Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CAY62_RS12235 Genome accession   NZ_CP021151
Coordinates   2608508..2610199 (+) Length   563 a.a.
NCBI ID   WP_086367529.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain KC-Na-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2603508..2615199
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CAY62_RS12220 (CAY62_12210) pdhR 2605944..2606717 (-) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  CAY62_RS12225 (CAY62_12215) ampD 2607077..2607655 (-) 579 WP_086367527.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  CAY62_RS12230 (CAY62_12220) - 2608042..2608494 (+) 453 WP_086367528.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  CAY62_RS12235 (CAY62_12225) pilB 2608508..2610199 (+) 1692 WP_086367529.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CAY62_RS12240 (CAY62_12230) pilC 2610266..2611492 (+) 1227 WP_086367530.1 type II secretion system F family protein Machinery gene
  CAY62_RS12245 (CAY62_12235) pilD 2611675..2612553 (+) 879 WP_086367531.1 A24 family peptidase Machinery gene
  CAY62_RS12250 (CAY62_12240) coaE 2612555..2613157 (+) 603 WP_086367532.1 dephospho-CoA kinase -
  CAY62_RS12255 (CAY62_12245) zapD 2613225..2613962 (+) 738 WP_005297594.1 cell division protein ZapD -
  CAY62_RS12260 (CAY62_12250) yacG 2613971..2614180 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  CAY62_RS12265 (CAY62_12255) mutT 2614261..2614701 (+) 441 WP_086367533.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62552.12 Da        Isoelectric Point: 5.2594

>NTDB_id=228613 CAY62_RS12235 WP_086367529.1 2608508..2610199(+) (pilB) [Photobacterium damselae subsp. damselae strain KC-Na-1]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITIPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDYEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDEDLN
NLVDMGDDELDQTTDLGQDTEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTPNLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDTLGYNQQQKAAYLNALQQPQGM
ILITGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=228613 CAY62_RS12235 WP_086367529.1 2608508..2610199(+) (pilB) [Photobacterium damselae subsp. damselae strain KC-Na-1]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGATTCCCTCCGCACTGATCCATCTGGGTATATTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATATTTGGTCTTACCCTCGTATCAGTCCATGACTACGATTATGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCACTACCCCTCGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGCCGTAATATTGAACCGCTACTGCTGGAAAATAAGCAGCTCGAATCGG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGAGGATCTCAAT
AACTTAGTCGATATGGGGGATGACGAGCTGGATCAAACCACAGATCTAGGCCAAGATACCGAACCTGTTACCCGTTATAT
TAACCAAGTGCTGCTCGATGCAGTACGTAAAAAAGCCTCCGATATTCACTTTGAACCTTATGAGACCAGCTATCGGATCC
GCTTTCGTTGCGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCACGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACACCCAATTTGGC
AGTAGATCTGCGGGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATACTTTAGGTTACAACCAACAACAAAAAGCCGCTTATCTTAATGCTCTGCAACAACCGCAAGGGATG
ATCTTAATAACAGGGCCGACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGACTTAACATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAGGATCCAGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TGGGGTTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCAGCGCAAACCGGACACTTAGTACTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATTACCCGTTTAACCAATATGGGTATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATAGACGGCTTTATGCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGCCGACTTGCTCAAGCTCTGGTTGATGGCGCTACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
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

61.812

100

0.618
  pilB Vibrio parahaemolyticus RIMD 2210633

61.634

100

0.616
  pilB Vibrio campbellii strain DS40M4

60.213

100

0.602
  pilB Acinetobacter baylyi ADP1

49.818

97.336

0.485
  pilB Legionella pneumophila strain ERS1305867

50.369

96.27

0.485
  pilB Acinetobacter baumannii D1279779

51.631

92.54

0.478
  pilF Neisseria gonorrhoeae MS11

44.366

100

0.448
  pilB/pilB1 Synechocystis sp. PCC 6803

39.197

92.895

0.364

Multiple sequence alignment