Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH310_RS05280 Genome accession   NZ_CP066936
Coordinates   1240172..1241905 (+) Length   577 a.a.
NCBI ID   WP_011038212.1    Uniprot ID   Q8P673
Organism   Xanthomonas campestris pv. campestris strain 10090     
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 1237570..1248660 1240172..1241905 within 0


Gene organization within MGE regions


Location: 1237570..1248660
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH310_RS05265 (JH310_05245) pilC 1237570..1238826 (-) 1257 WP_011038215.1 type II secretion system F family protein Machinery gene
  JH310_RS05270 (JH310_05250) pilE 1239153..1239593 (+) 441 WP_011038214.1 pilin Machinery gene
  JH310_RS05275 (JH310_05255) - 1239673..1240107 (+) 435 WP_011038213.1 pilin -
  JH310_RS05280 (JH310_05260) pilB 1240172..1241905 (+) 1734 WP_011038212.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH310_RS05290 (JH310_05270) pilR 1242324..1243718 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  JH310_RS05295 (JH310_05275) - 1243927..1245537 (-) 1611 WP_012437608.1 HAMP domain-containing sensor histidine kinase -
  JH310_RS05300 (JH310_05280) sucC 1245771..1246940 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  JH310_RS05305 (JH310_05285) sucD 1246965..1247840 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH310_RS05310 (JH310_05290) - 1247944..1248354 (+) 411 WP_029628876.1 DNA-binding protein -
  JH310_RS05315 (JH310_05295) - 1248358..1248660 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62785.06 Da        Isoelectric Point: 5.5903

>NTDB_id=523391 JH310_RS05280 WP_011038212.1 1240172..1241905(+) (pilB) [Xanthomonas campestris pv. campestris strain 10090]
MSVVLTANLVGITGIARRLVQDGALEEAVARGAMDQAALAKVPLPQWFAEKKLVSAAQLASANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSLG
DDDDEMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=523391 JH310_RS05280 WP_011038212.1 1240172..1241905(+) (pilB) [Xanthomonas campestris pv. campestris strain 10090]
ATGAGCGTTGTGCTAACGGCTAATCTTGTTGGAATCACGGGCATTGCTCGACGTCTTGTGCAAGACGGTGCGCTCGAAGA
GGCGGTTGCTCGTGGTGCGATGGATCAGGCAGCACTCGCCAAAGTGCCTTTACCCCAGTGGTTTGCTGAAAAAAAGCTAG
TCTCTGCTGCGCAGCTCGCCTCTGCCAATGCAGTTGAGTTCGGTATGCCGCTGATGGATGTGTCGGTGTTCGACGCCAGC
CAGAACGCGGTCAAGCTGGTCAGTGAGGAGTTGCTTCAGAAGCATCAGGTACTGCCGCTGTTCAAGCGCGGCAACCGGTT
GTTCGTGGGGGTGAGCAATCCGACGCAGACCAGGGCGCTGGACGATATCAAGTTCCACACCAATCTGGTGGTCGAGCCGA
TCCTGGTAGACGAAGACCAGATCCGTCGCACATTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTCGGCTCTTCGCTCGGC
GACGACGATGATGAGATGGGGGATCTGGACGTCTCTACCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGTGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCAACCCTGTTCGGCGAGA
AGGTGGTACTGCGTATCCTGGACGCCAGTGCGGCCAAGCTTGGTATCGAGAAGCTGGGCTATGAGGCGGACCAACAGAAG
CTGTTCCTGGATGCGATACACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCGCTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTTGAAATCCGCTTGCCTG
GTGTGAATCAGGTGCAGCAGAACGTCAAGCGCGGTATGACCTTCGCGGCGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGT
TCTGTCGACACTGCACACCAACGATGCGCCGCAAACCATTGCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCTCGTCGGTGACTCTGGTCATCGCGCAGCGCTTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGA
GTGCACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACGGACGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCCGCACAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAG
GCTTCGCACGGGGTGACCAGCCTGGCCGAAATCAATCGTGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(49-153)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q8P673

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

56.162

98.44

0.553
  pilB Acinetobacter baylyi ADP1

55.458

98.44

0.546
  pilB Legionella pneumophila strain ERS1305867

51.937

98.44

0.511
  pilF Neisseria gonorrhoeae MS11

48.415

98.44

0.477
  pilB Vibrio cholerae strain A1552

49.002

95.494

0.468
  pilB Vibrio campbellii strain DS40M4

45.694

98.614

0.451
  pilB Vibrio parahaemolyticus RIMD 2210633

45.471

97.574

0.444