Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   TVNIR_RS12225 Genome accession   NC_019902
Coordinates   2676683..2678395 (+) Length   570 a.a.
NCBI ID   WP_015259340.1    Uniprot ID   L0DXA4
Organism   Thioalkalivibrio nitratireducens DSM 14787     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2671683..2683395
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TVNIR_RS12175 (TVNIR_2583) rplJ 2671853..2672377 (-) 525 WP_211263197.1 50S ribosomal protein L10 -
  TVNIR_RS12180 (TVNIR_2584) rplA 2672600..2673295 (-) 696 WP_015259336.1 50S ribosomal protein L1 -
  TVNIR_RS12185 (TVNIR_2585) rplK 2673297..2673728 (-) 432 WP_015259337.1 50S ribosomal protein L11 -
  TVNIR_RS12190 (TVNIR_2586) nusG 2673797..2674330 (-) 534 WP_015259338.1 transcription termination/antitermination protein NusG -
  TVNIR_RS12195 (TVNIR_2587) secE 2674350..2674718 (-) 369 WP_015259339.1 preprotein translocase subunit SecE -
  TVNIR_RS12205 tuf 2674909..2676099 (-) 1191 WP_015259329.1 elongation factor Tu -
  TVNIR_RS12225 (TVNIR_2588) pilB 2676683..2678395 (+) 1713 WP_015259340.1 type IV-A pilus assembly ATPase PilB Machinery gene
  TVNIR_RS12230 (TVNIR_2589) pilC 2678403..2679611 (+) 1209 WP_015259341.1 type II secretion system F family protein Machinery gene
  TVNIR_RS12235 (TVNIR_2590) pilD 2679670..2680524 (+) 855 WP_015259342.1 prepilin peptidase Machinery gene
  TVNIR_RS12240 (TVNIR_2591) coaE 2680521..2681153 (+) 633 WP_015259343.1 dephospho-CoA kinase -
  TVNIR_RS12245 (TVNIR_2592) zapD 2681211..2682023 (+) 813 WP_043739694.1 cell division protein ZapD -
  TVNIR_RS12250 (TVNIR_2593) - 2682065..2683006 (-) 942 WP_418081360.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 570 a.a.        Molecular weight: 62675.02 Da        Isoelectric Point: 5.0812

>NTDB_id=55318 TVNIR_RS12225 WP_015259340.1 2676683..2678395(+) (pilB) [Thioalkalivibrio nitratireducens DSM 14787]
MPNPVSSVRLPGLARRLVDAGLAETAAIAALVDEAREQQTPLVAMLATRTKIPEGRLAEAAGDEFGLPVFDLAAFDRDLL
PKEHLIETLIRKHHALPLLQRGNRLFVAISDPTNLSATDEFKFATGLSIETVLVEHNKLDRLIEDSINAAMAMMGDLDDD
GFAELAVSAGEEERNDDATEGIDDAPVVRFVNKLMLDAIRRKASDIHLEPYDKDFRVRFRIDGVLYDVGHPPITLAPRII
ARVKVMSRMDIAERRIPQDGRIKLKLSRSRAIDFRISSCPTLYGEKIVMRILDSDAALLSIDVLGFDDEQKKHYLGALKR
PYGMILVTGPTGSGKTVTLYTGMAILNTNDRNISTAEDPAEINMPGINQVNVHPKIGLTFANALRAFLRQDPDVIMVGEI
RDLETAEIAIKAAQTGHLVLSTLHTNDAPQTLTRLANMGVPAYNLASSILLIIAQRLARRLCPVCKEPEQLPEDVLLKEG
FSPDDISEGITLYRPVGCDQCTDGYKGRVGIYQVLPISETMQRLILEGGNSMQMADQAEREGVNDLRRAGLLKARAGVTS
LEEINRVTTD

Nucleotide


Download         Length: 1713 bp        

>NTDB_id=55318 TVNIR_RS12225 WP_015259340.1 2676683..2678395(+) (pilB) [Thioalkalivibrio nitratireducens DSM 14787]
ATGCCGAATCCCGTCTCCTCCGTACGTCTGCCCGGGCTGGCGCGCCGCCTCGTGGACGCCGGGCTGGCCGAGACGGCAGC
GATCGCGGCGCTGGTCGACGAGGCCCGCGAACAACAAACGCCGCTGGTCGCGATGCTCGCCACGCGCACGAAGATCCCCG
AGGGCCGGCTGGCCGAGGCCGCAGGGGACGAGTTCGGACTCCCCGTGTTCGACCTGGCGGCTTTCGACCGCGACCTGCTG
CCGAAGGAACACCTGATCGAGACGCTGATCCGCAAGCACCATGCGCTGCCGCTGCTGCAGCGCGGCAACCGGCTGTTCGT
CGCGATCTCGGATCCGACCAACCTTTCCGCCACCGACGAATTCAAGTTCGCCACCGGACTGAGTATCGAGACGGTGCTGG
TCGAGCACAACAAACTCGACCGCCTGATCGAGGACTCGATCAACGCCGCGATGGCGATGATGGGCGATCTCGACGACGAC
GGATTCGCCGAACTGGCGGTCTCCGCTGGCGAGGAGGAACGTAACGACGACGCGACCGAGGGCATCGACGATGCCCCAGT
GGTGCGCTTCGTGAATAAGCTGATGCTGGACGCGATCCGGCGCAAGGCGTCGGACATCCACCTGGAACCCTACGATAAGG
ACTTCCGCGTGCGCTTCCGCATCGACGGCGTGCTCTACGACGTCGGGCATCCGCCGATCACTCTCGCGCCGCGGATCATC
GCGCGCGTGAAGGTGATGTCCCGGATGGACATCGCCGAGCGGCGTATCCCCCAGGACGGCCGGATCAAGCTGAAGCTCTC
GCGCAGCCGGGCGATCGACTTCCGCATCAGCAGCTGCCCGACGCTTTACGGCGAGAAGATCGTGATGCGCATCCTCGACT
CGGACGCCGCCCTGCTCAGCATCGATGTCCTGGGCTTCGACGACGAGCAGAAGAAACACTATCTCGGGGCCCTGAAACGC
CCCTACGGGATGATCCTCGTCACCGGCCCGACCGGATCGGGCAAGACCGTGACGCTCTACACCGGCATGGCCATTTTGAA
CACCAACGACCGCAACATCTCCACGGCAGAGGATCCGGCCGAGATCAACATGCCGGGGATCAACCAGGTCAACGTCCACC
CGAAGATCGGGCTGACCTTTGCCAATGCATTGCGCGCGTTCCTGCGCCAGGACCCGGACGTGATCATGGTTGGCGAGATC
CGCGACCTCGAAACCGCGGAGATCGCGATCAAGGCGGCGCAGACGGGCCACCTGGTGCTGTCGACACTGCACACCAACGA
CGCACCACAAACGCTGACACGGCTCGCGAACATGGGGGTTCCCGCCTACAACCTCGCGTCGTCGATCCTGCTGATCATCG
CCCAGCGCCTCGCCCGGCGGCTGTGCCCGGTCTGCAAGGAACCCGAGCAGCTCCCCGAGGACGTGCTGTTGAAGGAGGGC
TTCAGTCCCGACGACATCTCCGAGGGCATCACCCTGTACCGCCCAGTCGGCTGCGACCAGTGCACCGACGGATACAAGGG
ACGAGTTGGCATCTACCAGGTCCTGCCGATCTCGGAAACGATGCAGCGGTTGATCCTCGAGGGTGGCAACAGCATGCAGA
TGGCGGATCAGGCCGAACGCGAGGGCGTGAACGACCTGCGCCGTGCAGGCCTGCTGAAGGCCCGCGCCGGGGTGACCAGC
CTCGAGGAGATCAACCGCGTGACCACGGATTGA

Domains

Predicted by InterproScan.

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

(54-144)

Type II/IV secretion system protein (T2SSE)

(193-460)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB L0DXA4

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

52.724

99.825

0.526
  pilB Acinetobacter baylyi ADP1

52.931

98.772

0.523
  pilB Legionella pneumophila strain ERS1305867

51.323

99.474

0.511
  pilB Vibrio cholerae strain A1552

51.537

97.018

0.5
  pilF Neisseria gonorrhoeae MS11

49.113

98.947

0.486
  pilB Vibrio parahaemolyticus RIMD 2210633

48.307

98.421

0.475
  pilB Vibrio campbellii strain DS40M4

48.221

98.596

0.475
  pilF Thermus thermophilus HB27

38.628

97.193

0.375
  pilB/pilB1 Synechocystis sp. PCC 6803

40.613

91.579

0.372

Multiple sequence alignment