Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ATY45_RS15765 Genome accession   NZ_CP013675
Coordinates   3370629..3372362 (-) Length   577 a.a.
NCBI ID   WP_011408072.1    Uniprot ID   A0A0K0GIN1
Organism   Xanthomonas oryzae pv. oryzae strain PXO236     
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 3363465..3387346 3370629..3372362 within 0


Gene organization within MGE regions


Location: 3363465..3387346
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY45_RS15735 (ATY45_15275) - 3363465..3363959 (-) 495 WP_044756974.1 hypothetical protein -
  ATY45_RS15740 (ATY45_15280) sucD 3364132..3365007 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  ATY45_RS15745 (ATY45_15285) sucC 3365032..3366201 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  ATY45_RS15750 (ATY45_15290) - 3366435..3368048 (+) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  ATY45_RS15755 (ATY45_15295) pilR 3368319..3369770 (+) 1452 WP_171970756.1 sigma-54 dependent transcriptional regulator Regulator
  ATY45_RS24995 - 3369843..3370049 (+) 207 WP_027703281.1 YhfG family protein -
  ATY45_RS27580 - 3370111..3370272 (+) 162 WP_153296778.1 hypothetical protein -
  ATY45_RS27585 (ATY45_15300) - 3370396..3370620 (+) 225 WP_325167351.1 cell filamentation protein Fic -
  ATY45_RS15765 (ATY45_15305) pilB 3370629..3372362 (-) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ATY45_RS15770 (ATY45_15310) - 3372397..3373923 (-) 1527 WP_011258362.1 membrane protein -
  ATY45_RS15775 (ATY45_15315) - 3373893..3374522 (-) 630 WP_011408070.1 hypothetical protein -
  ATY45_RS15780 (ATY45_15320) - 3374533..3376122 (-) 1590 WP_011408069.1 phosphoethanolamine transferase -
  ATY45_RS15785 (ATY45_15325) pilA2 3376257..3376682 (-) 426 WP_011408068.1 pilin Machinery gene
  ATY45_RS15790 (ATY45_15330) pilC 3377037..3378296 (+) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  ATY45_RS15795 (ATY45_15335) - 3378303..3379166 (+) 864 WP_011258358.1 A24 family peptidase -
  ATY45_RS15800 (ATY45_15340) coaE 3379180..3379788 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  ATY45_RS15805 (ATY45_15345) - 3379859..3381178 (+) 1320 WP_115862282.1 IS701-like element ISXo15 family transposase -
  ATY45_RS15810 (ATY45_15350) - 3382056..3383024 (-) 969 WP_011258802.1 IS5-like element ISXo1 family transposase -
  ATY45_RS26425 - 3383076..3383564 (-) 489 WP_128415435.1 DUF6714 family protein -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62970.00 Da        Isoelectric Point: 5.4513

>NTDB_id=163852 ATY45_RS15765 WP_011408072.1 3370629..3372362(-) (pilB) [Xanthomonas oryzae pv. oryzae strain PXO236]
MNSVSTTNLVGITGIARRLVQDGALEETAARTAMEQAAAAKVPLPQWFAENRLVSASQLAAANAVEFGMPLMDVSVFDAN
QNAVKLVSEELLQKYHVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNASFGSSLG
NDDEEMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANMELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASQGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=163852 ATY45_RS15765 WP_011408072.1 3370629..3372362(-) (pilB) [Xanthomonas oryzae pv. oryzae strain PXO236]
ATGAATTCAGTATCTACAACCAACCTCGTTGGCATCACCGGCATCGCTCGTCGCCTTGTGCAGGATGGCGCCCTGGAGGA
AACCGCTGCGCGGACAGCGATGGAACAGGCGGCCGCTGCCAAGGTGCCGCTGCCGCAGTGGTTTGCCGAGAACAGGCTGG
TGTCGGCGTCGCAGCTTGCGGCGGCCAATGCAGTGGAATTTGGCATGCCACTGATGGATGTGTCTGTGTTCGACGCTAAC
CAGAACGCAGTCAAGCTAGTCAGCGAGGAGTTGCTCCAGAAGTACCATGTGCTGCCGCTGTTCAAGCGCGGCAATCGGTT
GTTTGTGGGAGTGAGCAACCCGACTCAGACCCGTGCACTAGATGACATCAAGTTTCATACGAATCTGGTCGTCGAGCCGA
TTCTTGTCGATGAGGACCAAATCCGTCGCACATTGGAGCAGTGGCAGGCAAGCAATGCCTCATTTGGATCATCGCTTGGC
AACGACGACGAGGAAATGGGGGATCTGGACGTCTCCACCGGCGACGAAGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGGGCCTCGGACA
TCCATTTCGAGCCGTACGAAGACGACTACCGGGTGCGGTTGCGGATCGACGGGTTGCTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTGAGCCAGCGCATCGCGGCGCGTTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTCAGCACCTTGCCGACCCTGTTCGGTGAGA
AGGTGGTGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGACCAACAGAAG
CTGTTCCTGGAAGCGATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGCT
GTACACGGCGCTGGGCATCCTCAACGATGAGACGCGCAACATCTCCACCGCCGAGGATCCGGTCGAAATTCGCCTGCCTG
GCGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGTTCGTTCCTGCGACAGGATCCG
GACATCATCATGGTTGGCGAAATCCGCGACCTGGAAACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GCTGTCCACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGTCTGATGAACATGGGGATCGCGCCGTACAACATCA
CCTCGTCGGTGACCTTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAATAACTGCAAGCGCAAGTCGACGTTGCCG
GAGCATGCACTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTCGCGAATATGGAGCTTTATGAAGCCGTGGGTTGCGACGA
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
  AlphaFold DB A0A0K0GIN1

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

52.465

98.44

0.516
  pilB Vibrio cholerae strain A1552

49.74

100

0.497
  pilF Neisseria gonorrhoeae MS11

49.648

98.44

0.489
  pilB Vibrio campbellii strain DS40M4

46.046

98.614

0.454
  pilB Vibrio parahaemolyticus RIMD 2210633

46.359

97.574

0.452
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.394

91.508

0.36

Multiple sequence alignment