Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   ABFU45_RS05120 Genome accession   NZ_CP155958
Coordinates   1232588..1233982 (-) Length   464 a.a.
NCBI ID   WP_012437607.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6806     
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 1207671..1238924 1232588..1233982 within 0


Gene organization within MGE regions


Location: 1207671..1238924
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU45_RS05000 (ABFU45_04995) - 1207671..1207817 (+) 147 WP_116889157.1 hypothetical protein -
  ABFU45_RS05005 (ABFU45_05000) - 1208002..1208397 (+) 396 WP_011038225.1 hypothetical protein -
  ABFU45_RS05010 (ABFU45_05005) - 1208488..1208880 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  ABFU45_RS05015 (ABFU45_05010) glgX 1209406..1211535 (-) 2130 WP_228943906.1 glycogen debranching protein GlgX -
  ABFU45_RS05020 (ABFU45_05015) rimK 1212031..1212906 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU45_RS05025 (ABFU45_05020) - 1213129..1213602 (+) 474 WP_012437597.1 hypothetical protein -
  ABFU45_RS05030 (ABFU45_05025) - 1213633..1214310 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU45_RS05035 (ABFU45_05030) - 1214303..1215637 (+) 1335 WP_012437598.1 HAMP domain-containing sensor histidine kinase -
  ABFU45_RS05040 (ABFU45_05035) - 1215780..1216271 (-) 492 WP_323534157.1 GNAT family N-acetyltransferase -
  ABFU45_RS05045 (ABFU45_05040) - 1216268..1216558 (-) 291 WP_014508712.1 DUF1778 domain-containing protein -
  ABFU45_RS05050 (ABFU45_05045) - 1216633..1217034 (-) 402 WP_181921862.1 SymE family type I addiction module toxin -
  ABFU45_RS05055 (ABFU45_05050) coaE 1217566..1218189 (-) 624 WP_116901791.1 dephospho-CoA kinase -
  ABFU45_RS05060 (ABFU45_05055) - 1218203..1219066 (-) 864 WP_011038216.1 A24 family peptidase -
  ABFU45_RS05065 (ABFU45_05060) pilC 1219073..1220335 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  ABFU45_RS05070 (ABFU45_05065) pilA/pilAI 1220686..1221084 (+) 399 WP_407472941.1 pilin Machinery gene
  ABFU45_RS05075 (ABFU45_05070) - 1221185..1221607 (+) 423 WP_104570926.1 pilin -
  ABFU45_RS05080 (ABFU45_05075) - 1221666..1223486 (+) 1821 WP_147308815.1 hypothetical protein -
  ABFU45_RS05085 (ABFU45_05080) - 1223610..1224368 (+) 759 WP_323534158.1 class I SAM-dependent methyltransferase -
  ABFU45_RS05090 (ABFU45_05085) - 1224865..1225551 (+) 687 WP_258872788.1 glycosyltransferase family 9 protein -
  ABFU45_RS05095 (ABFU45_05090) - 1225554..1226396 (-) 843 WP_147308817.1 glycosyltransferase -
  ABFU45_RS05100 (ABFU45_05095) - 1226390..1227562 (-) 1173 WP_181920810.1 glycosyltransferase -
  ABFU45_RS05105 (ABFU45_05100) - 1227547..1228410 (-) 864 WP_116921534.1 glycosyltransferase -
  ABFU45_RS05110 (ABFU45_05105) - 1228460..1229311 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  ABFU45_RS05115 (ABFU45_05110) pilB 1229467..1231203 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU45_RS05120 (ABFU45_05115) pilR 1232588..1233982 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU45_RS05125 (ABFU45_05120) - 1234191..1235801 (-) 1611 WP_323534159.1 HAMP domain-containing sensor histidine kinase -
  ABFU45_RS05130 (ABFU45_05125) sucC 1236035..1237204 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU45_RS05135 (ABFU45_05130) sucD 1237229..1238104 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU45_RS05140 (ABFU45_05135) - 1238241..1238618 (+) 378 WP_323534162.1 DNA-binding protein -
  ABFU45_RS05145 (ABFU45_05140) - 1238622..1238924 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 50253.62 Da        Isoelectric Point: 6.3587

>NTDB_id=1000267 ABFU45_RS05120 WP_012437607.1 1232588..1233982(-) (pilR) [Xanthomonas campestris pv. raphani strain bglFP 6806]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISASDLRLPAHGGHRLAASPGTAA
VEPREAVVDIDPASSALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=1000267 ABFU45_RS05120 WP_012437607.1 1232588..1233982(-) (pilR) [Xanthomonas campestris pv. raphani strain bglFP 6806]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAATTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAGCTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCC
ATGATCACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGTGGCCTGGTCAAGCACGCACTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCCC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAGAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCCGGTGTGGGCAAGGAACTGGTGGCCCGCACCATCCACGAGCAGGGCGC
ACGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCGGCCGAGCTGATGGAGAGCGAGTTCTTCGGCCATA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAGCCCGGCCTGTTTCAGGCGGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTGCCGCTGCAGATGCAGGTCAAGCTGCTGCGCGCGATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
GTCGGGCGAGACGCTGGTGGACGTGCGCATTCTGTCGGCCACGCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTATTACCGCATCAACGTGATCGAACTCCGTGTGCCACCGCTGCGCGAGCGCAGTGGCGACCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCCCGCAGCCATGGCCGCCCGATTCCGCTGCTGACCCAGTCAGCCCTGGA
TGCATTGGATACTTACGGCTTTCCGGGCAACGTGCGCGAACTGGAAAACATCCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCCAGCGATCTGCGCCTACCCGCCCACGGCGGCCATCGCCTTGCCGCCAGCCCGGGCACCGCTGCG
GTTGAACCGCGCGAAGCGGTCGTCGACATCGACCCTGCCTCCTCCGCCCTGCCCTCGTACATCGAGCAACTCGAACGCGC
CGCGATCCAGAAGGCGCTAGAAGAAAACCGCTGGAACAAGACCAAGACTGCCGCGCAGCTCGGCATCACGTTTCGTGCGT
TGCGCTACAAGCTCAAGAAGTTGGGGATGGAGTAG

Domains

Predicted by InterproScan.

Response regulator receiver domain (Response_reg)

(8-115)

Bacterial regulatory protein, Fis family (HTH_8)

(421-461)

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

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

63.067

99.784

0.629
  pilR Acinetobacter baumannii strain A118

49.138

100

0.491

Multiple sequence alignment