930) yacG 389616..389825 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC87_RS01935 (IHC87_01935) zapD 389834..390571 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC87_RS01940 (IHC87_01940) coaE 390639..391241 (-) 603 WP_237033347.1 dephospho-CoA kinase -
  IHC87_RS01945 (IHC87_01945) pilD 391243..392121 (-) 879 WP_237033348.1 prepilin peptidase Machinery gene
  IHC87_RS01950 (IHC87_01950) pilC 392303..393529 (-) 1227 WP_237033349.1 type II secretion system F family protein Machinery gene
  IHC87_RS01955 (IHC87_01955) pilB 393595..395286 (-) 1692 WP_237033350.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC87_RS01960 (IHC87_01960) pilA 395287..395673 (-) 387 WP_237033351.1 pilin Machinery gene
  IHC87_RS01965 (IHC87_01965) ampD 396068..396646 (+) 579 WP_069531889.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IHC87_RS01970 (IHC87_01970) pdhR 397006..397779 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62525.17 Da        Isoelectric Point: 5.4754

>NTDB_id=642969 IHC87_RS01955 WP_237033350.1 393595..395286(-) (pilB) [Photobacterium damselae subsp. damselae strain CSP DAM1]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDEERDQATDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRISTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=642969 IHC87_RS01955 WP_237033350.1 393595..395286(-) (pilB) [Photobacterium damselae subsp. damselae strain CSP DAM1]
ATGCACACCACTCTCGCCTCGATTCTGCACCAAGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATTTTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATATTTGGTCTCACCCTCGTTTCAGTGCATGACTACGATTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCGCTACCATTATGCCAAAGCGCCAATACGCTATTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGACAAGATGAGTTCCGTTTTGCCACTGGCCGCAATATTGAGCCGCTACTGCTAGAAAATAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGCCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGGGACGTCAGTGACGATGATCTAAAT
AACTTAGTCGATATTGGTGATGAAGAGCGGGATCAAGCGACAGATTTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCTGATATCCATTTTGAACCTTATGAGACCAGTTATCGGATCC
GCTTTCGTTGTGATGGGATCTTGCACCAACACGCAACACCACCAGCCCATCTTTCTCGCCGAATCTCAACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGGCGCCAACCACAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTGCGGGTTTCTACCCTGCCCACTTTATGGGGGGAAAAAGTGGTGCTGCGTATTTTAGATAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTATAACCAACAACAAAAAGCCGCTTACCTTAATGCTCTGCAACAGCCGCAAGGGATG
ATTTTAATGACAGGGCCGACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATATCTACCGCTGAAGATCCAGTGGAGATCAACTTACCCGGCATTAATCAGGTACACATTAACAATCAAGCTGGCC
TCGGATTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGAGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCAGCGCAAACCGGACACTTAGTACTATCGACCTTGCACACCAATTCTGCTGCCGAAAC
CATCACCCGCTTAACTAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTATGCAAGACAAACTGCGCATTCCAGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGCCGTCTGGCTCAAGCTCTGGTTGATGGTGCTACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
AAGGGATGCTGACGCTACAACAATCGGGAATAGAAAAGCTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
CTGCATTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(189-456)

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

(38-143)


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

61.456

100

0.615
  pilB Vibrio parahaemolyticus RIMD 2210633

60.746

100

0.607
  pilB Vibrio campbellii strain DS40M4

60.213

100

0.602
  pilB Legionella pneumophila strain ERS1305867

50.185

96.27

0.483
  pilB Acinetobacter baylyi ADP1

48.723

97.336

0.474
  pilB Acinetobacter baumannii D1279779

50.766

92.718

0.471
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

39.499

92.185

0.364
  pilB Haemophilus influenzae 86-028NP

42.062

86.146

0.362
  pilB Haemophilus influenzae Rd KW20

42.062

86.146

0.362