Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   AMD13_RS16875 Genome accession   NZ_CP008995
Coordinates   3814717..3816111 (+) Length   464 a.a.
NCBI ID   WP_015463522.1    Uniprot ID   A0A7S6YVA4
Organism   Xanthomonas citri pv. citri strain NT17     
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 3795905..3816404 3814717..3816111 within 0


Gene organization within MGE regions


Location: 3795905..3816404
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AMD13_RS23985 (J169_03406) - 3795905..3797072 (+) 1168 Protein_3218 IS3 family transposase -
  AMD13_RS16810 (J169_03408) avrXacE2 3797832..3798902 (-) 1071 WP_011052114.1 type III secretion system effector avirulence protein AvrXacE2 -
  AMD13_RS16815 (J169_03409) - 3798987..3800264 (-) 1278 WP_011052115.1 lytic murein transglycosylase -
  AMD13_RS16820 (J169_03410) - 3800397..3803387 (-) 2991 WP_040107658.1 Tn3-like element TnXax1 family transposase -
  AMD13_RS16825 (J169_03411) - 3803396..3804670 (-) 1275 Protein_3222 site-specific integrase -
  AMD13_RS16835 (J169_03413) - 3804863..3805939 (+) 1077 WP_011052118.1 DNA-binding protein -
  AMD13_RS16840 (J169_03414) xopAI 3806073..3806963 (+) 891 WP_011052119.1 type III secretion system effector XopAI -
  AMD13_RS16845 (J169_03415) - 3807383..3808189 (-) 807 WP_015463520.1 hypothetical protein -
  AMD13_RS16850 (J169_03416) - 3808294..3808578 (+) 285 WP_016849322.1 hypothetical protein -
  AMD13_RS16855 (J169_03417) - 3808806..3809921 (+) 1116 WP_011052122.1 IS1595 family transposase -
  AMD13_RS23995 (J169_03418) - 3809876..3810391 (-) 516 WP_011052123.1 hypothetical protein -
  AMD13_RS16860 (J169_03419) sucD 3810478..3811353 (-) 876 WP_005921370.1 succinate--CoA ligase subunit alpha -
  AMD13_RS16865 (J169_03420) sucC 3811378..3812547 (-) 1170 WP_005915812.1 ADP-forming succinate--CoA ligase subunit beta -
  AMD13_RS16870 (J169_03421) - 3812779..3814392 (+) 1614 WP_003488599.1 HAMP domain-containing sensor histidine kinase -
  AMD13_RS16875 (J169_03422) pilR 3814717..3816111 (+) 1395 WP_015463522.1 sigma-54 dependent transcriptional regulator Regulator

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 50105.56 Da        Isoelectric Point: 6.6973

>NTDB_id=125992 AMD13_RS16875 WP_015463522.1 3814717..3816111(+) (pilR) [Xanthomonas citri pv. citri strain NT17]
MNEPKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLANNPYDLCLTDMRLPDGNGIELVTEIAKHYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDIGVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSSAMEILRATISKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFVPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASSESLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERGGDLP
QLAAAIIARLAHSHGRPIPLLTQSALDALNHYGFPGNVRELGNILERALALAEDDQISATDLRLPAHGGHRLAAPPGGAA
AEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=125992 AMD13_RS16875 WP_015463522.1 3814717..3816111(+) (pilR) [Xanthomonas citri pv. citri strain NT17]
ATGAACGAACCCAAAAGCGCCCTGGTTGTCGATGACGAGCGTGATATCCGCGAGTTGCTTGTTCTCACCCTGGGCCGCAT
GGGCCTGCGCATCAGCACTGCTGCCAACCTGGCCGAAGCGCGCGAGTTGCTGGCCAACAATCCCTACGATCTGTGCCTGA
CCGACATGCGTTTGCCGGACGGCAACGGCATCGAACTGGTCACCGAAATCGCAAAACACTATCCGCAGACGCCGGTGGCG
ATGATCACCGCGTTCGGCAGCATGGACCTGGCCGTGGAAGCACTGAAAGCCGGCGCCTTCGATTTCGTCAGCAAGCCGGT
CGACATCGGCGTACTGCGCGGCCTGGTCAAGCACGCGCTGGAATTGAACAACCGCGACCGCCCTGCTCCGCCACCGCCGC
CACCGGAACAGGCCAGCCGCCTGCTCGGCGACTCCAGTGCCATGGAAATCCTGCGCGCCACCATCAGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCGGGCGTGGGCAAGGAGCTGGTCGCACGCACCATCCACGAACAAGGCGC
ACGTGCCGCCGGCCCGTTCGTGCCGGTCAACTGCGGCGCCATTCCCGCCGAGCTGATGGAAAGCGAATTCTTCGGCCACA
AGAAAGGCAGCTTCACCGGCGCGCATGCCGACAAGCCCGGGCTGTTCCAGGCCGCGCATGGAGGCACGCTGTTTCTGGAC
GAAGTGGCCGAATTGCCGTTGCAGATGCAGGTCAAGCTGCTGCGCGCGATCCAGGAAAAGTCGGTGCGACCGGTCGGCGC
ATCCAGCGAATCGCTGGTGGATGTGCGCATCCTCTCGGCCACCCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGGCATGACCTGTACTACCGCATCAACGTGATCGAGTTGCGTGTGCCGCCGCTGCGCGAACGCGGTGGCGACCTGCCG
CAGCTGGCCGCTGCCATCATCGCGCGCCTGGCGCACAGCCACGGCCGCCCCATTCCGCTGCTGACCCAATCCGCACTCGA
CGCCTTGAATCACTACGGCTTCCCCGGCAACGTGCGCGAACTGGGAAACATCCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCTACCGACCTGCGCCTGCCCGCGCACGGGGGCCACCGGTTGGCCGCCCCCCCAGGAGGCGCCGCG
GCCGAACCGCGCGAAGCCGTCGTCGACATCGACCCCGCCTCGGCCGCGCTGCCTTCCTACATCGAGCAACTGGAACGCGC
CGCGATCCAGAAGGCGCTGGAAGAAAACCGCTGGAACAAGACCAAGACTGCTGCGCAGTTGGGCATCACGTTTCGGGCGC
TGCGTTACAAGCTGAAGAAGCTGGGGATGGAGTAG

Domains

Predicted by InterproScan.

Bacterial regulatory protein, Fis family (HTH_8)

(421-461)

Response regulator receiver domain (Response_reg)

(8-114)

Sigma-54 interaction domain (Sigma54_activat)

(142-307)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A7S6YVA4

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

62.851

99.784

0.627
  pilR Acinetobacter baumannii strain A118

49.138

100

0.491

Multiple sequence alignment