Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   TSUB_RS02320 Genome accession   NZ_AP023054
Coordinates   475662..477353 (-) Length   563 a.a.
NCBI ID   WP_087016581.1    Uniprot ID   -
Organism   Thaumasiovibrio subtropicus strain C4V358     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 470662..482353
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TSUB_RS02290 mutT 471262..471663 (+) 402 WP_414718361.1 8-oxo-dGTP diphosphatase MutT -
  TSUB_RS02295 yacG 471756..471953 (-) 198 WP_087016591.1 DNA gyrase inhibitor YacG -
  TSUB_RS02300 zapD 471994..472764 (-) 771 WP_087016589.1 cell division protein ZapD -
  TSUB_RS02305 coaE 472828..473433 (-) 606 WP_087016587.1 dephospho-CoA kinase -
  TSUB_RS02310 pilD 473434..474303 (-) 870 WP_087016585.1 prepilin peptidase Machinery gene
  TSUB_RS02315 pilC 474382..475629 (-) 1248 WP_087016583.1 type II secretion system F family protein Machinery gene
  TSUB_RS02320 pilB 475662..477353 (-) 1692 WP_087016581.1 type IV-A pilus assembly ATPase PilB Machinery gene
  TSUB_RS02325 pilA 477353..477820 (-) 468 WP_087016579.1 pilin Machinery gene
  TSUB_RS02330 nadC 478230..479123 (-) 894 WP_087016577.1 carboxylating nicotinate-nucleotide diphosphorylase -
  TSUB_RS02335 ampD 479287..479826 (+) 540 WP_087016575.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  TSUB_RS02340 pdhR 480048..480821 (+) 774 WP_087016573.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62239.94 Da        Isoelectric Point: 4.8794

>NTDB_id=80832 TSUB_RS02320 WP_087016581.1 475662..477353(-) (pilB) [Thaumasiovibrio subtropicus strain C4V358]
MMSALLNVLIQDQLINSEQESGLQDSLQNEGISVPSLLVSEGLFSGAELAGHLERIFAIPVVDLYQYDYSKCSQDLNVRE
LILQHKMLPLAVTEYTLTLGIADPTAIEGQDEFRFSTGRQVELVLLDIKQLEGAIRRLYGSDIGETSNSQQNISDSDLDS
LVDVGEGEIEVIDDISLDTAPVTRYINQVLLDAVRKSASDIHFEPYEKEYRIRFRCDGMLIVQGNPPSHLSRRLSTRLKV
MSKLNIAERRKPQDGRIKLKLGPSITVDLRVSTLPTLWGEKVVLRILDSSSANLDINILGYNEIQKERYLHALKQPQGMI
LVTGPTGSGKTVSLYTGLSILNTSERNISTAEDPVEINLPGINQVQINPESGLEFSDALKAFLRQDPDVVMVGEIRDLET
ASIAIKASQTGHLVLSTLHTNSAAETITRLKNMGVASYNLASSLSLIIAQRLARRLCKHCKQVHELRPEVREHFGITDDA
TIYKASDNGCDECNGGYAGRVGIYEVMPFSHELGVAINKDATSRQLEMLAQKQGMLSLREAGLEKMVEGITSLSELQRVL
QLD

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=80832 TSUB_RS02320 WP_087016581.1 475662..477353(-) (pilB) [Thaumasiovibrio subtropicus strain C4V358]
ATCATGTCTGCACTACTTAACGTCCTAATTCAAGATCAGTTAATAAACTCTGAGCAAGAATCTGGGCTACAAGATTCTCT
GCAAAACGAAGGCATTTCGGTGCCTTCGCTTTTAGTGTCTGAGGGCTTGTTTTCAGGGGCCGAGCTTGCAGGCCATCTTG
AACGAATCTTTGCAATTCCCGTAGTTGATCTCTATCAGTATGACTATTCAAAATGCAGCCAGGATCTCAATGTAAGGGAG
TTAATACTACAACATAAAATGCTACCTTTGGCGGTTACTGAGTACACCCTAACTTTAGGTATCGCAGACCCTACAGCTAT
AGAAGGGCAAGATGAATTTCGATTCTCTACCGGAAGGCAGGTCGAGCTCGTCTTATTAGACATAAAACAACTTGAGGGGG
CAATTCGCCGTCTCTATGGTAGTGACATTGGTGAAACCTCAAATAGCCAGCAAAACATCAGTGACTCCGACCTCGATTCA
CTGGTTGATGTCGGTGAAGGTGAAATTGAAGTCATCGACGACATCAGTCTGGATACCGCCCCAGTCACGCGTTACATTAA
CCAAGTTTTGCTCGATGCGGTTCGTAAAAGCGCGTCTGATATTCACTTTGAGCCCTATGAAAAAGAGTACCGTATCCGTT
TTCGCTGTGATGGGATGTTAATCGTCCAAGGTAATCCGCCCAGTCACCTTTCTCGCCGCTTGTCAACACGGCTCAAAGTG
ATGTCCAAACTCAATATCGCTGAGCGACGTAAGCCCCAAGATGGCCGAATAAAGCTCAAGCTGGGCCCAAGTATTACAGT
TGATCTACGCGTATCCACCCTCCCTACTTTATGGGGAGAAAAAGTCGTGCTAAGGATACTCGATAGCTCATCAGCCAATC
TCGATATCAATATCCTAGGTTACAACGAAATACAAAAAGAGCGTTACCTCCACGCCCTCAAACAACCACAAGGCATGATC
CTTGTAACCGGGCCAACAGGCAGCGGAAAAACCGTCTCTCTCTATACGGGACTGAGTATTCTCAACACCTCTGAACGCAA
TATCTCCACCGCCGAAGATCCAGTGGAAATAAACCTTCCTGGTATCAACCAAGTACAAATTAACCCCGAATCAGGGTTAG
AGTTTTCTGATGCCCTAAAAGCCTTTTTACGCCAAGACCCAGATGTGGTCATGGTAGGTGAGATTCGTGATTTAGAAACC
GCCAGTATCGCAATAAAAGCATCGCAAACTGGCCACCTTGTGTTATCAACACTCCACACTAACTCAGCAGCTGAAACTAT
TACCCGTTTAAAAAACATGGGGGTTGCAAGCTACAATCTCGCTTCATCATTGAGTCTTATCATCGCTCAGCGACTCGCAC
GACGACTTTGCAAGCACTGCAAACAGGTTCATGAGCTACGTCCTGAAGTGCGCGAGCATTTTGGCATAACCGACGATGCG
ACAATTTACAAAGCCTCTGACAATGGTTGCGACGAATGTAACGGGGGATATGCTGGACGAGTTGGTATTTACGAAGTGAT
GCCATTTAGTCACGAACTTGGCGTAGCTATCAACAAAGACGCGACCAGTAGGCAACTTGAGATGTTAGCACAAAAGCAAG
GTATGCTATCCCTGCGCGAAGCGGGCTTAGAGAAAATGGTTGAAGGCATCACTAGCCTCTCCGAACTGCAACGCGTCCTT
CAACTTGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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 Vibrio parahaemolyticus RIMD 2210633

61.786

99.467

0.615
  pilB Vibrio campbellii strain DS40M4

60.893

99.467

0.606
  pilB Vibrio cholerae strain A1552

60.498

99.822

0.604
  pilB Acinetobacter baumannii D1279779

51.321

94.139

0.483
  pilB Acinetobacter baylyi ADP1

47.434

100

0.476
  pilB Legionella pneumophila strain ERS1305867

47.857

99.467

0.476
  pilF Neisseria gonorrhoeae MS11

46.549

100

0.467
  pilB/pilB1 Synechocystis sp. PCC 6803

40.727

92.895

0.378
  pilF Thermus thermophilus HB27

37.112

97.158

0.361

Multiple sequence alignment