Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH272_RS05875 Genome accession   NZ_CP066929
Coordinates   1383463..1385199 (+) Length   578 a.a.
NCBI ID   WP_040940802.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CFBP12825     
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 1371562..1394152 1383463..1385199 within 0
IScluster/Tn 1385342..1386474 1383463..1385199 flank 143


Gene organization within MGE regions


Location: 1371562..1394152
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH272_RS05815 (JH272_05790) coaE 1371562..1372185 (-) 624 WP_274316878.1 dephospho-CoA kinase -
  JH272_RS05820 (JH272_05795) - 1372199..1373062 (-) 864 WP_040940797.1 A24 family peptidase -
  JH272_RS05825 (JH272_05800) pilC 1373069..1374331 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  JH272_RS05830 (JH272_05805) pilA/pilAI 1374682..1375080 (+) 399 WP_104570927.1 pilin Machinery gene
  JH272_RS05835 (JH272_05810) - 1375181..1375603 (+) 423 WP_104570926.1 pilin -
  JH272_RS05840 (JH272_05815) - 1375662..1377482 (+) 1821 WP_274361049.1 hypothetical protein -
  JH272_RS05845 (JH272_05820) - 1377606..1378364 (+) 759 WP_274361050.1 class I SAM-dependent methyltransferase -
  JH272_RS05850 (JH272_05825) - 1378300..1379547 (+) 1248 WP_274361051.1 glycosyltransferase family 9 protein -
  JH272_RS05855 (JH272_05830) - 1379550..1380392 (-) 843 WP_147308817.1 glycosyltransferase -
  JH272_RS05860 (JH272_05835) - 1380386..1381558 (-) 1173 WP_228442823.1 glycosyltransferase -
  JH272_RS05865 (JH272_05840) - 1381543..1382406 (-) 864 WP_274361052.1 glycosyltransferase -
  JH272_RS05870 (JH272_05845) - 1382456..1383307 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  JH272_RS05875 (JH272_05850) pilB 1383463..1385199 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH272_RS05885 (JH272_05860) pilR 1387814..1389208 (-) 1395 WP_274361054.1 sigma-54 dependent transcriptional regulator Regulator
  JH272_RS05890 (JH272_05865) - 1389419..1391029 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH272_RS05895 (JH272_05870) sucC 1391263..1392432 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH272_RS05900 (JH272_05875) sucD 1392457..1393332 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH272_RS05905 (JH272_05880) - 1393436..1393846 (+) 411 WP_029628876.1 DNA-binding protein -
  JH272_RS05910 (JH272_05885) - 1393850..1394152 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62780.99 Da        Isoelectric Point: 5.6058

>NTDB_id=523284 JH272_RS05875 WP_040940802.1 1383463..1385199(+) (pilB) [Xanthomonas campestris pv. campestris strain CFBP12825]
MNAVISANLVGITGIARRLVQDGALDETAARTAMEQAASARVPLPQWFAERKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMG
DDDEGMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKAPLP
EHALLAEGFTAEQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQRIGIRDLRQSALV
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=523284 JH272_RS05875 WP_040940802.1 1383463..1385199(+) (pilB) [Xanthomonas campestris pv. campestris strain CFBP12825]
ATGAACGCAGTGATCTCAGCCAATCTCGTTGGCATAACCGGCATAGCTCGTCGGCTGGTTCAAGACGGCGCACTTGATGA
AACGGCGGCCCGTACCGCCATGGAGCAAGCTGCTTCAGCCAGGGTTCCTCTGCCCCAGTGGTTTGCGGAGAGAAAGTTAG
TGACTGCATCCCAGCTTGCCGCCGCAAACGCGGTTGAGTTTGGCATGCCTCTGATGGACGTTTCCGTGTTCGATGCCAGC
CAGAACGCGGTCAAGCTGGTCAGCGAGGAGTTGCTCCAGAAGTACCAGGTGCTACCGCTGTTCAAGCGCGGCAACCGGTT
GTTCGTGGGGGTGAGCAATCCGACCCAGACCAGGGCGCTGGACGACATCAAGTTCCATACCAATCTGGTGGTCGAGCCGA
TCCTGGTCGACGAGGATCAGATCCGTCGCACCTTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTTGGCTCGTCGATGGGT
GACGACGACGAGGGGATGGGGGATCTGGACGTCTCCACCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCCGACA
TCCATTTCGAGCCGTACGAAGACGACTACCGGGTGCGCTTGCGGATCGATGGCCTCCTGAAGAATGTGGCCAAGGCGCCG
GTGAAGTTGAGCCAGCGCATTGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
TGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGCGAGTGCGGCCAAGCTGGGCATCGAGAAGCTGGGCTATGAGGCGGATCAGCAAAAG
CTGTTCCTGGATGCGATCCACAAGCCTTACGGCATGGTGCTGGTGACCGGGCCAACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCCTCAACGATGAGACGCGCAACATCTCCACGGCCGAGGATCCGGTCGAAATCCGCTTGCCTG
GTGTCAATCAGGTGCAGCAAAACGTCAAGCGCGGCATGACGTTTGCTGCGGCGTTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GTTGTCGACGCTGCATACCAACGATGCGCCACAGACCATCGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCA
CTTCGTCGGTGACCTTGGTCATTGCGCAGCGTCTGGCGCGGCGTTTGTGCAACAACTGCAAGCGCAAGGCGCCGCTGCCG
GAGCATGCGTTGCTGGCCGAAGGGTTTACCGCAGAGCAGATCGCTGCCGGAATCGAACTGTACGAGGCGGTCGGCTGCGA
TGAGTGCACCGAAGGCTACAAGGGGCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTAC
TGGAAGGCGGCAACGCGATGCAGATCGCCGAGGCGGCGCAGAGGATCGGCATCCGCGATTTGCGGCAGTCGGCGCTGGTG
AAGGCGGCGCATGGGGTGACGAGCCTGGCGGAGATCAATCGGGTGACGAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-153)


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

55.81

98.27

0.548
  pilB Acinetobacter baylyi ADP1

55.106

98.27

0.542
  pilB Legionella pneumophila strain ERS1305867

52.021

98.443

0.512
  pilB Vibrio cholerae strain A1552

49.043

99.481

0.488
  pilF Neisseria gonorrhoeae MS11

47.887

98.27

0.471
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45
  pilB Vibrio parahaemolyticus RIMD 2210633

45.745

97.578

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

35.61

100

0.379
  pilF Thermus thermophilus HB27

40.499

90.138

0.365