Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KXJ79_RS03915 Genome accession   NZ_CP079716
Coordinates   899230..900924 (-) Length   564 a.a.
NCBI ID   WP_122322326.1    Uniprot ID   -
Organism   Pseudomonas amygdali strain HS1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 894230..905924
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KXJ79_RS26120 - 894475..894711 (-) 237 WP_306824540.1 DUF3094 family protein -
  KXJ79_RS03880 (KXJ79_03880) - 894596..895129 (-) 534 WP_122259820.1 MOSC domain-containing protein -
  KXJ79_RS03885 (KXJ79_03885) - 895126..895755 (-) 630 WP_219170936.1 DUF1780 domain-containing protein -
  KXJ79_RS03890 (KXJ79_03890) - 895840..896112 (+) 273 Protein_766 hypothetical protein -
  KXJ79_RS03895 (KXJ79_03895) yacG 896310..896519 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  KXJ79_RS03900 (KXJ79_03900) coaE 896516..897139 (-) 624 WP_219170938.1 dephospho-CoA kinase -
  KXJ79_RS03905 (KXJ79_03905) pilD 897136..898008 (-) 873 WP_219170939.1 A24 family peptidase Machinery gene
  KXJ79_RS03910 (KXJ79_03910) pilC 898010..899227 (-) 1218 WP_122322325.1 type II secretion system F family protein Machinery gene
  KXJ79_RS03915 (KXJ79_03915) pilB 899230..900924 (-) 1695 WP_122322326.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KXJ79_RS26400 (KXJ79_03920) pilA2 901149..901565 (+) 417 WP_122322339.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  KXJ79_RS03925 (KXJ79_03925) - 901727..903148 (+) 1422 WP_371875225.1 O-antigen ligase family protein -
  KXJ79_RS03930 (KXJ79_03930) - 903260..904546 (+) 1287 WP_219170940.1 polysaccharide biosynthesis C-terminal domain-containing protein -
  KXJ79_RS03935 (KXJ79_03935) - 904596..905141 (-) 546 WP_219170941.1 DUF1523 family protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62495.82 Da        Isoelectric Point: 6.1636

>NTDB_id=588828 KXJ79_RS03915 WP_122322326.1 899230..900924(-) (pilB) [Pseudomonas amygdali strain HS1]
MTDVVLTGLAKQLVLAELLTEIAAQQAYQQARREKISLVSYLVQNKLVKSLTLAEIASDQFGVPFVDLSSLDKESQPKGL
VSEKLVRQHNALPLWRRGNKLFIGISDPTNHQAITDIQFSTGLNTEAILVEDDKLSLAIDRFFDTESGLGELADIDLGLE
IEPASDKETSLATQSDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKNKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPDQKALYMEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIQEGFPEEK
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTPALERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=588828 KXJ79_RS03915 WP_122322326.1 899230..900924(-) (pilB) [Pseudomonas amygdali strain HS1]
ATGACTGATGTTGTTCTCACCGGTTTGGCCAAGCAACTGGTCTTGGCCGAGCTTCTTACAGAAATTGCCGCCCAGCAGGC
CTATCAGCAGGCGCGCCGCGAAAAAATTTCGCTGGTTAGCTATCTGGTACAAAACAAACTGGTCAAAAGCCTTACGCTGG
CAGAGATCGCGTCTGATCAGTTCGGCGTTCCTTTCGTGGATCTTTCCAGTCTTGACAAAGAAAGCCAGCCTAAGGGGTTG
GTGAGTGAGAAGCTCGTCAGACAGCATAATGCCCTCCCCCTGTGGCGCCGTGGTAACAAGCTGTTTATCGGCATATCGGA
CCCGACAAACCATCAGGCGATCACAGATATTCAGTTCAGCACTGGCCTGAATACTGAAGCGATTCTGGTTGAAGATGACA
AGCTAAGCCTTGCCATAGACCGCTTTTTTGACACTGAAAGCGGCCTCGGCGAGTTGGCGGATATTGATCTGGGTCTTGAA
ATCGAACCTGCCAGTGACAAGGAAACCTCACTGGCGACACAGAGTGATGCCGACGATGCTCCTGTTGTGCGCTTCGTCAA
CAAGATGCTGATGGATGCGATACGGCTGGGCTCGTCGGACCTGCATTTTGAACCTTACGAAAAGATTTTTCGCGTGCGCC
TGCGTACCGACGGCATTTTGCATGAAGTGGCCAGACCACCGATTCATCTGGCCAATCGGATTGCCGCACGGCTTAAGGTC
ATGGCCAGTCTCGATATCTCTGAGCGGCGTAAACCGCAGGACGGTAGGGTCAAGCTGCGAGTGTCAAAAAACAAAGCTAT
CGACTTCCGTATGAACACGCTGCCGACACTGTGGGGCGAGAAGATCGTGATGCGGATTCTCGATCCGACCAGCGCACAGA
TGGGCATTGACGCGCTGGGCTATGAGCCGGACCAAAAAGCTTTATATATGGAGGCCTTGAAACAGCCACAAGGCATGATT
CTTGTGACCGGCCCCACTGGCTCGGGTAAAACCGTCTCGCTGTACACTGGCCTGAACATTCTTAATACTGTGGACATCAA
CATTTCCACAGCTGAAGACCCGGTAGAAATCAACCTGGAAGGCATCAATCAGGTCAATGTCAATCCGCGTCAGGGATTGG
ACTTTTCCCAGGCATTGCGCGCATTCCTGCGTCAAGATCCCGACGTAATCATGGTCGGCGAGATACGAGATCTGGAAACC
GCCGAAATCGCCATTAAAGCCTCGCAGACCGGCCACATGGTGTTATCTACTCTGCATACTAACAGCGCCGCAGAAACTCT
GACTCGCTTGCATCATATGGGTGTCGCAGCTTTCAACATCGCTACAGCAATCAACCTCATCATTGCCCAGCGGCTGGCGC
GCAAGCTGTGCAGCCATTGTAAGAAAGAACTCGATATACCCCGGGAAACGCTCATCCAGGAGGGTTTTCCGGAGGAGAAG
ATCGGTACGTTTAAAATCTACGGCCCAGTAGGGTGTGAGCATTGCAACGGCGGCTACAGGGGCAGGGTCGGGATTTATGA
AGTGGTCAAGAAAACACCTGCGCTGGAACGTATCATCATGGAAGAAGGCAATTCACTGGAGATTTCAAGGCAGATGCGCA
AGGACGGCTTCAATGATTTGAGGACCTCCGGCCTGTCGAAGGCCATGCAAGGCATTACCAGTCTTGAAGAAGTCAATCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(42-147)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 Acinetobacter baumannii D1279779

58.511

100

0.585
  pilB Acinetobacter baylyi ADP1

57.295

99.645

0.571
  pilB Legionella pneumophila strain ERS1305867

55.83

100

0.56
  pilB Vibrio cholerae strain A1552

50.624

99.468

0.504
  pilB Vibrio parahaemolyticus RIMD 2210633

51.083

98.227

0.502
  pilB Vibrio campbellii strain DS40M4

49.291

100

0.493
  pilF Neisseria gonorrhoeae MS11

48.128

99.468

0.479
  pilF Thermus thermophilus HB27

39.046

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.469

93.44

0.369