Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABDX87_RS17570 Genome accession   NZ_CP155619
Coordinates   3960357..3962051 (-) Length   564 a.a.
NCBI ID   WP_346829022.1    Uniprot ID   -
Organism   Pseudomonas abietaniphila strain BHJ04     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3955357..3967051
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABDX87_RS17540 (ABDX87_17540) - 3955719..3956363 (+) 645 WP_346829017.1 hydrolase -
  ABDX87_RS17545 (ABDX87_17545) - 3956499..3957185 (+) 687 WP_346829018.1 energy-coupling factor ABC transporter permease -
  ABDX87_RS17550 (ABDX87_17550) yacG 3957413..3957616 (-) 204 WP_062378727.1 DNA gyrase inhibitor YacG -
  ABDX87_RS17555 (ABDX87_17555) coaE 3957616..3958248 (-) 633 WP_346829019.1 dephospho-CoA kinase -
  ABDX87_RS17560 (ABDX87_17560) pilD 3958245..3959117 (-) 873 WP_346829020.1 A24 family peptidase Machinery gene
  ABDX87_RS17565 (ABDX87_17565) pilC 3959120..3960355 (-) 1236 WP_346829021.1 type II secretion system F family protein Machinery gene
  ABDX87_RS17570 (ABDX87_17570) pilB 3960357..3962051 (-) 1695 WP_346829022.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABDX87_RS17575 (ABDX87_17575) - 3962124..3962684 (+) 561 WP_346829023.1 pilin -
  ABDX87_RS17585 (ABDX87_17585) nadC 3962988..3963836 (-) 849 WP_346829024.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ABDX87_RS17590 (ABDX87_17590) - 3964222..3966456 (+) 2235 WP_346829025.1 DUF1631 domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62345.53 Da        Isoelectric Point: 5.7204

>NTDB_id=998047 ABDX87_RS17570 WP_346829022.1 3960357..3962051(-) (pilB) [Pseudomonas abietaniphila strain BHJ04]
MTDVVLTGLAKQLVVAELLNEKVAQQAYQQARRDKLSLVSYLVQNKLVNSLTLAEVASDQFGLPFLDLSTLDKESQPKGL
VSEKLVRQHSALPLWRRGNKLFVGVSDPTNHQAITDIQFSTGLNTEAILVEDDKLSVAIDKFFDTHSGLGEMADVDLSLE
IESTTDSKETTLGEVDAEDAPVVRFVNKMLLDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVAKPPTQLAGRIAARLKV
MAGLDISERRKPQDGRIKLRISKNRAIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKELYLQALRQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGMDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGIAAFNIATAINLIIAQRLARKLCPHCKKEIDVPKDTLLAEGFPEDR
IGSFKLYSPVGCDQCNGGYKGRVGIYEVVKNTPALERIIMEEGNSIEISTQMRKDGFNDLRTSGLLKAMQGVTSLEEINR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=998047 ABDX87_RS17570 WP_346829022.1 3960357..3962051(-) (pilB) [Pseudomonas abietaniphila strain BHJ04]
ATGACTGATGTTGTCCTCACCGGTTTGGCCAAACAACTCGTTGTGGCCGAACTGCTCAATGAAAAAGTTGCACAGCAGGC
CTATCAGCAGGCACGACGCGACAAGCTCTCTCTGGTGAGCTATCTGGTTCAGAACAAGCTGGTGAACAGTTTGACCCTGG
CAGAGGTCGCCTCGGATCAGTTCGGACTTCCGTTCCTCGACCTCAGCACCCTCGATAAAGAAAGCCAACCCAAAGGGCTG
GTCAGCGAAAAACTCGTCCGCCAGCACTCGGCACTCCCTTTATGGCGACGTGGCAACAAGCTGTTTGTGGGTGTTTCCGA
CCCAACAAACCATCAGGCAATCACAGACATTCAGTTCAGCACTGGGTTGAACACGGAAGCCATTCTGGTTGAGGACGACA
AACTAAGCGTCGCCATCGACAAATTTTTTGACACTCATAGTGGTCTGGGAGAAATGGCAGACGTTGATCTCAGTCTCGAG
ATCGAGTCCACCACAGACAGCAAAGAGACCACCTTAGGCGAAGTGGATGCCGAGGATGCGCCTGTTGTTCGCTTCGTCAA
CAAGATGCTGTTGGACGCCATCCGCCTTGGCTCCTCGGACCTCCACTTTGAGCCCTATGAAAAAATCTTCCGCGTGCGTC
TGCGGACAGATGGCATTTTGCACGAGGTCGCCAAACCTCCGACGCAACTGGCTGGACGAATCGCGGCTCGATTGAAGGTC
ATGGCTGGGCTGGACATCTCTGAACGACGCAAGCCTCAGGATGGCCGAATCAAACTACGGATTTCGAAGAACCGCGCCAT
CGATTTTCGCGTGAACACGCTCCCTACGTTGTGGGGCGAAAAAATCGTCATGCGTATCCTTGACCCGACCAGTGCCCAAA
TGGGTATTGATGCCTTGGGTTATGAGCCGGAGCAAAAGGAGCTCTATCTGCAAGCGCTCCGCCAGCCTCAAGGCATGATT
CTTGTGACAGGGCCAACGGGTTCAGGCAAAACGGTTTCTCTTTATACGGGCCTGAATATTCTGAACACCGTCGACATCAA
CATTTCCACAGCGGAAGACCCTGTAGAGATCAACCTGGAGGGCATCAATCAAGTCAACGTCAACCCTCGCCAAGGCATGG
ACTTCTCCCAAGCTTTGAGAGCTTTTTTGCGCCAGGACCCAGACGTGATTATGGTGGGGGAAATCCGCGACCTCGAAACG
GCTGAAATCGCGATCAAGGCTTCGCAAACCGGCCACATGGTGCTGTCGACGCTACACACGAATAGCGCAGCAGAAACGTT
GACGCGCCTTCATCACATGGGCATTGCAGCCTTTAACATCGCGACTGCGATTAATCTGATTATCGCCCAACGCCTTGCGC
GAAAACTTTGCCCGCACTGCAAGAAAGAGATCGATGTCCCCAAGGACACACTGCTGGCCGAAGGATTTCCAGAAGACCGA
ATTGGCAGCTTCAAACTCTACTCACCGGTAGGCTGCGATCAATGCAACGGAGGTTATAAAGGTCGCGTGGGCATCTATGA
AGTGGTGAAAAATACCCCAGCCCTCGAGCGCATCATCATGGAAGAAGGCAACTCCATCGAAATTTCCACCCAAATGCGCA
AGGACGGCTTCAATGACTTGCGCACCTCTGGCCTGCTGAAGGCAATGCAAGGCGTCACCAGCCTTGAGGAAATAAACCGG
GTAACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-146)


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

58.082

99.823

0.58
  pilB Acinetobacter baumannii D1279779

57.092

100

0.571
  pilB Legionella pneumophila strain ERS1305867

54.69

100

0.548
  pilB Vibrio cholerae strain A1552

50.446

99.468

0.502
  pilB Vibrio parahaemolyticus RIMD 2210633

51.206

95.567

0.489
  pilB Vibrio campbellii strain DS40M4

49.11

99.645

0.489
  pilF Neisseria gonorrhoeae MS11

48.663

99.468

0.484
  pilF Thermus thermophilus HB27

38.078

95.922

0.365

Multiple sequence alignment