Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R2K28_RS02970 Genome accession   NZ_OY734020
Coordinates   651037..652752 (-) Length   571 a.a.
NCBI ID   WP_316367908.1    Uniprot ID   -
Organism   Candidatus Thiodiazotropha sp. CDECU1 isolate 46184     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 646037..657752
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R2K28_RS02955 coaE 648296..648892 (-) 597 WP_316367906.1 dephospho-CoA kinase -
  R2K28_RS02960 pilD 648892..649758 (-) 867 WP_316369671.1 A24 family peptidase Machinery gene
  R2K28_RS02965 pilC 649804..651033 (-) 1230 WP_316367907.1 type II secretion system F family protein Machinery gene
  R2K28_RS02970 pilB 651037..652752 (-) 1716 WP_316367908.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R2K28_RS02975 - 653239..653694 (-) 456 WP_316367909.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  R2K28_RS02980 pilR 654294..655649 (-) 1356 WP_316367910.1 sigma-54 dependent transcriptional regulator Regulator
  R2K28_RS02985 - 655646..657292 (-) 1647 WP_316367911.1 ATP-binding protein -
  R2K28_RS02990 - 657298..657534 (-) 237 WP_116445750.1 PP0621 family protein -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 63107.39 Da        Isoelectric Point: 4.9155

>NTDB_id=1160748 R2K28_RS02970 WP_316367908.1 651037..652752(-) (pilB) [Candidatus Thiodiazotropha sp. CDECU1 isolate 46184]
MATTNPKVNLSGLARCLIQDRLISEEQAESAFAEALKKKVPFVSYLVENALLQSIDIAISASRGFGVPIFDLDVIDPGVI
PTDAVGEKLVRAHHALPIFRRGNRLFLAVSDPTNHQGLDEIRFNTGLASEAILVEEDKLNSIINKVMEAQETSMDDLLDA
DLDNLDISGGEEELESDESKLDVDEAPVVRYINKLLLDAIKQGVSDIHFEPYEYTYRVRYRQDGMLREVATPPSNLANRL
SSRIKVMSRMNIAEKRVPQDGRIKMQLSKSRAIDFRVNTCPTLYGEKIVLRILDPTSAQLGIEALGFEEEQQKTFLAAIN
KPYGMILVTGPTGSGKTVSLYTALNMLNKPEVNISTAEDPVEIQVPGINQVNTNVKTGLTFAEALRAFLRQDPDIVMVGE
IRDLETAEIAVKAAQTGHLVLSTLHTNDAPQTLTRLANMGVPPFNIASSVLLIMAQRLARRLCEHCKAPEDLPREALLEE
GFTEADIKTDFTIYKPVGCDMCTGGYKGRVGIFQVMPVSETMGKLIMEGGTSIQLEDQAKKERVDNLRRSGLRKVMQGIT
SLQELNRVTKD

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=1160748 R2K28_RS02970 WP_316367908.1 651037..652752(-) (pilB) [Candidatus Thiodiazotropha sp. CDECU1 isolate 46184]
ATGGCCACAACGAATCCCAAAGTAAATCTAAGCGGTCTTGCACGCTGTCTCATACAGGATAGGCTGATCAGCGAAGAGCA
GGCGGAATCGGCTTTTGCTGAGGCATTGAAGAAAAAGGTGCCTTTTGTCTCCTACCTGGTGGAGAACGCCCTTCTGCAAA
GCATCGATATAGCAATATCCGCTTCGCGAGGGTTCGGCGTACCCATTTTCGATCTGGATGTGATCGATCCCGGCGTCATA
CCGACAGATGCGGTGGGAGAAAAACTGGTTCGCGCCCACCATGCCCTGCCGATCTTCAGACGGGGCAACCGGCTTTTCCT
AGCAGTCTCCGATCCCACCAATCACCAGGGCCTGGATGAGATACGTTTTAATACCGGCCTCGCCTCCGAAGCGATCCTGG
TGGAAGAGGACAAGCTCAACAGTATTATCAACAAGGTCATGGAGGCCCAGGAAACCAGCATGGATGACCTGCTGGACGCG
GACCTGGACAACCTGGATATTAGCGGCGGTGAGGAGGAGCTCGAAAGCGATGAATCCAAACTGGACGTGGACGAGGCGCC
GGTCGTCCGTTATATCAACAAGTTGCTGCTGGATGCGATAAAACAGGGTGTCTCGGATATCCACTTCGAACCCTATGAAT
ACACCTATCGGGTGCGCTATCGCCAGGACGGCATGTTGCGCGAGGTGGCTACACCTCCTTCCAATCTGGCAAACCGCCTG
TCCAGTCGTATCAAGGTCATGTCGCGGATGAACATTGCGGAGAAACGGGTGCCCCAGGACGGCCGCATCAAGATGCAGCT
CTCCAAGTCCCGTGCCATCGATTTCCGTGTGAATACCTGCCCCACCCTATACGGTGAAAAAATCGTTTTGCGTATTCTCG
ATCCCACCAGTGCGCAACTGGGTATCGAGGCCCTTGGATTCGAGGAGGAGCAGCAAAAGACGTTCCTCGCTGCCATCAAT
AAACCCTACGGCATGATCCTGGTGACCGGGCCCACCGGTAGCGGTAAGACGGTGAGTCTCTATACCGCACTGAACATGCT
GAATAAACCTGAGGTCAACATCTCCACCGCCGAAGATCCCGTGGAGATTCAGGTCCCGGGCATCAACCAGGTCAATACCA
ACGTCAAGACCGGCCTGACATTCGCCGAGGCATTGCGGGCCTTCCTGCGCCAGGACCCGGATATCGTCATGGTGGGTGAG
ATTCGCGACCTGGAGACGGCGGAAATCGCAGTCAAAGCGGCACAGACCGGCCACCTGGTGCTCTCCACCCTGCATACCAA
CGATGCTCCCCAGACCCTGACCCGTCTGGCCAACATGGGAGTACCGCCCTTTAACATAGCCTCGTCGGTTCTCCTGATCA
TGGCCCAGCGTCTTGCCAGGCGTCTGTGCGAACACTGTAAGGCACCTGAGGACCTCCCCAGGGAGGCCCTGCTCGAGGAG
GGTTTCACGGAAGCTGACATAAAAACCGATTTCACCATCTACAAACCCGTAGGATGTGACATGTGTACCGGCGGGTACAA
GGGACGTGTTGGTATATTTCAGGTGATGCCCGTCTCCGAAACCATGGGCAAGCTCATTATGGAGGGTGGCACTTCGATAC
AACTTGAAGATCAGGCTAAAAAGGAGAGGGTCGACAACCTCCGCCGATCCGGACTACGCAAGGTCATGCAGGGGATCACC
AGCCTCCAAGAACTCAACCGGGTAACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(17-152)

Type II/IV secretion system protein (T2SSE)

(194-461)


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

58.319

100

0.583
  pilB Acinetobacter baylyi ADP1

56.567

100

0.566
  pilB Legionella pneumophila strain ERS1305867

55.652

100

0.56
  pilF Neisseria gonorrhoeae MS11

51.06

99.124

0.506
  pilB Vibrio cholerae strain A1552

49.474

99.825

0.494
  pilB Vibrio campbellii strain DS40M4

48.845

98.599

0.482
  pilB Vibrio parahaemolyticus RIMD 2210633

48.404

98.774

0.478
  pilF Thermus thermophilus HB27

39.292

98.949

0.389
  pilB/pilB1 Synechocystis sp. PCC 6803

39.526

96.147

0.38
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.99

88.441

0.363

Multiple sequence alignment