Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CKY39_RS06980 Genome accession   NZ_CP023284
Coordinates   1553568..1555301 (-) Length   577 a.a.
NCBI ID   WP_062474518.1    Uniprot ID   A0A554S5W8
Organism   Variovorax boronicumulans strain J1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1548568..1560301
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKY39_RS06960 (CKY39_06960) - 1549154..1550647 (-) 1494 WP_095743910.1 MBOAT family O-acyltransferase -
  CKY39_RS06965 (CKY39_06965) coaE 1550724..1551335 (-) 612 WP_167394982.1 dephospho-CoA kinase -
  CKY39_RS06970 (CKY39_06970) - 1551349..1552314 (-) 966 WP_095743911.1 prepilin peptidase -
  CKY39_RS06975 (CKY39_06975) pilC 1552314..1553543 (-) 1230 WP_095743912.1 type II secretion system F family protein Machinery gene
  CKY39_RS06980 (CKY39_06980) pilB 1553568..1555301 (-) 1734 WP_062474518.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CKY39_RS06990 (CKY39_06990) - 1555546..1556538 (-) 993 WP_070063612.1 polyprenyl synthetase family protein -
  CKY39_RS06995 (CKY39_06995) rplU 1556721..1557032 (+) 312 WP_042578903.1 50S ribosomal protein L21 -
  CKY39_RS07000 (CKY39_07000) rpmA 1557045..1557305 (+) 261 WP_013543198.1 50S ribosomal protein L27 -
  CKY39_RS07005 (CKY39_07005) cgtA 1557378..1558454 (+) 1077 WP_062474512.1 Obg family GTPase CgtA -
  CKY39_RS07010 (CKY39_07010) proB 1558535..1559674 (+) 1140 WP_095743913.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62568.87 Da        Isoelectric Point: 5.8808

>NTDB_id=245725 CKY39_RS06980 WP_062474518.1 1553568..1555301(-) (pilB) [Variovorax boronicumulans strain J1]
MAAAEIPVKETTQIALPGLARALVSAGKLAAKTAEDIYQKSLSGRTSFIAELTGTGAVSAADLAHTLSSAFGAPLLDLDA
IDHQRLPKDLLDPKLCHAYRIVVLSKRNNRLIVATADPSDQQAAEKIKFASQMGVDWVIAEYDKLSRMIEAAAASAAETI
NSIVGTEFEFDDVTADTSGDANEQAIAEVEDAPVVRFLHKMLLDAVSMRASDIHFEPYEHHYRVRFRVDGELREIASPPT
VIKDKLASRIKVISRLDISEKRVPQDGRMKLKIGPDRVIDFRVSTLPTLFGEKIVVRILDPSSARMGIDALGYDADEKER
LLHAIGRPYGMVLVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFAAALRAFLRQDPD
IIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCMLCRAPIDIPR
EALLDAGFKEEDINGTWKPYRPVGCAACSGGYKGRVGIYQVMPISEAIQEIILRDGSALDIANQSEAEGVRSLRQSGLRK
VMQGLTSLEEVVACTNL

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=245725 CKY39_RS06980 WP_062474518.1 1553568..1555301(-) (pilB) [Variovorax boronicumulans strain J1]
ATGGCCGCTGCCGAAATTCCCGTTAAAGAAACTACGCAGATCGCCCTTCCCGGCCTGGCGCGCGCCCTCGTGTCGGCCGG
CAAGCTCGCGGCGAAGACAGCCGAAGACATCTATCAGAAGTCGCTGAGCGGCCGCACCAGCTTCATCGCCGAACTGACCG
GCACCGGCGCCGTTTCGGCTGCGGACCTCGCCCACACCCTGTCGAGCGCCTTCGGAGCCCCGCTGCTCGACCTCGATGCC
ATCGATCACCAGCGCCTGCCCAAGGACCTGCTCGATCCGAAGCTCTGCCATGCGTACCGCATCGTCGTTCTCAGCAAGCG
CAACAACCGCCTGATCGTCGCGACGGCCGACCCGTCGGACCAGCAGGCCGCGGAAAAAATCAAGTTCGCGTCGCAGATGG
GCGTGGACTGGGTCATCGCCGAGTACGACAAGCTCTCGCGCATGATCGAAGCCGCCGCTGCGAGCGCGGCTGAAACCATC
AACAGCATCGTCGGCACCGAGTTCGAGTTCGACGACGTCACGGCCGACACCTCGGGCGATGCCAACGAGCAGGCCATTGC
CGAAGTCGAAGACGCACCCGTGGTGCGCTTCCTGCACAAGATGCTGCTCGACGCCGTGAGCATGCGGGCCTCGGACATCC
ACTTCGAGCCCTACGAACACCATTACCGGGTGCGCTTTCGGGTCGATGGCGAGCTGCGCGAAATCGCCAGCCCACCCACG
GTCATCAAGGACAAGCTGGCCTCGCGCATCAAGGTCATTTCCCGGCTCGACATCTCGGAAAAACGCGTGCCGCAGGACGG
CCGCATGAAGCTCAAGATCGGCCCCGACCGAGTGATCGACTTCCGCGTGAGCACCCTGCCCACGCTGTTCGGCGAGAAGA
TCGTCGTGCGTATCCTGGACCCGAGCAGCGCGCGCATGGGCATCGACGCCCTGGGCTACGACGCCGACGAGAAAGAACGA
CTCCTCCACGCCATCGGCCGCCCCTACGGCATGGTGCTGGTGACCGGCCCCACGGGTTCGGGCAAGACCGTGTCGCTGTA
CACCTGCCTGAACCTGCTCAACCAGCCGGGCGTCAACATCGCGACGGCGGAAGACCCGTCGGAAATCAACCTGCCCGGCG
TCAATCAGGTCAACGTCAACGAGAAGGCCGGCCTCACCTTCGCGGCCGCGTTGCGTGCCTTCCTGCGGCAGGATCCCGAC
ATCATCATGGTCGGCGAAATCCGCGACCTCGAAACCGCCGACATCTCGATCAAGGCCGCGCAAACCGGTCACCTGGTGCT
GTCGACGCTGCACACCAACGACGCCCCGACCACGCTCACGCGCATGCGCAACATGGGCATCGCGCCGTTCAACATCGCGT
CGAGCGTGATCCTGATCACCGCGCAACGCCTCGCACGCCGGCTGTGCATGCTGTGCCGCGCGCCGATCGACATCCCACGC
GAAGCCCTGCTCGATGCCGGCTTCAAAGAGGAAGACATCAACGGCACCTGGAAGCCCTACCGCCCGGTCGGCTGCGCCGC
CTGCAGCGGCGGCTACAAGGGCCGGGTCGGCATCTACCAGGTGATGCCGATTTCGGAAGCCATCCAGGAAATCATCCTGC
GCGACGGCAGCGCGCTGGACATCGCGAACCAATCCGAAGCCGAAGGCGTGCGCTCGCTGCGCCAGTCTGGCCTTCGCAAA
GTCATGCAGGGCCTCACTTCGCTCGAAGAAGTCGTCGCCTGCACCAACCTATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(200-467)

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

(55-157)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A554S5W8

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

53.31

99.48

0.53
  pilB Acinetobacter baumannii D1279779

54.107

97.054

0.525
  pilF Neisseria gonorrhoeae MS11

52.669

97.4

0.513
  pilB Legionella pneumophila strain ERS1305867

48.496

97.92

0.475
  pilB Vibrio cholerae strain A1552

46.607

97.054

0.452
  pilB Vibrio campbellii strain DS40M4

45.826

97.574

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

45.276

97.227

0.44
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.254

97.574

0.383
  pilF Thermus thermophilus HB27

37.786

98.614

0.373

Multiple sequence alignment