Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH276_RS05340 Genome accession   NZ_CP066994
Coordinates   1261600..1263333 (+) Length   577 a.a.
NCBI ID   WP_274497634.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 33-5     
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 1259017..1270088 1261600..1263333 within 0


Gene organization within MGE regions


Location: 1259017..1270088
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH276_RS05325 (JH276_05275) pilC 1259017..1260219 (-) 1203 WP_227971345.1 type II secretion system F family protein Machinery gene
  JH276_RS05330 (JH276_05280) - 1260645..1261061 (+) 417 WP_227971328.1 pilin -
  JH276_RS05335 (JH276_05285) - 1261150..1261560 (+) 411 WP_274316877.1 pilin -
  JH276_RS05340 (JH276_05290) pilB 1261600..1263333 (+) 1734 WP_274497634.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH276_RS05345 (JH276_05295) pilR 1263751..1265145 (-) 1395 WP_274497633.1 sigma-54 dependent transcriptional regulator Regulator
  JH276_RS05350 (JH276_05300) - 1265355..1266965 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH276_RS05355 (JH276_05305) sucC 1267199..1268368 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH276_RS05360 (JH276_05310) sucD 1268393..1269268 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH276_RS05365 (JH276_05315) - 1269372..1269782 (+) 411 WP_029217117.1 DNA-binding protein -
  JH276_RS05370 (JH276_05320) - 1269786..1270088 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62774.96 Da        Isoelectric Point: 5.7640

>NTDB_id=524009 JH276_RS05340 WP_274497634.1 1261600..1263333(+) (pilB) [Xanthomonas campestris pv. campestris strain 33-5]
MNVANSPNLVGITGIARRLVQDGALEEAAARTAMDQATAAKIPLPQWFSEKKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMG
DDDEGMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=524009 JH276_RS05340 WP_274497634.1 1261600..1263333(+) (pilB) [Xanthomonas campestris pv. campestris strain 33-5]
ATGAACGTGGCTAATTCTCCCAATCTAGTTGGAATTACTGGAATTGCTCGTCGTTTAGTCCAAGACGGAGCGTTGGAAGA
GGCTGCCGCTCGCACCGCAATGGACCAGGCTACGGCAGCCAAAATTCCCTTGCCGCAATGGTTCTCTGAGAAGAAGTTGG
TCACCGCATCCCAGCTCGCTGCCGCCAACGCGGTCGAGTTCGGCATGCCGCTGATGGATGTGTCGGTGTTCGATGCCAGT
CAGAATGCAGTCAAGCTGGTGAGTGAGGAGTTGCTCCAGAAGCATCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTTT
GTTTGTGGGGGTGAGCAACCCGACCCAGACCCGTGCGCTGGACGACATCAAGTTCCATACTAATCTTGTGGTCGAGCCGA
TCCTCGTCGACGAGGATCAGATCCGGCGCACCTTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTCGGTTCGTCGATGGGG
GACGACGACGAGGGGATGGGAGACCTAGACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGATA
TCCACTTCGAGCCGTATGAAGACGACTACCGTGTGCGGTTGCGGATCGATGGGTTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCAACCCTGTTCGGCGAGA
AGGTGGTACTGCGTATCCTGGACGCCAGTGCGGCCAAGCTTGGTATCGAGAAGCTGGGCTATGAGGCGGACCAACAGAAG
CTGTTCCTGGATGCGATACACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCGCTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTTGAAATCCGCTTGCCTG
GTGTGAATCAGGTGCAGCAGAACGTCAAGCGCGGTATGACCTTCGCGGCGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCGACACTGCACACCAACGATGCGCCGCAAACCATTGCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCTCGTCGGTGACTCTGGTCATCGCGCAGCGCTTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGA
GTGCACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACGGACGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCCGCACAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAG
GCTTCGCACGGGGTGACCAGCCTGGCTGAGATCAATCGGGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(50-153)

Type II/IV secretion system protein (T2SSE)

(201-468)


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

56.514

98.44

0.556
  pilB Acinetobacter baylyi ADP1

55.106

98.44

0.542
  pilB Legionella pneumophila strain ERS1305867

52.289

98.44

0.515
  pilB Vibrio cholerae strain A1552

48.87

99.653

0.487
  pilF Neisseria gonorrhoeae MS11

48.592

98.44

0.478
  pilB Vibrio campbellii strain DS40M4

46.221

98.614

0.456
  pilB Vibrio parahaemolyticus RIMD 2210633

46.869

96.88

0.454