Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IPQ37_RS01975 Genome accession   NZ_CP065041
Coordinates   398007..399698 (-) Length   563 a.a.
NCBI ID   WP_237042616.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain AS-16-0963-3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 393007..404698
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IPQ37_RS01945 (IPQ37_01945) mutT 393426..393833 (-) 408 WP_237042615.1 8-oxo-dGTP diphosphatase MutT -
  IPQ37_RS01950 (IPQ37_01950) yacG 394027..394236 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IPQ37_RS01955 (IPQ37_01955) zapD 394245..394982 (-) 738 WP_005297594.1 cell division protein ZapD -
  IPQ37_RS01960 (IPQ37_01960) coaE 395050..395652 (-) 603 WP_109374725.1 dephospho-CoA kinase -
  IPQ37_RS01965 (IPQ37_01965) pilD 395654..396532 (-) 879 WP_005297598.1 prepilin peptidase Machinery gene
  IPQ37_RS01970 (IPQ37_01970) pilC 396715..397941 (-) 1227 WP_005297600.1 type II secretion system F family protein Machinery gene
  IPQ37_RS01975 (IPQ37_01975) pilB 398007..399698 (-) 1692 WP_237042616.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IPQ37_RS01980 (IPQ37_01980) pilA 399699..400085 (-) 387 WP_237042617.1 pilin Machinery gene
  IPQ37_RS01985 (IPQ37_01985) ampD 400471..401049 (+) 579 WP_069531889.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IPQ37_RS01990 (IPQ37_01990) pdhR 401409..402182 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62491.08 Da        Isoelectric Point: 5.3491

>NTDB_id=506133 IPQ37_RS01975 WP_237042616.1 398007..399698(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-16-0963-3]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDHELSQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLAQNVDTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPTG
TTLYKANPAGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=506133 IPQ37_RS01975 WP_237042616.1 398007..399698(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-16-0963-3]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCACGAACTGTCCCAACACCTTA
GCCACATATTTGGTCTTACCCTCGTTTCGGTCCATGACTACGATTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGCCATCGCGCACTGCCCCTCGCCCAAAATGTGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACCGGACGTAATATTGAACCGCTACTGCTAGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGCCGCGAGTTGGGCGAAACCACCAACATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGATGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTACTGCTCGATGCAGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCATATGAGACCAGCTATCGGATCC
GCTTTCGTTGTGATGGCATCTTACACCAGCACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAGCGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTGCGGGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTACTGCGTATTTTAGATAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCCGCTTATCTTAATGCACTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCGACGGGCAGTGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAAGATCCGGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAT
TGGGGTTTGCTGAAGCGTTGCGCTCATTTTTACGTCAAGACCCCGATGTAGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCAGCGCAAACTGGACACTTAGTGCTATCGACCTTGCACACCAATTCTGCTGCCGAAAC
CATCACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACTCTGATTATTGCTCAGCGCTTAG
GTCGTCGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTATGCAAGACAAACTGCGCATTCCGACTGGC
ACTACCTTATATAAAGCCAATCCAGCAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGCGTCGGTATCTATGAAGT
GATGCCGTTTAGTCGTCGGCTGGCTCAAGCTCTGGTTGATGGCGCGACCACCTTGGAGCTAGAAAATATCGCAGTAGAAG
AAGGGATGCTAACGCTACAACAATCGGGAATAGAAAAGCTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
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

62.167

100

0.622
  pilB Vibrio parahaemolyticus RIMD 2210633

61.101

100

0.611
  pilB Vibrio campbellii strain DS40M4

60.746

100

0.607
  pilB Legionella pneumophila strain ERS1305867

50

96.625

0.483
  pilB Acinetobacter baylyi ADP1

49.27

97.336

0.48
  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

39.692

92.185

0.366