Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QQA13_RS12220 Genome accession   NZ_CP127409
Coordinates   2628490..2630214 (+) Length   574 a.a.
NCBI ID   WP_108470813.1    Uniprot ID   -
Organism   Rhodanobacter thiooxydans strain C33     
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 2618899..2632116 2628490..2630214 within 0


Gene organization within MGE regions


Location: 2618899..2632116
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QQA13_RS12170 - 2618899..2620872 (+) 1974 WP_108470967.1 hypothetical protein -
  QQA13_RS12175 - 2620869..2622119 (+) 1251 WP_108470806.1 oligosaccharide flippase family protein -
  QQA13_RS12180 - 2622116..2623087 (-) 972 WP_286042671.1 glycosyltransferase -
  QQA13_RS12185 - 2622972..2623778 (-) 807 WP_199909804.1 TylF/MycF family methyltransferase -
  QQA13_RS12190 - 2623908..2624948 (-) 1041 WP_108470809.1 glycosyltransferase family 4 protein -
  QQA13_RS12195 - 2624945..2626141 (-) 1197 WP_108470810.1 glycosyltransferase family 4 protein -
  QQA13_RS12200 - 2626134..2626847 (-) 714 WP_108470811.1 class I SAM-dependent methyltransferase -
  QQA13_RS12205 - 2626859..2627719 (-) 861 WP_108470812.1 glycosyltransferase family 2 protein -
  QQA13_RS12210 - 2627748..2627903 (-) 156 WP_234411269.1 hypothetical protein -
  QQA13_RS12215 - 2628021..2628080 (-) 60 WP_234411286.1 hypothetical protein -
  QQA13_RS12220 pilB 2628490..2630214 (+) 1725 WP_108470813.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QQA13_RS12225 pilC 2630360..2631631 (+) 1272 WP_108470814.1 type II secretion system F family protein Machinery gene
  QQA13_RS12230 - 2631724..2632116 (+) 393 WP_108470815.1 endonuclease domain-containing protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62800.38 Da        Isoelectric Point: 5.9529

>NTDB_id=844169 QQA13_RS12220 WP_108470813.1 2628490..2630214(+) (pilB) [Rhodanobacter thiooxydans strain C33]
MSSQLQPSLAGLSGMARRLVSEGVMPEDVVRKAMADSNQSKSTLTTWLLDRNLVDSAELTRIASAEFGMPTMDVAALNPT
TMPLDLISEALITKHQTLPLFRRGKRLFVGIADPMQSHALDEIQFHSNCMVEPILVERGSLQRVIESLLNNLRNTMPDMG
GGDLDELDVEGGDDEGESSSGVDANANDDAPVVKFVNKILVDAIRRGASDIHFEPFETQYRVRLRMDGILKAVASPPMKM
ANRISSRIKVMAQLDIAEKRVPQDGRIKLNLSKTRAIDFRVSTLPTLFGEKIVMRILDGSSARIGIEKLGYEPEQQKLYV
DAIHKPYGMVLVTGPTGSGKTVSLYTGLNMLNTAERNISTVEDPVEIRVEGINQVQQNVKRGMTFASALRSFLRQDPDVI
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAAQTISRLMNMGIAPYNITSSVTLIIAQRLARRLHDCKKPIELPPKVL
LDAGFSQADIDAGLTIYEAVGCDGCNEGYKGRVGIYQVMPMLEDIQKIVLQGGNALQIAEVARAAGINDLRASALLKVKQ
GLTSLTEIDRVTKE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=844169 QQA13_RS12220 WP_108470813.1 2628490..2630214(+) (pilB) [Rhodanobacter thiooxydans strain C33]
ATGTCATCTCAATTACAACCATCGCTCGCGGGTCTGTCCGGCATGGCGCGCCGACTGGTGTCCGAGGGGGTAATGCCCGA
AGACGTCGTGCGCAAGGCGATGGCCGACAGCAACCAGAGCAAATCCACGCTGACCACCTGGCTGCTGGATCGCAACCTGG
TCGACAGCGCCGAACTGACCCGGATCGCCTCGGCCGAATTCGGCATGCCGACGATGGACGTGGCCGCGCTGAACCCGACG
ACGATGCCGCTGGACCTGATCAGCGAGGCGCTGATCACCAAGCACCAGACGCTGCCGCTGTTCCGCCGCGGCAAGCGCCT
GTTCGTGGGCATCGCCGACCCGATGCAGTCGCATGCGCTGGACGAGATCCAGTTCCACTCCAACTGCATGGTGGAACCGA
TCCTGGTGGAGCGTGGCTCGCTGCAGCGGGTGATCGAAAGCCTGCTCAACAACCTGCGCAACACCATGCCCGACATGGGT
GGCGGCGACCTGGACGAGCTGGACGTCGAGGGCGGCGACGACGAGGGCGAATCGAGCAGCGGCGTCGACGCGAACGCGAA
CGACGACGCGCCAGTGGTGAAGTTCGTCAACAAGATCCTGGTCGACGCGATCCGCCGCGGCGCCTCGGACATCCATTTCG
AGCCGTTCGAGACTCAGTACCGGGTGCGCCTGCGCATGGACGGCATCCTGAAGGCGGTGGCCAGCCCGCCGATGAAGATG
GCCAACCGCATCTCCTCGCGCATCAAGGTGATGGCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGACGGTCGCAT
CAAACTCAACCTGTCCAAGACCCGCGCCATCGACTTCCGCGTGAGCACGCTGCCCACGCTGTTTGGCGAGAAGATCGTGA
TGCGTATCCTGGACGGCTCCTCGGCCAGGATTGGCATCGAGAAGCTTGGCTACGAGCCGGAGCAGCAGAAGCTCTACGTC
GACGCCATCCACAAGCCGTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGCAAGACGGTGTCGCTGTACACCGG
CCTGAACATGCTCAACACCGCCGAGCGCAACATCTCGACGGTGGAAGACCCGGTGGAAATCCGCGTCGAGGGTATCAACC
AGGTACAGCAGAACGTGAAGCGCGGCATGACCTTCGCCAGCGCGCTGCGTTCGTTCCTGCGCCAGGACCCGGACGTGATC
ATGGTCGGCGAGATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAAGCGGCGCAGACCGGCCACATGGTGCTGTCCAC
CCTGCACACCAACGACGCCGCGCAGACCATCTCGCGCCTGATGAACATGGGCATCGCGCCCTACAACATCACCTCGTCGG
TGACCCTGATCATCGCCCAGCGCCTGGCGCGGCGCCTGCACGACTGCAAGAAGCCGATCGAACTACCGCCCAAGGTGCTG
CTGGACGCCGGCTTCAGCCAGGCCGATATCGACGCCGGGCTGACCATTTACGAGGCCGTCGGCTGCGACGGCTGCAACGA
GGGTTACAAGGGCCGCGTGGGCATCTACCAGGTGATGCCGATGCTGGAGGATATCCAGAAGATCGTCCTGCAGGGCGGCA
ACGCGCTGCAGATCGCCGAGGTGGCCAGGGCCGCCGGCATCAACGACTTGCGCGCGTCGGCCCTGCTCAAGGTGAAGCAG
GGGCTGACCAGCCTGACCGAGATCGACCGCGTCACCAAGGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-465)

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

(49-149)


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

54.69

98.432

0.538
  pilB Acinetobacter baumannii D1279779

52.982

99.303

0.526
  pilB Legionella pneumophila strain ERS1305867

50

98.955

0.495
  pilB Vibrio cholerae strain A1552

49.536

93.902

0.465
  pilB Vibrio parahaemolyticus RIMD 2210633

49.529

92.509

0.458
  pilB Vibrio campbellii strain DS40M4

49.529

92.509

0.458
  pilF Neisseria gonorrhoeae MS11

46.869

97.387

0.456
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.448

96.516

0.371
  pilF Thermus thermophilus HB27

38

95.819

0.364