Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KEC60_RS01940 Genome accession   NZ_CP079237
Coordinates   393802..395493 (-) Length   563 a.a.
NCBI ID   WP_284649321.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd1608     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 388802..400493
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KEC60_RS01910 (KEC60_01910) mutT 389363..389770 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KEC60_RS01915 (KEC60_01915) yacG 389823..390032 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KEC60_RS01920 (KEC60_01920) zapD 390041..390778 (-) 738 WP_005297594.1 cell division protein ZapD -
  KEC60_RS01925 (KEC60_01925) coaE 390855..391448 (-) 594 WP_284649318.1 dephospho-CoA kinase -
  KEC60_RS01930 (KEC60_01930) pilD 391450..392328 (-) 879 WP_284649319.1 A24 family peptidase Machinery gene
  KEC60_RS01935 (KEC60_01935) pilC 392510..393736 (-) 1227 WP_284649320.1 type II secretion system F family protein Machinery gene
  KEC60_RS01940 (KEC60_01940) pilB 393802..395493 (-) 1692 WP_284649321.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KEC60_RS01945 (KEC60_01945) pilA 395500..395892 (-) 393 WP_284649322.1 pilin Machinery gene
  KEC60_RS01950 (KEC60_01950) ampD 396279..396857 (+) 579 WP_284649323.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KEC60_RS01955 (KEC60_01955) pdhR 397217..397990 (+) 774 WP_284649324.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62530.12 Da        Isoelectric Point: 5.3620

>NTDB_id=588352 KEC60_RS01940 WP_284649321.1 393802..395493(-) (pilB) [Photobacterium damselae strain Pdd1608]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELTQHLSHIFGLTLVSVHDYDYEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKITANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMKDKLRIPAG
TTLYKANSEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=588352 KEC60_RS01940 WP_284649321.1 393802..395493(-) (pilB) [Photobacterium damselae strain Pdd1608]
ATGCACACTACTCTTGCCTCGATTCTGCACCAAGCTGATCTGATCAGCTCGGTGCAGCAACAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCGCGAACTGACCCAACACCTTA
GCCACATATTTGGTCTCACCCTCGTTTCAGTCCATGACTACGATTATGAAGCTTGTTGTAAAGCAGTCTATCAACGCGAT
CTGGTATTACGCCATCGCGCACTGCCCCTCGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGACAAGATGAGTTCCGTTTTGCCACTGGACGCAATATTGAACCGCTACTGCTAGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGTCGTGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGACGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATTCATTTTGAACCTTATGAGACCAGTTATCGGATCC
GATTTCGTTGTGATGGGATCTTGCACCAACACGCAACACCACCAGCCCACCTTTCTCGTCGTCTCTCAACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGATCACAGCCAATTTAGC
CGTAGATCTGCGTGTTTCTACCCTGCCCACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGATATTGATATTTTAGGTTACAACCAACAACAAAAAGCCGCTTACCTTAATGCTCTGCAACAGCCGCAAGGAATG
ATCTTAATGACAGGACCGACGGGCAGCGGTAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAAGATCCGGTAGAGATCAACTTACCTGGCATTAATCAGGTTCACATTAACAATCAAGCTGGCC
TCGGATTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCTGATGTGGTGATGGTGGGGGAAATCCGCGATCTGGAA
ACCGCCTCTATCGCCGTTAAAGCAGCGCAAACCGGACATTTAGTACTATCGACCTTGCACACCAATTCTGCTGCCGAAAC
CATCACCCGCTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCAGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTATGAAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATTCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCGTTTAGTCGTCGGCTGGCTCAAGCTCTGGTTGATGGCGCGACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
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

61.989

100

0.62
  pilB Vibrio parahaemolyticus RIMD 2210633

60.568

100

0.606
  pilB Vibrio campbellii strain DS40M4

60.391

100

0.604
  pilB Legionella pneumophila strain ERS1305867

50.184

96.625

0.485
  pilB Acinetobacter baylyi ADP1

48.54

97.336

0.472
  pilB Acinetobacter baumannii D1279779

50.288

92.54

0.465
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

40.077

92.185

0.369
  pilB Haemophilus influenzae Rd KW20

41.856

86.146

0.361