Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   LDJ84_RS05055 Genome accession   NZ_CP084413
Coordinates   1072437..1073774 (-) Length   445 a.a.
NCBI ID   WP_026079329.1    Uniprot ID   -
Organism   Pseudomonas sp. HS-18     
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 1069418..1088645 1072437..1073774 within 0


Gene organization within MGE regions


Location: 1069418..1088645
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDJ84_RS05035 (LDJ84_05035) pilV 1069418..1069978 (-) 561 WP_226045996.1 type IV pilus modification protein PilV -
  LDJ84_RS05040 (LDJ84_05040) - 1069975..1070454 (-) 480 WP_226045997.1 GspH/FimT family pseudopilin -
  LDJ84_RS05045 (LDJ84_05045) - 1070606..1071118 (-) 513 WP_226045998.1 GspH/FimT family pseudopilin -
  LDJ84_RS05050 (LDJ84_05050) thiO 1071314..1072423 (+) 1110 WP_226045999.1 glycine oxidase ThiO -
  LDJ84_RS05055 (LDJ84_05055) pilR 1072437..1073774 (-) 1338 WP_026079329.1 sigma-54-dependent transcriptional regulator Regulator
  LDJ84_RS05060 (LDJ84_05060) pilS 1073790..1075379 (-) 1590 WP_226046000.1 sensor histidine kinase Regulator
  LDJ84_RS05065 (LDJ84_05065) - 1075369..1075611 (-) 243 WP_226046556.1 PP0621 family protein -
  LDJ84_RS05070 (LDJ84_05070) - 1075767..1076792 (-) 1026 WP_226046001.1 outer membrane protein assembly factor BamD -
  LDJ84_RS05075 (LDJ84_05075) rluD 1076940..1077899 (+) 960 WP_226046002.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  LDJ84_RS05080 (LDJ84_05080) pgeF 1077896..1078621 (+) 726 WP_065084233.1 peptidoglycan editing factor PgeF -
  LDJ84_RS05085 (LDJ84_05085) - 1078855..1079850 (+) 996 Protein_1006 IS30 family transposase -
  LDJ84_RS05090 (LDJ84_05090) - 1081897..1082667 (+) 771 WP_226046003.1 hypothetical protein -
  LDJ84_RS05095 (LDJ84_05095) - 1082819..1083508 (+) 690 WP_226046004.1 inovirus Gp2 family protein -
  LDJ84_RS05100 (LDJ84_05100) radC 1083942..1084436 (-) 495 WP_226046005.1 RadC family protein -
  LDJ84_RS05105 (LDJ84_05105) - 1084654..1084974 (-) 321 WP_226046006.1 hypothetical protein -
  LDJ84_RS05110 (LDJ84_05110) - 1085019..1085468 (-) 450 WP_226046007.1 hypothetical protein -
  LDJ84_RS05115 (LDJ84_05115) - 1085612..1085974 (+) 363 WP_226046008.1 helix-turn-helix domain-containing protein -
  LDJ84_RS05120 (LDJ84_05120) - 1085976..1086539 (-) 564 WP_226046009.1 hypothetical protein -
  LDJ84_RS05125 (LDJ84_05125) - 1086632..1087573 (-) 942 WP_226046010.1 hydrolase or metal-binding protein -
  LDJ84_RS05130 (LDJ84_05130) - 1087650..1088645 (-) 996 WP_226046011.1 YqaJ viral recombinase family protein -

Sequence

Protein


Download         Length: 445 a.a.        Molecular weight: 49689.95 Da        Isoelectric Point: 5.6266

>NTDB_id=610975 LDJ84_RS05055 WP_026079329.1 1072437..1073774(-) (pilR) [Pseudomonas sp. HS-18]
MSRQKALIVDDEPDIRELLEITLGRMKLDTRSARNVKEARDFLAREPFDFCLTDMRLPDGTGLDLVQYIQQRHPQMPVAM
ITAFGSLDTAVQALKAGAFDFLTKPVDLARLRELVNTALRLRSPDAEEAPVDSRLLGDSPPMRTLRNQVAKLARSQAPVY
ISGESGSGKELVARLIHEQGPRESQTFVPVNCGAIPSELMESEFFGHKKGSFTGAVEDKLGLFQAANGGTLFLDEVADLP
LPMQVKLLRVIQEKAVRAVGGQQEVAVDVRILCATHKDLAAEVAAGRFRQDLYYRLNVIELRVPPLRERREDIPLLTDRV
LKRLAGDSGLAAASLSADALEKLKNYRFPGNVRELENMLERAYTLCENDVIQPHDLRLAETSTADSGGEASLAQIDNLED
YLEDIERKLIMQALEETRWNRTAAAQRLGLTFRSMRYRLKKLGID

Nucleotide


Download         Length: 1338 bp        

>NTDB_id=610975 LDJ84_RS05055 WP_026079329.1 1072437..1073774(-) (pilR) [Pseudomonas sp. HS-18]
ATGAGCCGTCAAAAAGCCCTGATCGTCGACGACGAACCCGACATCCGCGAGCTGCTGGAGATCACCCTCGGCCGCATGAA
GCTCGATACCCGCAGCGCCCGCAACGTCAAGGAGGCCCGCGACTTCCTCGCCCGCGAACCCTTCGACTTCTGCCTGACCG
ATATGCGCCTGCCCGATGGCACCGGCCTGGACCTGGTGCAGTACATCCAGCAGCGCCATCCGCAGATGCCGGTAGCGATG
ATCACCGCCTTCGGCAGCCTCGACACCGCCGTGCAGGCGCTCAAGGCCGGTGCCTTCGATTTCCTGACCAAGCCTGTGGA
CCTCGCTCGGCTCCGAGAGCTGGTGAACACAGCCCTGCGCCTGCGCTCCCCGGATGCCGAGGAGGCACCGGTGGACAGCC
GCCTGCTCGGCGACTCGCCGCCGATGCGCACCCTGCGCAACCAGGTGGCGAAGCTCGCGCGAAGCCAGGCGCCGGTGTAC
ATCAGCGGCGAGTCCGGCAGCGGCAAGGAGCTGGTGGCCCGGCTGATCCATGAGCAGGGCCCGCGCGAGAGCCAGACCTT
CGTGCCGGTCAACTGCGGCGCCATCCCCTCCGAGCTGATGGAAAGCGAATTCTTCGGCCACAAGAAAGGCAGCTTCACCG
GTGCGGTGGAAGACAAGCTCGGCCTGTTCCAGGCAGCGAACGGCGGCACCCTGTTCCTCGACGAAGTGGCCGACCTGCCA
TTGCCGATGCAGGTCAAACTGCTGCGCGTGATCCAGGAAAAAGCCGTGCGCGCCGTGGGCGGCCAGCAGGAGGTCGCAGT
GGATGTGCGAATCCTCTGCGCGACCCATAAGGACCTGGCCGCCGAAGTGGCCGCCGGCCGCTTCCGCCAGGACCTCTACT
ACCGTCTGAATGTCATCGAGCTGCGCGTTCCGCCGCTGCGCGAGCGCCGCGAAGACATCCCACTGCTGACCGACCGCGTG
CTCAAGCGCCTGGCCGGGGACAGCGGCCTGGCGGCCGCCTCGCTGAGCGCCGATGCACTGGAGAAGCTCAAGAACTACCG
CTTTCCCGGCAACGTGCGGGAACTGGAGAACATGCTGGAGCGCGCCTACACGCTCTGCGAAAACGACGTCATCCAGCCCC
ACGACCTGCGCCTGGCCGAGACCAGCACCGCGGACAGCGGCGGCGAGGCGAGCCTCGCGCAGATCGACAACCTCGAGGAC
TACCTCGAGGACATCGAGCGCAAGCTGATCATGCAGGCGTTGGAAGAGACGCGCTGGAACCGTACTGCGGCAGCGCAGCG
CCTGGGCCTGACCTTCCGCTCCATGCGCTACCGGCTGAAGAAACTGGGTATCGACTGA

Domains

Predicted by InterproScan.

Response regulator receiver domain (Response_reg)

(7-115)

Sigma-54 interaction domain (Sigma54_activat)

(136-301)

Bacterial regulatory protein, Fis family (HTH_8)

(402-442)


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

89.213

100

0.892
  pilR Acinetobacter baumannii strain A118

48.253

100

0.497