Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH262_RS16770 Genome accession   NZ_CP066961
Coordinates   3781039..3782745 (-) Length   568 a.a.
NCBI ID   WP_274393759.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain 5057     
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 3774949..3786548 3781039..3782745 within 0


Gene organization within MGE regions


Location: 3774949..3786548
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH262_RS16745 (JH262_16680) sucC 3774949..3776118 (-) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH262_RS16750 (JH262_16685) - 3776352..3777962 (+) 1611 WP_223646353.1 HAMP domain-containing sensor histidine kinase -
  JH262_RS16755 (JH262_16690) pilR 3778171..3779565 (+) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  JH262_RS16760 (JH262_16695) - 3779763..3780119 (+) 357 WP_139328384.1 hypothetical protein -
  JH262_RS16765 (JH262_16700) - 3780119..3780856 (+) 738 WP_070690009.1 zeta toxin family protein -
  JH262_RS16770 (JH262_16705) pilB 3781039..3782745 (-) 1707 WP_274393759.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH262_RS16775 (JH262_16710) pilA2 3783020..3783430 (-) 411 WP_228424134.1 pilin Machinery gene
  JH262_RS16780 (JH262_16715) pilC 3783782..3785041 (+) 1260 WP_228424132.1 type II secretion system F family protein Machinery gene
  JH262_RS16785 (JH262_16720) - 3785048..3785911 (+) 864 WP_223646361.1 A24 family peptidase -
  JH262_RS16790 (JH262_16725) coaE 3785925..3786548 (+) 624 WP_274390763.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 61936.12 Da        Isoelectric Point: 5.6078

>NTDB_id=523635 JH262_RS16770 WP_274393759.1 3781039..3782745(-) (pilB) [Xanthomonas campestris pv. incanae strain 5057]
MGITGIARRLVQDGVLDETMARSAMEQASIAKVPLPQWFAEKKLVTGAQLAAANAVEFGMPLLDMSAFDASQNAIKLVSE
ELLQKYQVLPLFKRGNRLFVGVSNPTQTKALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSALGGDDEEMGDL
DVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLNQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQKLFLDAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPEHALLAEGF
TPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKASHGVTSLA
EINRVTKD

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=523635 JH262_RS16770 WP_274393759.1 3781039..3782745(-) (pilB) [Xanthomonas campestris pv. incanae strain 5057]
GTGGGTATTACCGGGATCGCACGACGTCTGGTCCAAGATGGCGTGCTGGACGAAACAATGGCGCGTTCTGCCATGGAGCA
GGCTTCTATAGCCAAAGTCCCGCTTCCTCAATGGTTTGCAGAGAAAAAATTAGTCACAGGCGCACAACTCGCCGCTGCAA
ACGCAGTGGAGTTTGGTATGCCTCTGCTGGATATGTCTGCGTTCGACGCTAGTCAGAACGCGATCAAGCTGGTCAGTGAG
GAGTTGCTTCAGAAATACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGATTGTTTGTGGGAGTGAGCAATCCAACCCA
GACTAAGGCGTTGGACGACATCAAGTTCCATACCAACTTGGTGGTGGAGCCCATCCTGGTCGATGAGGACCAGATCCGTA
GGACGTTGGAGCAATGGCAGGCAGGAAACGCGTCCTTTGGCTCGGCGCTTGGTGGCGACGACGAGGAGATGGGGGACCTA
GACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGTGGGGATTCCGGGGTCGATGCCAAGGGCGATGACACGCCGGTGGT
GAAATTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACATCCATTTCGAGCCGTATGAAGACGACT
ACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTCAATCAGCGCATCGCGGCG
CGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGACGGGCGCATCAAGCTCAACCTGTCCAA
GACCAAGCAGATCGATTTCCGCGTGAGCACCTTGCCGACCCTGTTCGGCGAGAAGGTGGTGTTGCGTATCCTGGACGCCA
GTGCGGCCAAGCTCGGTATCGAGAAGCTGGGTTACGAGGCGGATCAGCAGAAGCTGTTCCTGGATGCGATCCACAAGCCC
TACGGCATGGTGCTGGTGACCGGGCCGACTGGTTCGGGCAAGACGGTGTCGCTGTATACCGCGCTCGGGATTCTCAACGA
CGAGACGCGCAATATTTCCACGGCTGAGGATCCGGTCGAAATCCGCTTGCCCGGCGTCAATCAGGTGCAGCAGAACGTCA
AGCGGGGCATGACGTTTGCGGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCGGACATCATCATGGTCGGCGAAATCCGC
GACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGCCATATGGTGCTGTCGACACTGCACACCAACGATGC
GCCGCAGACCATTGCGCGTCTGATGAACATGGGCATCGCGCCGTACAACATCACCTCGTCGGTGACGCTGGTCATCGCGC
AGCGCCTGGCGCGGCGGCTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCGGAACATGCGCTGCTGGCGGAAGGCTTT
ACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGAGTGCACCGAAGGCTACAAGGGCCGTAC
CGGCATCTATCAGGTGATGCCGATGACCGACGAAATCGGCGCGATCGTGCTGGAAGGCGGCAATGCGATGCAGATCGCCG
AGGCTGCGCAGAAGATCGGTATCCGCGACCTGCGTCAGTCGGCATTGATGAAGGCTTCGCACGGCGTGACCAGCCTGGCC
GAGATCAATCGGGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

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

(40-141)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

55.986

100

0.56
  pilB Acinetobacter baumannii D1279779

55.634

100

0.556
  pilB Legionella pneumophila strain ERS1305867

51.937

100

0.519
  pilB Vibrio cholerae strain A1552

48.951

100

0.493
  pilF Neisseria gonorrhoeae MS11

49.12

100

0.491
  pilB Vibrio campbellii strain DS40M4

45.87

100

0.46
  pilB Vibrio parahaemolyticus RIMD 2210633

46.333

98.415

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

35.902

100

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.278

96.127

0.368
  pilF Thermus thermophilus HB27

39.499

91.373

0.361