Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IXO597_RS16520 Genome accession   NZ_CP046495
Coordinates   3558981..3560714 (-) Length   577 a.a.
NCBI ID   WP_075243394.1    Uniprot ID   -
Organism   Xanthomonas oryzae pv. oryzae strain IXO597     
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 3551817..3562871 3558981..3560714 within 0


Gene organization within MGE regions


Location: 3551817..3562871
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IXO597_RS16480 (IXO597_016635) - 3551817..3552311 (-) 495 WP_075243396.1 hypothetical protein -
  IXO597_RS16485 (IXO597_016640) sucD 3552484..3553359 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  IXO597_RS16490 (IXO597_016645) sucC 3553384..3554553 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  IXO597_RS16495 (IXO597_016650) - 3554787..3556400 (+) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  IXO597_RS16500 (IXO597_016655) pilR 3556671..3558122 (+) 1452 WP_178383148.1 sigma-54 dependent transcriptional regulator Regulator
  IXO597_RS16505 (IXO597_016660) - 3558195..3558401 (+) 207 WP_027703281.1 YhfG family protein -
  IXO597_RS16510 (IXO597_016665) - 3558463..3558624 (+) 162 WP_153296778.1 hypothetical protein -
  IXO597_RS16515 (IXO597_016670) - 3558748..3558972 (+) 225 WP_336260020.1 cell filamentation protein Fic -
  IXO597_RS16520 (IXO597_016675) pilB 3558981..3560714 (-) 1734 WP_075243394.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IXO597_RS16525 (IXO597_016680) - 3560749..3562275 (-) 1527 WP_075243393.1 hypothetical protein -
  IXO597_RS16530 (IXO597_016685) - 3562245..3562814 (-) 570 WP_229001934.1 hypothetical protein -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62984.03 Da        Isoelectric Point: 5.4513

>NTDB_id=404731 IXO597_RS16520 WP_075243394.1 3558981..3560714(-) (pilB) [Xanthomonas oryzae pv. oryzae strain IXO597]
MNSVSTTNLVGITGIARRLVQDGALEETAARTAMEQAAAAKVPLPQWFAENRLVSASQLAAANAVEFGMPLMDVSVFDAN
QNAVKLVSEELLQKYHVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNASFGSSLG
NDDEEMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLLDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANMELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASQGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=404731 IXO597_RS16520 WP_075243394.1 3558981..3560714(-) (pilB) [Xanthomonas oryzae pv. oryzae strain IXO597]
ATGAATTCAGTATCTACAACCAACCTCGTTGGCATCACCGGCATCGCTCGTCGCCTTGTGCAGGATGGCGCCCTGGAGGA
AACCGCTGCGCGGACAGCGATGGAACAGGCGGCCGCTGCCAAGGTGCCGCTGCCGCAGTGGTTTGCCGAGAACAGGCTGG
TGTCGGCGTCGCAGCTTGCGGCGGCCAATGCAGTGGAATTTGGCATGCCACTGATGGATGTGTCTGTGTTCGACGCTAAC
CAGAACGCAGTCAAGCTAGTCAGCGAGGAGTTGCTCCAGAAGTACCATGTGCTGCCGCTGTTCAAGCGCGGCAATCGGTT
GTTTGTGGGAGTGAGCAACCCGACTCAGACCCGTGCACTAGATGACATCAAGTTTCATACGAATCTGGTCGTCGAGCCGA
TTCTTGTCGATGAGGACCAAATCCGTCGCACATTGGAGCAGTGGCAGGCAAGCAATGCCTCATTTGGATCATCGCTTGGC
AACGACGACGAGGAAATGGGGGATCTGGACGTCTCCACCGGCGACGAAGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGTTGGATGCGATCCGGCGGGGGGCCTCGGACA
TCCATTTCGAGCCGTACGAAGACGACTACCGGGTGCGGTTGCGGATCGACGGGTTGCTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTGAGCCAGCGCATCGCGGCGCGTTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTCAGCACCTTGCCGACCCTGTTCGGTGAGA
AGGTGGTGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGACCAACAGAAG
CTGTTCCTGGAAGCGATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGCT
GTACACGGCGCTGGGCATCCTCAACGATGAGACGCGCAACATCTCCACCGCCGAGGATCCGGTCGAAATTCGCCTGCCTG
GCGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGTTCGTTCCTGCGACAGGATCCG
GACATCATCATGGTTGGCGAAATCCGCGACCTGGAAACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GCTGTCCACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGTCTGATGAACATGGGGATCGCGCCGTACAACATCA
CCTCGTCGGTGACCTTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAATAACTGCAAGCGCAAGTCGACGTTGCCG
GAGCATGCACTGCTGGCGGAAGGCTTTACGCCGGAACAGGTCGCGAATATGGAGCTTTATGAAGCCGTGGGTTGCGACGA
GTGCACCGAGGGCTACAAGGGCCGTACCGGTATCTATCAGGTGATGCCGATGACCGACGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATTGCCGAGGCCGCTCAGAAGATCGGCATCCGGGACTTGCGGCAGTCGGCGTTGATGAAG
GCCTCGCAAGGCGTGACCAGCCTGGCCGAGATCAATCGGGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(49-152)


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 baylyi ADP1

57.042

98.44

0.562
  pilB Acinetobacter baumannii D1279779

56.69

98.44

0.558
  pilB Legionella pneumophila strain ERS1305867

52.641

98.44

0.518
  pilB Vibrio cholerae strain A1552

49.913

100

0.499
  pilF Neisseria gonorrhoeae MS11

49.648

98.44

0.489
  pilB Vibrio campbellii strain DS40M4

46.221

98.614

0.456
  pilB Vibrio parahaemolyticus RIMD 2210633

46.536

97.574

0.454
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.394

91.508

0.36

Multiple sequence alignment