Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IHC88_RS01960 Genome accession   NZ_CP090498
Coordinates   393552..395243 (-) Length   563 a.a.
NCBI ID   WP_237033350.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain CSP DAM2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 388552..400243
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC88_RS01930 (IHC88_01930) mutT 389052..389492 (-) 441 WP_237033346.1 8-oxo-dGTP diphosphatase MutT -
  IHC88_RS01935 (IHC88_01935) yacG 389573..389782 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC88_RS01940 (IHC88_01940) zapD 389791..390528 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC88_RS01945 (IHC88_01945) coaE 390596..391198 (-) 603 WP_237033347.1 dephospho-CoA kinase -
  IHC88_RS01950 (IHC88_01950) pilD 391200..392078 (-) 879 WP_237033348.1 prepilin peptidase Machinery gene
  IHC88_RS01955 (IHC88_01955) pilC 392260..393486 (-) 1227 WP_237033349.1 type II secretion system F family protein Machinery gene
  IHC88_RS01960 (IHC88_01960) pilB 393552..395243 (-) 1692 WP_237033350.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC88_RS01965 (IHC88_01965) pilA 395244..395630 (-) 387 WP_237033351.1 pilin Machinery gene
  IHC88_RS01970 (IHC88_01970) ampD 396025..396603 (+) 579 WP_069531889.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IHC88_RS01975 (IHC88_01975) pdhR 396963..397736 (+) 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=642933 IHC88_RS01960 WP_237033350.1 393552..395243(-) (pilB) [Photobacterium damselae subsp. damselae strain CSP DAM2]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDEERDQATDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRISTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=642933 IHC88_RS01960 WP_237033350.1 393552..395243(-) (pilB) [Photobacterium damselae subsp. damselae strain CSP DAM2]
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