Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   ATY46_RS07840 Genome accession   NZ_CP013676
Coordinates   1623105..1624556 (-) Length   483 a.a.
NCBI ID   WP_173340383.1    Uniprot ID   -
Organism   Xanthomonas oryzae pv. oryzae strain PXO282     
Function   regulate pilin expression (predicted from homology)   
Competence regulation

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 1605407..1629359 1623105..1624556 within 0


Gene organization within MGE regions


Location: 1605407..1629359
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY46_RS26600 - 1605556..1605855 (+) 300 WP_125168747.1 hypothetical protein -
  ATY46_RS26605 - 1605852..1606181 (+) 330 WP_125168748.1 hypothetical protein -
  ATY46_RS07765 (ATY46_07495) - 1606258..1607691 (+) 1434 Protein_1479 RHS repeat-associated core domain-containing protein -
  ATY46_RS24580 - 1607697..1608065 (+) 369 WP_011408064.1 DUF6869 domain-containing protein -
  ATY46_RS07770 (ATY46_07500) - 1608235..1609203 (-) 969 WP_011409177.1 IS5-like element ISXo1 family transposase -
  ATY46_RS26610 - 1609299..1609466 (+) 168 Protein_1482 IS701 family transposase -
  ATY46_RS07775 (ATY46_07505) - 1609584..1609805 (+) 222 Protein_1483 IS4 family transposase -
  ATY46_RS07780 (ATY46_07510) - 1609895..1610851 (+) 957 WP_041182041.1 IS30-like element IS1112a family transposase -
  ATY46_RS24590 - 1610835..1611137 (+) 303 WP_158645227.1 hypothetical protein -
  ATY46_RS07785 (ATY46_07515) - 1611698..1613017 (-) 1320 WP_155296483.1 IS701 family transposase -
  ATY46_RS07790 (ATY46_07520) coaE 1613088..1613696 (-) 609 WP_011258357.1 dephospho-CoA kinase -
  ATY46_RS07795 (ATY46_07525) - 1613710..1614573 (-) 864 WP_011258358.1 A24 family peptidase -
  ATY46_RS07800 (ATY46_07530) pilC 1614580..1615839 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  ATY46_RS07805 (ATY46_07535) pilA2 1616193..1616618 (+) 426 WP_011408068.1 pilin Machinery gene
  ATY46_RS07810 (ATY46_07540) - 1616753..1618342 (+) 1590 WP_069959793.1 phosphoethanolamine transferase -
  ATY46_RS07815 (ATY46_07545) - 1618413..1618982 (+) 570 WP_229001934.1 hypothetical protein -
  ATY46_RS07820 (ATY46_07550) - 1618952..1620478 (+) 1527 WP_042464666.1 membrane protein -
  ATY46_RS07825 (ATY46_07555) pilB 1620513..1622246 (+) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ATY46_RS27830 (ATY46_07560) - 1622255..1622515 (-) 261 WP_011408073.1 Fic family protein -
  ATY46_RS27835 - 1622603..1622764 (-) 162 WP_153296778.1 hypothetical protein -
  ATY46_RS07835 - 1622826..1623032 (-) 207 WP_027703281.1 YhfG family protein -
  ATY46_RS07840 (ATY46_07565) pilR 1623105..1624556 (-) 1452 WP_173340383.1 sigma-54 dependent transcriptional regulator Regulator
  ATY46_RS07845 (ATY46_07570) - 1624827..1626440 (-) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  ATY46_RS07850 (ATY46_07575) sucC 1626674..1627843 (+) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  ATY46_RS07855 (ATY46_07580) sucD 1627868..1628743 (+) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  ATY46_RS07860 (ATY46_07585) - 1629063..1629359 (+) 297 WP_011408075.1 hypothetical protein -

Sequence

Protein


Download         Length: 483 a.a.        Molecular weight: 52431.16 Da        Isoelectric Point: 6.9755

>NTDB_id=163875 ATY46_RS07840 WP_173340383.1 1623105..1624556(-) (pilR) [Xanthomonas oryzae pv. oryzae strain PXO282]
MRRAPLDNCRPSSRWAIVRSMSEPKSALVVDDERDIRELLVLTLSRMGLRISTAANLAEARELLANNPYDLCLTDMRLPD
GNGIELVTEIARQYPQTPVAMITAFGSMDLAVEALKAGAFDFVSKPVDIGVLRGLVKHALELNNHDRPAPPPPPEQASRL
LGDSSAMESLRATIGKVARSQAPVYIVGESGVGKELVARTIHEQGARAAGPFVPVNCGAIPAELMESEFFGHKKGSFTGA
HADKPGLFQAAHGGTLFLDEVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKNLGDLVSDGRFRHDLYYR
INVIELRVPPLRERGGDLPQLAAAIIARLAHSHGRTIPLLTQSALDALDHYGFPGNVRELENILERALALAEDDQISATD
LRLPAHGGHRLAATPGSAAVEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKL
GME

Nucleotide


Download         Length: 1452 bp        

>NTDB_id=163875 ATY46_RS07840 WP_173340383.1 1623105..1624556(-) (pilR) [Xanthomonas oryzae pv. oryzae strain PXO282]
TTGCGCCGCGCCCCGCTCGACAATTGTCGACCATCATCACGCTGGGCTATCGTGCGCAGCATGAGCGAACCCAAAAGTGC
CCTGGTTGTCGATGACGAGCGTGATATTCGCGAGTTGCTTGTTCTCACCTTGAGCCGTATGGGGCTGCGCATCAGCACCG
CTGCCAATCTGGCCGAAGCGCGCGAATTGCTGGCCAACAATCCCTACGATCTGTGCCTGACCGACATGCGCCTGCCCGAC
GGCAATGGCATCGAGCTGGTCACCGAAATCGCCAGGCAGTACCCGCAGACGCCGGTGGCGATGATCACCGCGTTCGGCAG
CATGGACCTGGCCGTGGAAGCGCTGAAAGCCGGCGCCTTCGATTTCGTCAGCAAACCGGTGGACATCGGCGTGCTGCGCG
GCTTGGTCAAGCACGCGCTGGAATTGAACAACCACGACCGCCCTGCTCCGCCGCCGCCACCGGAACAGGCCAGCCGCCTG
CTCGGCGACTCCAGCGCGATGGAGAGCCTGCGCGCCACCATCGGCAAGGTGGCGCGCAGTCAGGCGCCGGTCTACATCGT
CGGCGAATCCGGGGTGGGCAAGGAGCTGGTTGCACGCACCATCCACGAACAAGGCGCACGCGCCGCCGGCCCGTTCGTGC
CGGTCAACTGCGGCGCCATTCCCGCCGAGCTGATGGAAAGCGAATTCTTCGGCCACAAGAAAGGCAGCTTCACCGGCGCG
CATGCCGACAAGCCCGGGCTGTTCCAGGCCGCGCACGGCGGCACCTTGTTCCTGGACGAAGTGGCCGAATTGCCGTTGCA
GATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGTCCGGTCGGCGCCTCCGGCGAAACCCTGGTGGACG
TACGCATCCTGTCGGCCACCCACAAGAACCTGGGCGACCTGGTCTCCGACGGCCGTTTTCGACACGATCTGTACTACCGC
ATCAACGTGATCGAACTGCGCGTGCCGCCGCTGCGCGAACGCGGCGGCGACTTGCCGCAGCTGGCCGCTGCCATCATCGC
GCGCCTGGCGCACAGCCACGGCCGCACCATTCCACTGCTGACCCAATCCGCGCTCGACGCACTGGATCACTACGGCTTCC
CCGGCAACGTGCGCGAACTGGAAAACATCCTTGAACGCGCCCTTGCCCTGGCCGAAGACGACCAGATCAGCGCCACCGAC
CTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCACACCCGGCAGCGCCGCCGTGGAACCACGCGAAGCCGTCGT
CGACATCGACCCCGCCTCGGCCGCCCTACCCTCCTACATCGAACAACTGGAACGCGCCGCGATCCAGAAAGCGCTGGAAG
AAAACCGCTGGAACAAGACCAAGACCGCCGCGCAGTTGGGTATCACGTTTCGGGCGCTGCGTTACAAGCTCAAGAAGTTG
GGGATGGAGTGA

Domains

Predicted by InterproScan.

Bacterial regulatory protein, Fis family (HTH_8)

(440-480)

Sigma-54 interaction domain (Sigma54_activat)

(161-326)

Response regulator receiver domain (Response_reg)

(28-134)


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
  pilR Pseudomonas aeruginosa PAK

62.987

95.652

0.602
  pilR Acinetobacter baumannii strain A118

48.268

95.652

0.462

Multiple sequence alignment