Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GFK26_RS00035 Genome accession   NZ_CP045644
Coordinates   4439..6172 (+) Length   577 a.a.
NCBI ID   WP_101488972.1    Uniprot ID   -
Organism   Variovorax paradoxus strain 5C-2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1..11172
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GFK26_RS00005 (GFK26_00005) proB 87..1222 (-) 1136 Protein_0 glutamate 5-kinase -
  GFK26_RS00010 (GFK26_00010) cgtA 1303..2369 (-) 1067 Protein_1 Obg family GTPase CgtA -
  GFK26_RS00015 (GFK26_00015) - 2442..2644 (-) 203 Protein_2 50S ribosomal protein L27 -
  GFK26_RS00020 (GFK26_00020) rplU 2713..3023 (-) 311 Protein_3 50S ribosomal protein L21 -
  GFK26_RS00025 (GFK26_00025) - 3267..4196 (+) 930 WP_153285800.1 polyprenyl synthetase family protein -
  GFK26_RS00035 (GFK26_00035) pilB 4439..6172 (+) 1734 WP_101488972.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GFK26_RS00040 (GFK26_00040) - 6197..7428 (+) 1232 Protein_6 type II secretion system F family protein -
  GFK26_RS00045 (GFK26_00045) - 7428..8394 (+) 967 Protein_7 prepilin peptidase -
  GFK26_RS00050 (GFK26_00050) coaE 8408..9020 (+) 613 Protein_8 dephospho-CoA kinase -
  GFK26_RS00055 (GFK26_00055) - 9098..10591 (+) 1494 WP_153280310.1 MBOAT family O-acyltransferase -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62610.91 Da        Isoelectric Point: 5.7157

>NTDB_id=395786 GFK26_RS00035 WP_101488972.1 4439..6172(+) (pilB) [Variovorax paradoxus strain 5C-2]
MAAAEIPVKETTQIALPGLARALVSAGKLAAKSAEEIYQKSLSGRTSFIAELTGTGAVSAADLAHTLSSAFGAPLLDLDA
IDHQRLPKDLLDPKLCHAYRIVVLSKRNNRLIVATADPSDQQAAEKIKFASQMGVDWVIAEYDKLSRMIEAAAASAAETI
NSIVGTEFEFDDVTADTSGDANEQAIAEVEDAPVVRFLHKMLLDAVSMRASDIHFEPYEHHYRVRFRVDGELREIASPPT
VIKDKLASRIKVISRLDISEKRVPQDGRMKLKIGPDRVIDFRVSTLPTLFGEKIVVRILDPSSARMGIDALGYDADEKER
LLHAIGRPYGMVLVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFAAALRAFLRQDPD
IIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCMLCRVPIDIPR
EALLEAGFNEEDINGTWKPYRPVGCAACSGGYKGRVGIYQVMPITEAIQEIILRDGSALDIANQSEAEGVRSLRQSGLRK
VMQGLTSLEEVVACTNL

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=395786 GFK26_RS00035 WP_101488972.1 4439..6172(+) (pilB) [Variovorax paradoxus strain 5C-2]
ATGGCCGCTGCCGAAATTCCCGTTAAAGAAACTACGCAGATCGCCCTTCCCGGCTTGGCGCGCGCTTTGGTGTCCGCCGG
CAAGCTTGCAGCGAAATCGGCCGAAGAGATCTATCAGAAGTCGCTGAGCGGCCGCACCAGCTTCATCGCCGAATTGACCG
GCACCGGCGCCGTCTCTGCAGCAGACCTCGCCCACACCCTGTCGAGCGCTTTCGGCGCCCCATTGCTCGACCTCGACGCC
ATCGATCACCAGCGCCTGCCCAAGGACCTGCTCGATCCGAAGCTCTGCCACGCCTACCGCATCGTCGTTCTCAGCAAGCG
CAACAACCGTCTGATCGTCGCCACGGCCGACCCGTCGGACCAGCAGGCTGCGGAAAAGATCAAGTTCGCCTCGCAGATGG
GCGTCGACTGGGTCATCGCCGAGTACGACAAGCTTTCGCGCATGATCGAAGCCGCCGCAGCCAGTGCGGCGGAAACGATC
AACAGCATCGTCGGCACCGAGTTCGAGTTCGACGATGTCACGGCCGACACGTCGGGCGACGCCAACGAGCAGGCCATCGC
CGAAGTCGAAGACGCACCCGTGGTGCGCTTCCTGCACAAGATGCTGCTCGACGCAGTGAGCATGCGGGCCTCGGACATTC
ACTTCGAGCCCTACGAACACCACTACCGGGTCCGTTTCCGCGTAGACGGCGAACTGCGCGAAATCGCCAGCCCGCCCACG
GTCATCAAGGACAAGCTCGCCTCGCGCATCAAGGTCATTTCCCGGCTCGACATCTCGGAAAAACGCGTGCCGCAAGACGG
CCGCATGAAGCTCAAGATCGGTCCCGATCGCGTGATCGACTTCCGCGTGAGCACGCTGCCCACGCTGTTCGGCGAGAAGA
TCGTCGTGCGTATCCTGGACCCGAGCAGCGCCCGCATGGGCATCGACGCCCTGGGCTACGACGCCGACGAGAAAGAACGG
CTCCTCCACGCCATCGGCCGCCCGTATGGCATGGTGCTGGTGACCGGCCCCACGGGCTCGGGCAAGACCGTGTCGCTGTA
CACCTGCCTGAACCTGCTCAACCAGCCGGGCGTCAACATCGCGACGGCGGAAGATCCGTCGGAAATCAACCTGCCCGGCG
TCAACCAGGTCAACGTCAACGAGAAGGCCGGCCTCACCTTCGCGGCGGCGCTGCGCGCCTTCCTGCGGCAGGATCCCGAC
ATCATCATGGTCGGCGAAATCCGCGACCTCGAAACCGCCGACATCTCGATCAAGGCCGCGCAAACCGGCCACTTGGTGCT
CTCGACGCTGCACACCAACGACGCGCCGACCACGCTGACGCGCATGCGCAACATGGGCATCGCGCCCTTCAACATTGCGT
CAAGCGTGATCCTGATCACTGCCCAACGCCTTGCGCGCCGGCTGTGCATGCTGTGTCGCGTGCCGATCGACATCCCGCGC
GAAGCCCTGCTTGAAGCCGGCTTCAACGAGGAAGACATCAACGGCACCTGGAAGCCGTACCGCCCGGTCGGCTGTGCCGC
CTGCAGCGGCGGCTACAAGGGCCGGGTCGGCATCTACCAGGTGATGCCGATTACGGAAGCCATCCAGGAAATCATCCTGC
GCGATGGCAGCGCACTGGACATCGCGAACCAATCCGAAGCCGAAGGCGTGCGCTCGCTGCGCCAGTCGGGCCTTCGCAAA
GTCATGCAGGGCCTCACTTCGCTCGAAGAAGTCGTGGCCTGCACCAACCTATAA

Domains

Predicted by InterproScan.

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

(55-157)

Type II/IV secretion system protein (T2SSE)

(200-467)


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 baylyi ADP1

53.659

99.48

0.534
  pilB Acinetobacter baumannii D1279779

54.286

97.054

0.527
  pilF Neisseria gonorrhoeae MS11

52.847

97.4

0.515
  pilB Legionella pneumophila strain ERS1305867

48.85

97.92

0.478
  pilB Vibrio cholerae strain A1552

46.429

97.054

0.451
  pilB Vibrio campbellii strain DS40M4

46.085

97.4

0.449
  pilB Vibrio parahaemolyticus RIMD 2210633

45.455

97.227

0.442
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.254

97.574

0.383
  pilF Thermus thermophilus HB27

38.137

98.614

0.376

Multiple sequence alignment