Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH274_RS04965 Genome accession   NZ_CP066968
Coordinates   1162087..1163820 (+) Length   577 a.a.
NCBI ID   WP_274396000.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain 16-8     
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 1143873..1171630 1162087..1163820 within 0


Gene organization within MGE regions


Location: 1143873..1171630
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH274_RS04880 (JH274_04870) - 1144832..1144987 (+) 156 WP_011038226.1 hypothetical protein -
  JH274_RS04885 (JH274_04875) - 1145163..1145558 (+) 396 WP_042594933.1 hypothetical protein -
  JH274_RS04890 (JH274_04880) - 1145649..1146041 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH274_RS04895 (JH274_04885) glgX 1146559..1148688 (-) 2130 WP_274394338.1 glycogen debranching protein GlgX -
  JH274_RS04900 (JH274_04890) rimK 1149182..1150057 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  JH274_RS04905 (JH274_04895) - 1150708..1151385 (+) 678 WP_003490678.1 response regulator transcription factor -
  JH274_RS04910 (JH274_04900) - 1151378..1152712 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JH274_RS04915 (JH274_04905) - 1152855..1153346 (-) 492 WP_274395994.1 GNAT family N-acetyltransferase -
  JH274_RS04920 (JH274_04910) - 1153343..1153633 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  JH274_RS04925 (JH274_04915) - 1153709..1154110 (-) 402 WP_274395995.1 SymE family type I addiction module toxin -
  JH274_RS04930 (JH274_04920) coaE 1154642..1155265 (-) 624 WP_116670565.1 dephospho-CoA kinase -
  JH274_RS04935 (JH274_04925) - 1155279..1156142 (-) 864 WP_040940797.1 A24 family peptidase -
  JH274_RS04940 (JH274_04930) pilC 1156149..1157408 (-) 1260 WP_274395996.1 type II secretion system F family protein Machinery gene
  JH274_RS04945 (JH274_04935) pilA2 1157763..1158188 (+) 426 WP_274395997.1 pilin Machinery gene
  JH274_RS04950 (JH274_04940) - 1158324..1159916 (+) 1593 WP_337998769.1 phosphoethanolamine transferase -
  JH274_RS04955 (JH274_04945) - 1159927..1160556 (+) 630 WP_012437604.1 hypothetical protein -
  JH274_RS04960 (JH274_04950) - 1160526..1162052 (+) 1527 WP_337998762.1 hypothetical protein -
  JH274_RS04965 (JH274_04955) pilB 1162087..1163820 (+) 1734 WP_274396000.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH274_RS04970 (JH274_04960) - 1164003..1164740 (-) 738 WP_070690009.1 zeta toxin family protein -
  JH274_RS04975 (JH274_04965) - 1164740..1165096 (-) 357 WP_139328384.1 hypothetical protein -
  JH274_RS04980 (JH274_04970) pilR 1165294..1166688 (-) 1395 WP_070690014.1 sigma-54 dependent transcriptional regulator Regulator
  JH274_RS04985 (JH274_04975) - 1166897..1168507 (-) 1611 WP_274396002.1 HAMP domain-containing sensor histidine kinase -
  JH274_RS04990 (JH274_04980) sucC 1168741..1169910 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH274_RS04995 (JH274_04985) sucD 1169935..1170810 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH274_RS05000 (JH274_04990) - 1170914..1171324 (+) 411 WP_323549302.1 DNA-binding protein -
  JH274_RS05005 (JH274_04995) - 1171328..1171630 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62651.83 Da        Isoelectric Point: 5.9180

>NTDB_id=523678 JH274_RS04965 WP_274396000.1 1162087..1163820(+) (pilB) [Xanthomonas campestris pv. incanae strain 16-8]
MNSVATTNLVGITGIARRLVQDGALEEAAARTAMEQAAAAKVPLPQWFAEKKLVSASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTKALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSALG
GDDEEMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELHEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=523678 JH274_RS04965 WP_274396000.1 1162087..1163820(+) (pilB) [Xanthomonas campestris pv. incanae strain 16-8]
ATGAATTCAGTAGCTACCACCAACCTCGTTGGCATCACCGGCATCGCTCGTCGCCTTGTGCAGGATGGCGCCTTGGAGGA
AGCCGCTGCGCGGACGGCGATGGAGCAGGCGGCCGCTGCCAAGGTGCCGTTGCCGCAGTGGTTTGCCGAGAAGAAGCTGG
TGTCGGCGTCGCAGCTGGCGGCAGCCAACGCCGTGGAATTCGGTATGCCGCTGATGGATGTGTCGGTGTTCGACGCTAGT
CAGAACGCGGTCAAATTGGTAAGTGAAGAGTTGCTCCAGAAGCATCAGGTGTTGCCGCTGTTCAAGCGCGGCAACAGATT
GTTTGTGGGAGTGAGCAATCCAACCCAGACTAAGGCGTTGGACGACATCAAGTTCCATACCAACTTGGTGGTGGAGCCAA
TCCTGGTCGATGAGGACCAGATCCGTAGGACGTTGGAGCAATGGCAGGCAGGAAACGCGTCCTTTGGCTCGGCGCTTGGT
GGCGACGACGAGGAGATGGGGGACCTAGACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGTGGGGATTCCGGGGTCGA
TGCCAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAATCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGTTGCGTATCCTGGACGCCAGTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGATCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTAACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCCTCAACGATGAGACGCGCAATATTTCCACGGCCGAAGATCCGGTCGAAATCCGCCTGCCTG
GCGTCAATCAGGTGCAGCAGAACGTCAAGCGCGGCATGACGTTCGCTGCGGCGTTGCGCTCGTTCCTGCGTCAGGACCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GTTGTCGACGCTGCATACCAATGATGCGCCGCAGACCATCGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCA
CCTCGTCGGTGACCTTGGTCATTGCACAGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGAGCTCCATGAAGCGGTCGGTTGCGATGA
ATGCACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACCGATGAAATCGGTGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCTGCGCAGAAGATCGGTATCCGCGACTTGCGCCAGTCGGCGTTGATGAAG
GCTTCGCACGGGGTGACCAGCCTGGCCGAGATCAATCGTGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(49-150)


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 baumannii D1279779

56.69

98.44

0.558
  pilB Acinetobacter baylyi ADP1

55.652

99.653

0.555
  pilB Legionella pneumophila strain ERS1305867

52.289

98.44

0.515
  pilB Vibrio cholerae strain A1552

49.393

100

0.494
  pilF Neisseria gonorrhoeae MS11

48.944

98.44

0.482
  pilB Vibrio campbellii strain DS40M4

46.046

98.614

0.454
  pilB Vibrio parahaemolyticus RIMD 2210633

46.512

96.88

0.451