Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RHM68_RS21355 Genome accession   NZ_CP133782
Coordinates   4723681..4725381 (+) Length   566 a.a.
NCBI ID   WP_322218912.1    Uniprot ID   -
Organism   Pseudomonas sp. DC1.2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4718681..4730381
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHM68_RS21335 (RHM68_21335) - 4718886..4721819 (+) 2934 WP_322218897.1 DUF748 domain-containing protein -
  RHM68_RS21340 (RHM68_21340) - 4721819..4722115 (+) 297 WP_322218902.1 DUF2845 domain-containing protein -
  RHM68_RS21345 (RHM68_21345) - 4722330..4722683 (-) 354 WP_322218905.1 BON domain-containing protein -
  RHM68_RS21350 (RHM68_21350) - 4723039..4723455 (-) 417 WP_322218909.1 pilin -
  RHM68_RS21355 (RHM68_21355) pilB 4723681..4725381 (+) 1701 WP_322218912.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RHM68_RS21360 (RHM68_21360) pilC 4725384..4726601 (+) 1218 WP_322218914.1 type II secretion system F family protein Machinery gene
  RHM68_RS21365 (RHM68_21365) pilD 4726603..4727475 (+) 873 WP_322218916.1 A24 family peptidase Machinery gene
  RHM68_RS21370 (RHM68_21370) coaE 4727472..4728095 (+) 624 WP_322218919.1 dephospho-CoA kinase -
  RHM68_RS21375 (RHM68_21375) yacG 4728092..4728292 (+) 201 WP_322218922.1 DNA gyrase inhibitor YacG -
  RHM68_RS21380 (RHM68_21380) - 4728302..4728517 (-) 216 WP_201198044.1 hypothetical protein -
  RHM68_RS21385 (RHM68_21385) - 4728581..4729270 (-) 690 WP_322218924.1 energy-coupling factor ABC transporter permease -
  RHM68_RS21390 (RHM68_21390) - 4729409..4730035 (+) 627 WP_322218926.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62774.96 Da        Isoelectric Point: 5.9188

>NTDB_id=876721 RHM68_RS21355 WP_322218912.1 4723681..4725381(+) (pilB) [Pseudomonas sp. DC1.2]
MNDIALSGLAKQLVLAELLTEKSAQQAYQQAQRSRISLVSYLVQNKLVKSRQVAEIASEHFGMAFLDLNCLDKEAQPRGL
VSEKLIRQHHALPLWRRGNKLFVGICDPSNQQAINDIQFSTGLTTEAILVEDDKLSDAIEKFFDNHATGLEEMVDLELEG
LDIESVDDKQQDAGAGQDSDDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKTYRVRMRTDGILREVAKPPIQLAGRIAARL
KVMASLDISERRRPQDGRIKMRLSKTKSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPDQKELFMAALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAQTLTRLQNMGIQGFNIATSISLIIAQRLARKLCSHCKRPIEIPRATLLKEGFPE
DRIGSFTIYEPVGCDQCNGGYKGRTGIYEVVKNTPDLQRLIMAEGNSLEIDIQMRKDGFNDLRTSGLLKAMQGITSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=876721 RHM68_RS21355 WP_322218912.1 4723681..4725381(+) (pilB) [Pseudomonas sp. DC1.2]
ATGAATGACATCGCCCTAAGTGGTCTGGCCAAGCAATTGGTCCTGGCCGAACTGCTCACCGAGAAAAGCGCTCAGCAGGC
TTATCAGCAAGCCCAACGCAGTCGCATCTCCCTGGTCAGCTACCTGGTACAAAACAAACTGGTAAAAAGCCGGCAAGTGG
CGGAGATCGCCTCGGAACATTTCGGCATGGCCTTCCTGGATCTGAATTGCCTGGACAAGGAAGCCCAGCCCAGAGGACTG
GTCAGTGAAAAGCTGATACGCCAGCACCATGCACTGCCCCTCTGGCGACGCGGTAACAAACTGTTCGTTGGCATTTGCGA
CCCCTCCAACCAACAGGCTATCAATGACATCCAGTTCAGCACCGGGCTGACCACCGAAGCGATCTTGGTGGAGGACGACA
AACTCAGCGATGCCATCGAAAAGTTCTTCGACAACCACGCGACCGGTCTGGAAGAGATGGTTGACCTTGAGCTGGAAGGT
CTGGACATCGAGTCAGTCGACGACAAACAGCAGGACGCGGGCGCGGGTCAGGATTCCGATGACGCACCCGTCGTGCGTTT
CGTCCACAAAATGCTGCTCGACGCCATCAAAAGCGGCTCTTCCGACCTGCACTTCGAGCCCTACGAAAAGACCTACCGGG
TGCGCATGCGTACCGACGGTATTTTGCGCGAAGTGGCCAAGCCGCCGATTCAACTGGCCGGCCGCATCGCTGCCAGGCTG
AAAGTCATGGCCAGCCTCGACATATCTGAACGCCGACGCCCTCAGGACGGACGAATCAAAATGCGCTTGTCCAAGACCAA
GTCCATCGACTTCCGGGTTAACACCCTGCCGACGCTATGGGGCGAAAAAGTGGTGATCCGGATCCTCGATCCGTCGAGCG
CCCAGATGGGCATTGACGCCCTTGGCTATGAGCCTGACCAGAAAGAACTGTTCATGGCCGCCCTCAAGCAGCCACAGGGA
ATGATCCTGGTAACCGGCCCCACGGGCTCGGGTAAAACCGTATCGCTGTATACCGGGCTGAATATTCTCAACACCGTGGA
CATCAACATCTCTACTGCCGAAGACCCGGTGGAGATCAACATGGAAGGCATCAACCAGGTCAACGTCAATCCGAAGCAAG
GACTCGATTTCGCCCAAGCCCTGCGCTCGTTTCTGCGTCAGGACCCGGACGTGATCATGGTCGGTGAGATCCGCGACCTC
GAAACGGCGGAAATCGCCATCAAGGCCGCCCAGACCGGGCATTTGGTGCTGTCCACCCTGCACACTAACAGCGCCGCACA
AACCTTGACCCGCCTGCAAAACATGGGCATCCAGGGTTTCAATATCGCGACCTCCATCAGCCTGATCATCGCCCAGCGCT
TGGCGCGAAAGCTGTGCAGCCATTGCAAGAGGCCAATCGAGATTCCTCGGGCAACGCTGCTCAAGGAAGGCTTCCCCGAG
GACCGCATCGGCTCGTTTACGATCTATGAGCCGGTCGGTTGCGACCAGTGCAACGGCGGTTATAAAGGGCGAACCGGGAT
TTATGAGGTGGTGAAAAACACACCCGATTTGCAACGGCTGATCATGGCTGAGGGCAATTCGCTGGAAATCGATATCCAGA
TGCGCAAGGACGGCTTTAACGATCTGCGAACCTCGGGCTTGCTCAAGGCCATGCAAGGCATCACCAGCCTGGAAGAAATC
AACCGGGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-147)


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

58.584

99.823

0.585
  pilB Acinetobacter baumannii D1279779

57.522

99.823

0.574
  pilB Legionella pneumophila strain ERS1305867

56.283

99.823

0.562
  pilB Vibrio cholerae strain A1552

50.087

100

0.507
  pilB Vibrio campbellii strain DS40M4

49.474

100

0.498
  pilB Vibrio parahaemolyticus RIMD 2210633

50.36

98.233

0.495
  pilF Neisseria gonorrhoeae MS11

49.556

99.47

0.493
  pilF Thermus thermophilus HB27

36.814

99.823

0.367
  pilB Haemophilus influenzae Rd KW20

41.803

86.219

0.36