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PangenomeTIGR4
serotype 4
D39
serotype 2
D39V
serotype 2
Hungary19A-6
serotype 19A
EF3030
serotype 19F
670-6B
serotype 6B
6A-10
serotype 6A
70585
serotype 5
A026
serotype 19F
A66
serotype 3
AP200
serotype 11A
ASP0581
serotype 12F
ATCC 49619
serotype 19F
ATCC 700669
serotype 23F
BM6001
serotype 19F
BVJ1JL
serotype 1
CGSP14
serotype 14
G54
serotype 19F
HU-OH
serotype 3
Hu15
serotype 19A
Hu17
serotype 19A
INV104
serotype 1
INV200
serotype 14
JJA
serotype 14
MDRSPN001
serotype 19F
NCTC7465
serotype 1
NCTC7466
serotype 2
NU83127
serotype 4
OXC141
serotype 3
P1031
serotype 1
R6
serotype 2
SP49
serotype 19A
SPN032672
serotype 1
SPN034156
serotype 3
SPN034183
serotype 3
SPN994038
serotype 3
SPN994039
serotype 3
SPNA45
serotype 3
ST556
serotype 19F
TCH8431/19A
serotype 19A
Taiwan19F-14
serotype 19F
Xen35
serotype 4
gamPNI0373
serotype 1

NCBI: 08-APR-2025

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae BVJ1JL
  • locus tag: JN057_RS03540 [old locus tag: JN057_00724 ]
  • pan locus tag?: PNEUPAN001649000
  • symbol: JN057_RS03540
  • pan gene symbol?: copY
  • synonym:
  • product: CopY/TcrY family copper transport repressor

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JN057_RS03540 [old locus tag: JN057_00724 ]
  • symbol: JN057_RS03540
  • product: CopY/TcrY family copper transport repressor
  • replicon: chromosome
  • strand: +
  • coordinates: 683127..683522
  • length: 396
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: NZ_CP071871 (683127..683522) NCBI
  • BioCyc:
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_0633 PneumoBrowse

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    ATGCAGATTTCAGATGCAGAATGGCAGGTCATGAAGATTATTTGGATGCAGGGGGAGCAG
    ACCAGTACAGATTTGATTAGGGTTTTGGCAGAGCGGTTCGACTGGTCCAAGTCGACCATT
    CAAACTCTTTTGGCTCGTTTGGTTGAGAAAGAGTGTCTGACTCGGAAAAAAGAAGGCAAG
    TCCTTTGTTTATTCAGCGCTTTTAACTCTAGACCAAAGTCGGGATTTACTTGTCCAAGAT
    ATCAAAGACAAGGTTTGTTCCCGTAGGATTAGGAATTTGTTGGCTGACTTGATTGTAGAA
    TGTGAATTTACTCAGACTGACTTGGAAGACTTGGAAGCTGTGATTTCAGAGAAGAAATCA
    AGTGCTGTAACAGAAGTAAGATGTAATTGTATGTAA
    60
    120
    180
    240
    300
    360
    396

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JN057_RS03540 [old locus tag: JN057_00724 ]
  • symbol: JN057_RS03540
  • description: CopY/TcrY family copper transport repressor
  • length: 131
  • theoretical pI: 4.82818
  • theoretical MW: 15162.5
  • GRAVY: -0.206107

⊟Function[edit | edit source]

  • TIGRFAM:
    Metabolism Transport and binding proteins Cations and iron carrying compounds copper transport repressor, CopY/TcrY family (TIGR02698; HMM-score: 181.8)
    Signal transduction Regulatory functions DNA interactions copper transport repressor, CopY/TcrY family (TIGR02698; HMM-score: 181.8)
    and 3 more
    Metabolism Energy metabolism Amino acids and amines histidine utilization repressor (TIGR02018; HMM-score: 19.2)
    Signal transduction Regulatory functions DNA interactions histidine utilization repressor (TIGR02018; HMM-score: 19.2)
    Signal transduction Regulatory functions DNA interactions CRISPR locus-related DNA-binding protein (TIGR01884; HMM-score: 15.6)
  • TheSEED: data available for D39, Hungary19A-6, TIGR4
  • PFAM:
    HTH (CL0123) Penicillinase_R; Penicillinase repressor (PF03965; HMM-score: 113.9)
    and 17 more
    MarR; MarR family (PF01047; HMM-score: 29.1)
    MarR_2; MarR family (PF12802; HMM-score: 27.8)
    PaaX; PaaX-like protein (PF07848; HMM-score: 18.2)
    TrmB; Sugar-specific transcriptional regulator TrmB (PF01978; HMM-score: 18.1)
    HTH_24; Winged helix-turn-helix DNA-binding (PF13412; HMM-score: 16.6)
    GntR; Bacterial regulatory proteins, gntR family (PF00392; HMM-score: 16.3)
    HTH_20; Helix-turn-helix domain (PF12840; HMM-score: 15.9)
    HTH_IclR; IclR helix-turn-helix domain (PF09339; HMM-score: 14.8)
    ANAPC2; Anaphase promoting complex (APC) subunit 2 (PF08672; HMM-score: 14.5)
    Cullin_Nedd8; Cullin protein neddylation domain (PF10557; HMM-score: 14.3)
    HTH_27; Winged helix DNA-binding domain (PF13463; HMM-score: 13.7)
    Fe_dep_repress; Iron dependent repressor, N-terminal DNA binding domain (PF01325; HMM-score: 13.6)
    no clan defined GPP34; Golgi phosphoprotein 3 (GPP34) (PF05719; HMM-score: 13.5)
    HTH (CL0123) SMC_ScpB; Segregation and condensation complex subunit ScpB (PF04079; HMM-score: 13.2)
    TBPIP; TBPIP/Hop2 winged helix domain (PF07106; HMM-score: 13.2)
    no clan defined PilZN; Flagellar regulator YcgR, PilZN domain (PF07317; HMM-score: 13)
    Ferritin (CL0044) DUF2202; Uncharacterized protein domain (DUF2202) (PF09968; HMM-score: 12.9)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • genes regulated by 
    CopYTF important in Copper homeostasis: in D39V
    CopY*TF important in Copper homeostasis: in TIGR4

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9839
    • Cytoplasmic Membrane Score: 0.01
    • Cell wall & surface Score: 0.0003
    • Extracellular Score: 0.0058
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.004443
    • TAT(Tat/SPI): 0.000228
    • LIPO(Sec/SPII): 0.001044
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_001167208 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MQISDAEWQVMKIIWMQGEQTSTDLIRVLAERFDWSKSTIQTLLARLVEKECLTRKKEGKSFVYSALLTLDQSRDLLVQDIKDKVCSRRIRNLLADLIVECEFTQTDLEDLEAVISEKKSSAVTEVRCNCM

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

⊟Expression data[edit | edit source]

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

Sulman Shafeeq, Hasan Yesilkaya, Tomas G Kloosterman, Geetha Narayanan, Michal Wandel, Peter W Andrew, Oscar P Kuipers, Julie A Morrissey
The cop operon is required for copper homeostasis and contributes to virulence in Streptococcus pneumoniae.
Mol Microbiol: 2011, 81(5);1255-70
[PubMed:21736642] [WorldCat.org] [DOI] (I p)Miranda J Neubert, Elizabeth A Dahlmann, Andrew Ambrose, Michael D L Johnson
Copper Chaperone CupA and Zinc Control CopY Regulation of the Pneumococcal cop Operon.
mSphere: 2017, 2(5);
[PubMed:29062896] [WorldCat.org] [DOI] (P e)

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