Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GNX18_RS00650 Genome accession   NZ_CP046948
Coordinates   132746..134455 (-) Length   569 a.a.
NCBI ID   WP_166214794.1    Uniprot ID   A0A6G8D9M5
Organism   Microbulbifer sp. SH-1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 129969..145038 132746..134455 within 0


Gene organization within MGE regions


Location: 129969..145038
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GNX18_RS00630 (GNX18_00625) - 129969..130262 (-) 294 WP_166214788.1 HigA family addiction module antitoxin -
  GNX18_RS19490 (GNX18_00630) - 130262..130447 (-) 186 WP_256367352.1 type II toxin-antitoxin system RelE/ParE family toxin -
  GNX18_RS00640 (GNX18_00635) - 130582..131466 (-) 885 WP_166214790.1 A24 family peptidase -
  GNX18_RS00645 (GNX18_00640) pilC 131480..132694 (-) 1215 WP_166214792.1 type II secretion system F family protein Machinery gene
  GNX18_RS00650 (GNX18_00645) pilB 132746..134455 (-) 1710 WP_166214794.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GNX18_RS00655 (GNX18_00650) comP 134947..135387 (+) 441 WP_205828022.1 pilin Machinery gene
  GNX18_RS00660 (GNX18_00655) - 135438..137186 (+) 1749 WP_166214798.1 DCC1-like thiol-disulfide oxidoreductase family protein -
  GNX18_RS00665 (GNX18_00660) - 137279..137569 (-) 291 WP_166214799.1 DUF86 domain-containing protein -
  GNX18_RS00670 (GNX18_00665) - 137741..137914 (+) 174 WP_166214801.1 hypothetical protein -
  GNX18_RS00675 (GNX18_00670) - 138249..138422 (+) 174 WP_166214801.1 hypothetical protein -
  GNX18_RS00680 (GNX18_00675) - 138447..138677 (+) 231 WP_166214803.1 hypothetical protein -
  GNX18_RS00685 (GNX18_00680) - 138780..139055 (+) 276 WP_166214805.1 hypothetical protein -
  GNX18_RS00690 (GNX18_00685) - 139423..140103 (+) 681 WP_166214807.1 hypothetical protein -
  GNX18_RS19500 - 140617..140847 (-) 231 WP_240914129.1 hypothetical protein -
  GNX18_RS00700 (GNX18_00695) - 140844..141173 (-) 330 WP_166214809.1 winged helix-turn-helix domain-containing protein -
  GNX18_RS00705 (GNX18_00700) - 141487..141774 (-) 288 WP_166214811.1 type II toxin-antitoxin system RelE/ParE family toxin -
  GNX18_RS00710 (GNX18_00705) - 141778..142008 (-) 231 WP_166214813.1 CopG family transcriptional regulator -
  GNX18_RS00715 (GNX18_00710) - 142180..143535 (-) 1356 WP_166214815.1 Fic family protein -
  GNX18_RS00720 (GNX18_00715) - 143771..144184 (-) 414 WP_166214817.1 DUF86 domain-containing protein -
  GNX18_RS00725 (GNX18_00720) - 144181..144618 (-) 438 WP_138235878.1 nucleotidyltransferase domain-containing protein -
  GNX18_RS00730 (GNX18_00725) - 144793..145038 (+) 246 WP_138235879.1 YdcH family protein -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62442.38 Da        Isoelectric Point: 5.6381

>NTDB_id=409593 GNX18_RS00650 WP_166214794.1 132746..134455(-) (pilB) [Microbulbifer sp. SH-1]
MSSTPLSGLAKRLVIDNAIDEATAQSAVQAAKRERQSFAQHAVESKLIKSRELATIASTAFGSPLFDLSSYNFDLLPKDI
VDEKLISKHFALPLYKRGNRLFVAVADPTNLAGLDEINFNTGLNTDAVLVEADKLSKAIENYLNNSDVGGGLEGLDDESL
DGLDVESGETRREDESDPGGDEAPVVRFVNKVLLDAIRTGASDIHFEPYEKLYRVRLRTDGILHEVARPPIQLATRISAR
LKVMSKMDISERRVPQDGRIKMKLSKTKAIDFRVNSLPTLWGEKIVLRILDPSSAKLGIDALGYEEFQKKIYMDALAQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPERNISTAEDPVEINLEGINQVNVSNKVGLNFAEALRSFLRQDPDIVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAPETLTRLMNMGVPTFNIATSVSVIIAQRLARRLCGECKKPAELPEEVLKEEGFD
TVTIPKSDWKIYQPVGCEHCSKGYKGRVGVYEVVRITDGISRIIMEGGNSIQIADQAKKEGFNNLRISALRKVVMGVTSL
EEANRVTKD

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=409593 GNX18_RS00650 WP_166214794.1 132746..134455(-) (pilB) [Microbulbifer sp. SH-1]
ATGAGCAGCACTCCCCTCAGCGGCCTGGCCAAACGGCTGGTCATCGATAACGCCATCGACGAAGCTACCGCCCAATCCGC
GGTACAGGCCGCCAAACGAGAGCGGCAGAGCTTTGCCCAACATGCGGTGGAATCCAAGCTGATCAAGAGCCGCGAGCTGG
CAACTATCGCCTCTACCGCGTTTGGCTCGCCGCTATTTGATCTCTCCAGCTACAACTTCGATCTGCTGCCCAAAGATATT
GTCGACGAAAAACTGATCAGCAAACATTTTGCCCTGCCTTTGTACAAGCGCGGCAACCGCCTGTTTGTGGCGGTAGCGGA
CCCCACCAACCTGGCGGGACTGGACGAGATCAACTTCAACACCGGCCTCAACACCGATGCGGTGCTGGTAGAAGCAGATA
AACTCTCCAAGGCCATTGAAAACTACCTGAATAACAGCGACGTAGGTGGCGGCTTAGAGGGGCTTGACGACGAAAGTCTC
GACGGTCTCGATGTGGAATCCGGGGAGACACGTCGCGAGGACGAAAGTGATCCCGGCGGAGACGAGGCACCTGTGGTGCG
CTTTGTGAATAAGGTACTGCTGGACGCAATCCGCACCGGCGCCTCGGATATACACTTCGAACCCTATGAAAAGCTCTACC
GGGTTCGACTGCGCACAGATGGAATTTTGCACGAGGTAGCGCGTCCACCGATCCAGCTGGCCACCCGCATCTCCGCGCGC
TTGAAGGTGATGTCAAAGATGGACATTTCCGAGCGCCGCGTACCGCAGGATGGCCGCATAAAAATGAAACTGTCGAAGAC
CAAGGCCATCGACTTCCGCGTGAACAGCCTGCCCACCCTGTGGGGAGAAAAAATCGTACTGCGGATTCTGGACCCGTCAT
CCGCCAAACTCGGTATCGACGCTCTCGGTTACGAGGAATTCCAAAAAAAGATCTATATGGATGCCCTGGCCCAGCCTCAG
GGTATGATTCTGGTTACCGGGCCCACCGGCTCCGGCAAAACCGTATCCCTGTATACCGGCCTGAATATCCTGAATACCCC
TGAGCGCAATATCTCCACCGCAGAAGACCCGGTGGAGATCAACCTGGAGGGCATTAACCAGGTCAACGTCTCCAACAAGG
TGGGGCTGAATTTTGCCGAGGCGCTGCGCTCCTTCCTGCGCCAGGACCCTGACATTGTGATGGTGGGAGAGATCCGGGAT
CTGGAAACCGCGGAAATCGCCATCAAGGCGGCACAAACCGGACACCTGGTGCTCTCCACCCTGCACACCAATTCAGCACC
CGAGACCCTCACCCGCCTGATGAATATGGGGGTTCCCACCTTCAACATCGCCACGTCGGTAAGCGTAATCATTGCCCAGC
GGCTCGCGCGACGGCTGTGCGGGGAGTGCAAGAAACCTGCTGAATTGCCGGAAGAAGTACTAAAAGAAGAAGGCTTCGAT
ACCGTCACTATCCCAAAATCCGATTGGAAGATATACCAGCCGGTGGGCTGCGAGCACTGCTCCAAGGGCTACAAGGGGCG
CGTGGGCGTGTATGAAGTGGTTCGCATCACCGACGGAATTTCGCGCATTATAATGGAGGGCGGCAATTCCATTCAGATTG
CCGATCAGGCCAAAAAGGAAGGCTTCAATAACCTGCGCATCTCCGCTCTGCGCAAGGTGGTGATGGGGGTGACCAGTCTG
GAAGAAGCCAACCGGGTCACCAAAGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-145)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A6G8D9M5

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

61.996

100

0.622
  pilB Acinetobacter baylyi ADP1

60

100

0.601
  pilB Legionella pneumophila strain ERS1305867

54.85

99.649

0.547
  pilB Vibrio parahaemolyticus RIMD 2210633

53.761

95.782

0.515
  pilB Vibrio campbellii strain DS40M4

52.747

95.958

0.506
  pilB Vibrio cholerae strain A1552

53.073

94.376

0.501
  pilF Neisseria gonorrhoeae MS11

50.76

92.443

0.469
  pilB/pilB1 Synechocystis sp. PCC 6803

37.439

100

0.406
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.739

97.54

0.378
  pilB Haemophilus influenzae Rd KW20

39.729

90.685

0.36

Multiple sequence alignment