Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OO966_RS01900 Genome accession   NZ_AP026780
Coordinates   391211..392902 (-) Length   563 a.a.
NCBI ID   WP_264954812.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain 04Ya311     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 386211..397902
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OO966_RS01870 (PDY_03510) mutT 386728..387150 (-) 423 WP_138241280.1 8-oxo-dGTP diphosphatase MutT -
  OO966_RS01875 (PDY_03520) yacG 387231..387440 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  OO966_RS01880 (PDY_03530) zapD 387449..388186 (-) 738 WP_264954810.1 cell division protein ZapD -
  OO966_RS01885 (PDY_03540) coaE 388257..388856 (-) 600 WP_264954811.1 dephospho-CoA kinase -
  OO966_RS01890 (PDY_03550) pilD 388858..389736 (-) 879 WP_106338474.1 prepilin peptidase Machinery gene
  OO966_RS01895 (PDY_03560) pilC 389919..391145 (-) 1227 WP_106338472.1 type II secretion system F family protein Machinery gene
  OO966_RS01900 (PDY_03570) pilB 391211..392902 (-) 1692 WP_264954812.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OO966_RS01905 (PDY_03580) pilA 392909..393343 (-) 435 WP_264954813.1 pilin Machinery gene
  OO966_RS01910 (PDY_03590) ampD 393732..394310 (+) 579 WP_138222126.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OO966_RS01915 (PDY_03600) pdhR 394670..395443 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62538.14 Da        Isoelectric Point: 5.2594

>NTDB_id=96942 OO966_RS01900 WP_264954812.1 391211..392902(-) (pilB) [Photobacterium damselae subsp. damselae strain 04Ya311]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDYEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPVG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=96942 OO966_RS01900 WP_264954812.1 391211..392902(-) (pilB) [Photobacterium damselae subsp. damselae strain 04Ya311]
ATGCACACCACTCTCGCCTCAATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGCGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCGCGAACTGGCCCAGCACCTTA
GCCACATATTTGGTCTCACCCTCGTTTCGGTCCATGACTACGATTATGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCACTGCCCCTAGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGACAAGATGAGTTCCGTTTTGCCACTGGCCGTAATATTGAACCGCTACTGCTAGAAAACAAACAGCTCGAATCAG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGACGAGCTGGATCAAACCACAGATCTAGGTCAAGAAAACGAACCAGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGTTATCGGATCC
GCTTTCGTTGTGATGGCATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTACGGGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCTGCTTATCTTAATGCTCTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCTACGGGTAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCGGTAGAGATCAACTTACCAGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TGGGGTTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTAGAA
ACCGCCTCTATTGCCGTTAAAGCTGCGCAAACTGGGCACTTAGTGCTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATTACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCGCTAACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTATGCAGGACAAGCTGCGCATTCCGGTTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGTCGGCTGGCTCAAGCTCTGGTTGATGGCGCAACTACCTTAGAGCTGGAAAATATCGCAGTAGAAG
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

62.167

100

0.622
  pilB Vibrio parahaemolyticus RIMD 2210633

61.279

100

0.613
  pilB Vibrio campbellii strain DS40M4

60.746

100

0.607
  pilB Legionella pneumophila strain ERS1305867

50.368

96.625

0.487
  pilB Acinetobacter baylyi ADP1

49.453

97.336

0.481
  pilB Acinetobacter baumannii D1279779

50.958

92.718

0.472
  pilF Neisseria gonorrhoeae MS11

44.542

100

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

39.692

92.185

0.366

Multiple sequence alignment