Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH314_RS15990 Genome accession   NZ_CP066925
Coordinates   3599275..3601008 (-) Length   577 a.a.
NCBI ID   WP_274339072.1    Uniprot ID   -
Organism   Xanthomonas campestris strain CFBP5824     
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)
ICE 3600767..3641930 3599275..3601008 flank -241


Gene organization within MGE regions


Location: 3599275..3641930
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH314_RS15990 (JH314_15940) pilB 3599275..3601008 (-) 1734 WP_274339072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH314_RS15995 (JH314_15945) - 3601273..3601722 (-) 450 WP_274339073.1 pilin -
  JH314_RS16000 (JH314_15950) pilC 3602204..3603361 (+) 1158 WP_274340306.1 type II secretion system F family protein Machinery gene
  JH314_RS16005 (JH314_15955) - 3603368..3604231 (+) 864 WP_040940797.1 A24 family peptidase -
  JH314_RS16010 (JH314_15960) coaE 3604245..3604868 (+) 624 WP_076038488.1 dephospho-CoA kinase -
  JH314_RS16015 (JH314_15965) - 3605397..3605798 (+) 402 WP_274339074.1 SymE family type I addiction module toxin -
  JH314_RS16020 (JH314_15970) - 3605873..3606163 (+) 291 WP_011038219.1 DUF1778 domain-containing protein -
  JH314_RS16025 (JH314_15975) - 3606160..3606651 (+) 492 WP_223646366.1 GNAT family N-acetyltransferase -
  JH314_RS16030 (JH314_15980) - 3606794..3608128 (-) 1335 WP_274339075.1 HAMP domain-containing sensor histidine kinase -
  JH314_RS16035 (JH314_15985) - 3608121..3608798 (-) 678 WP_003490678.1 response regulator transcription factor -
  JH314_RS16040 (JH314_15990) rimK 3609448..3610323 (-) 876 WP_070689999.1 30S ribosomal protein S6--L-glutamate ligase -
  JH314_RS16045 (JH314_15995) glgX 3610817..3612946 (+) 2130 WP_274339076.1 glycogen debranching protein GlgX -
  JH314_RS16050 (JH314_16000) - 3613479..3613871 (-) 393 WP_076038484.1 H-NS family nucleoid-associated regulatory protein -
  JH314_RS16055 (JH314_16005) - 3613962..3614357 (-) 396 WP_274339077.1 hypothetical protein -
  JH314_RS16060 (JH314_16010) - 3614542..3614688 (-) 147 WP_081340618.1 hypothetical protein -
  JH314_RS16070 (JH314_16020) - 3617344..3617685 (+) 342 WP_274339078.1 hypothetical protein -
  JH314_RS16075 (JH314_16025) - 3617736..3619331 (-) 1596 WP_337999482.1 MobA/MobL family protein -
  JH314_RS16080 (JH314_16030) - 3619395..3620527 (+) 1133 WP_274338866.1 IS3-like element ISXca1 family transposase -
  JH314_RS16085 (JH314_16035) - 3620798..3621778 (+) 981 WP_064510573.1 IS5-like element IS1646 family transposase -
  JH314_RS16090 (JH314_16040) - 3621936..3622742 (+) 807 WP_274339079.1 caspase family protein -
  JH314_RS16095 (JH314_16045) - 3623247..3623897 (-) 651 WP_274340308.1 hypothetical protein -
  JH314_RS16100 (JH314_16050) - 3623938..3627972 (-) 4035 WP_274339080.1 hypothetical protein -
  JH314_RS16105 (JH314_16055) - 3628006..3628647 (-) 642 WP_274339081.1 DUF1629 domain-containing protein -
  JH314_RS16110 (JH314_16060) radC 3628741..3629304 (-) 564 WP_274340309.1 DNA repair protein RadC -
  JH314_RS16115 (JH314_16065) - 3629575..3630036 (+) 462 WP_274339082.1 GNAT family N-acetyltransferase -
  JH314_RS16120 (JH314_16070) - 3630134..3631261 (+) 1128 WP_274339083.1 hypothetical protein -
  JH314_RS16125 (JH314_16075) - 3631391..3631804 (+) 414 WP_274339084.1 hypothetical protein -
  JH314_RS16130 (JH314_16080) - 3632283..3633239 (+) 957 Protein_3119 integrase -
  JH314_RS16135 (JH314_16085) - 3633334..3634442 (+) 1109 WP_274339085.1 IS3 family transposase -
  JH314_RS16140 (JH314_16090) - 3634607..3635709 (-) 1103 Protein_3121 IS3-like element IS1404 family transposase -
  JH314_RS16145 (JH314_16095) - 3635777..3637204 (+) 1428 Protein_3122 conjugal transfer protein TraG N-terminal domain-containing protein -
  JH314_RS16150 (JH314_16100) - 3637216..3637575 (-) 360 WP_274339086.1 DUF3742 family protein -
  JH314_RS16155 (JH314_16105) - 3637802..3638560 (+) 759 WP_274339087.1 type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein -
  JH314_RS16160 (JH314_16110) - 3638553..3639479 (+) 927 WP_274339088.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  JH314_RS16165 (JH314_16115) - 3639636..3639926 (-) 291 WP_104552454.1 hypothetical protein -
  JH314_RS16170 (JH314_16120) - 3640030..3640680 (-) 651 WP_274339089.1 GGDEF domain-containing protein -
  JH314_RS16175 (JH314_16125) - 3640749..3641851 (+) 1103 WP_223645675.1 IS3-like element IS1404 family transposase -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62841.01 Da        Isoelectric Point: 5.4530

>NTDB_id=523243 JH314_RS15990 WP_274339072.1 3599275..3601008(-) (pilB) [Xanthomonas campestris strain CFBP5824]
MNTAASVNLVGITGIARRLVQDGALDEAVARAAMEQAATAKVPLPQWFSEKKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQANSASFGSSMG
DDDEEMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=523243 JH314_RS15990 WP_274339072.1 3599275..3601008(-) (pilB) [Xanthomonas campestris strain CFBP5824]
ATGAACACAGCCGCTTCTGTCAATCTGGTTGGGATTACGGGGATAGCCCGTCGTCTAGTGCAGGACGGCGCACTAGATGA
AGCTGTAGCACGTGCTGCAATGGAGCAGGCGGCCACAGCCAAGGTGCCTCTGCCACAGTGGTTCTCCGAAAAAAAACTCG
TGACTGCTTCGCAGTTGGCTGCAGCAAACGCAGTTGAGTTCGGCATGCCGTTGATGGATGTGTCTGTGTTCGACGCCAGC
CAGAACGCAGTCAAGCTGGTCAGCGAAGAGTTGCTCCAGAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGGTT
GTTCGTGGGGGTAAGCAACCCGACCCAGACGCGTGCGCTGGACGACATCAAGTTTCACACCAATCTGGTGGTCGAGCCGA
TTCTGGTCGATGAAGATCAGATTCGTCGCACATTGGAGCAATGGCAGGCCAATAGCGCTTCGTTTGGCTCGTCAATGGGT
GACGACGACGAAGAAATGGGCGATCTGGACGTCTCGGCCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCCTATGAAGATGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAGCCAGCGCATCGCGGCGCGCTTGAAGGTAATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGTTGCGTATCCTGGACGCCAGTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGATCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACTGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCGCTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCTGAGGATCCGGTCGAAATCCGCTTGCCCG
GCGTCAATCAGGTGCAGCAGAACGTCAAGCGGGGCATGACCTTTGCGGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCG
GATATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGCCACATGGT
GCTGTCGACACTGCACACCAACGATGCGCCGCAAACCATTGCGCGTCTGATGAACATGGGTATCGCGCCGTACAACATCA
CCTCCTCGGTGACCCTGGTCATCGCGCAGCGCCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGA
GTGCACCGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACCGATGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCTGCGCAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTAATGAAG
GCTTCGCACGGCGTGACCAGCCTGGCCGAAATCAATCGGGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-152)


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

55.986

98.44

0.551
  pilB Acinetobacter baylyi ADP1

55.986

98.44

0.551
  pilB Legionella pneumophila strain ERS1305867

52.289

98.44

0.515
  pilF Neisseria gonorrhoeae MS11

48.944

98.44

0.482
  pilB Vibrio cholerae strain A1552

49.546

95.494

0.473
  pilB Vibrio parahaemolyticus RIMD 2210633

46.953

96.707

0.454
  pilB Vibrio campbellii strain DS40M4

45.87

98.614

0.452
  pilB/pilB1 Synechocystis sp. PCC 6803

35.574

100

0.376