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From PneumoWiki
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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: 22-NOV-2024

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⊟Summary[edit | edit source]

Contents

  • 1 Summary
  • 2 Genome View
  • 3 Gene
    • 3.1 General
    • 3.2 Accession numbers
    • 3.3 Phenotype
    • 3.4 DNA sequence
  • 4 Protein
    • 4.1 General
    • 4.2 Function
    • 4.3 Structure, modifications & cofactors
    • 4.4 Localization
    • 4.5 Accession numbers
    • 4.6 Protein sequence
    • 4.7 Experimental data
  • 5 Expression & Regulation
    • 5.1 Operon
    • 5.2 Regulation
    • 5.3 Expression data
  • 6 Biological Material
    • 6.1 Mutants
    • 6.2 Expression vector
    • 6.3 lacZ fusion
    • 6.4 GFP fusion
    • 6.5 two-hybrid system
    • 6.6 FLAG-tag construct
    • 6.7 Antibody
  • 7 Other Information
  • 8 Literature
    • 8.1 References
    • 8.2 Relevant publications
  • organism: Streptococcus pneumoniae gamPNI0373
  • locus tag: HMPREF1038_RS10725 [old locus tag: HMPREF1038_02182 ]
  • pan locus tag?: PNEUPAN003867000
  • symbol: adcR
  • pan gene symbol?: adcR
  • synonym:
  • product: zinc-dependent transcriptional regulator AdcR

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: HMPREF1038_RS10725 [old locus tag: HMPREF1038_02182 ]
  • symbol: adcR
  • product: zinc-dependent transcriptional regulator AdcR
  • replicon: chromosome
  • strand: -
  • coordinates: 1996182..1996622
  • length: 441
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: NC_018630 (1996182..1996622) NCBI
  • BioCyc: HMPREF1038_RS10725 BioCyc
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_2000 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
    421
    ATGAGACAGCTAGCAAAGGATATCAATGCTTTTTTGAATGAGGTGATTTTGCAGGCGGAA
    AATCAGCATGAAATCCTAATAGGTCATTGCACTAGCGAGGTGGCCCTGACCAATACTCAG
    GAGCATATCCTTATGCTCTTGTCAGAGGAATCTTTAACAAATTCAGAATTGGCCCGTCGT
    CTCAATGTCAGTCAGGCGGCAGTTACCAAGGCCATTAAGTCTTTGGTCAAGGAAGGGATG
    TTGGAAACATCTAAAGATTCTAAAGATGCGCGTGTGATTTTTTATCAGTTGACTGACTTG
    GCTCGTCCAATCGCTGAGGAGCACCACCATCACCATGAGCATACACTTTTAACCTATGAA
    CAAGTGGCGACTCAGTTTACTCCAAATGAACAAAAAGTGATTCAGCGGTTTTTGACTGCT
    TTAGTAGGAGAAATCAAATAA
    60
    120
    180
    240
    300
    360
    420
    441

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: HMPREF1038_RS10725 [old locus tag: HMPREF1038_02182 ]
  • symbol: AdcR
  • description: zinc-dependent transcriptional regulator AdcR
  • length: 146
  • theoretical pI: 6.2268
  • theoretical MW: 16605.8
  • GRAVY: -0.277397

⊟Function[edit | edit source]

  • ⊞TIGRFAM:
    homoprotocatechuate degradation operon regulator, HpaR (TIGR02337; HMM-score: 31.9)
    Signal transduction Regulatory functions DNA interactions staphylococcal accessory regulator family (TIGR01889; HMM-score: 29.4)
    and 17 more
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other iron-sulfur cluster biosynthesis transcriptional regulator SufR (TIGR02702; HMM-score: 22.5)
    Signal transduction Regulatory functions DNA interactions iron-sulfur cluster biosynthesis transcriptional regulator SufR (TIGR02702; HMM-score: 22.5)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DnaD family protein (TIGR04548; HMM-score: 21.5)
    RNA polymerase sigma factor, sigma-70 family (TIGR02937; HMM-score: 19.6)
    Metabolism Energy metabolism Amino acids and amines histidine utilization repressor (TIGR02018; HMM-score: 18.2)
    Signal transduction Regulatory functions DNA interactions histidine utilization repressor (TIGR02018; HMM-score: 18.2)
    Signal transduction Regulatory functions DNA interactions biotin operon repressor (TIGR00122; HMM-score: 17.5)
    EPS-associated transcriptional regulator, MarR family (TIGR04176; HMM-score: 17)
    RNA polymerase sigma-70 factor, Bacteroides expansion family 1 (TIGR02985; HMM-score: 16.5)
    Signal transduction Regulatory functions DNA interactions CRISPR locus-related DNA-binding protein (TIGR01884; HMM-score: 16.3)
    phosphonate utilization associated transcriptional regulator (TIGR03338; HMM-score: 15.6)
    mobile rSAM pair MarR family regulator (TIGR04472; HMM-score: 15.3)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair phage replication protein O, N-terminal domain (TIGR01610; HMM-score: 15.2)
    Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replication protein O, N-terminal domain (TIGR01610; HMM-score: 15.2)
    RNA polymerase sigma-70 factor, sigma-B/F/G subfamily (TIGR02980; HMM-score: 13.5)
    RNA polymerase sigma-70 factor, TIGR02952 family (TIGR02952; HMM-score: 13.4)
    Signal transduction Regulatory functions DNA interactions phenylacetic acid degradation operon negative regulatory protein PaaX (TIGR02277; HMM-score: 12.3)
  • TheSEED: see HMPREF1038_02182
  • ⊞PFAM:
    HTH (CL0123) MarR; MarR family (PF01047; HMM-score: 49.5)
    MarR_2; MarR family (PF12802; HMM-score: 41.5)
    HTH_27; Winged helix DNA-binding domain (PF13463; HMM-score: 40.5)
    and 47 more
    HTH_24; Winged helix-turn-helix DNA-binding (PF13412; HMM-score: 33.4)
    TrmB; Sugar-specific transcriptional regulator TrmB (PF01978; HMM-score: 30.5)
    HTH_5; Bacterial regulatory protein, arsR family (PF01022; HMM-score: 29.6)
    HTH_11; HTH domain (PF08279; HMM-score: 29.2)
    Fe_dep_repress; Iron dependent repressor, N-terminal DNA binding domain (PF01325; HMM-score: 29)
    GntR; Bacterial regulatory proteins, gntR family (PF00392; HMM-score: 24.3)
    HTH_Crp_2; Crp-like helix-turn-helix domain (PF13545; HMM-score: 23.8)
    Dimerisation2; Dimerisation domain (PF16864; HMM-score: 22.5)
    HTH_IclR; IclR helix-turn-helix domain (PF09339; HMM-score: 22.4)
    HTH_20; Helix-turn-helix domain (PF12840; HMM-score: 21.5)
    HTH_29; Winged helix-turn helix (PF13551; HMM-score: 21.1)
    PCI; PCI domain (PF01399; HMM-score: 20.1)
    Sigma70_r4; Sigma-70, region 4 (PF04545; HMM-score: 19.6)
    RPA_C; Replication protein A C terminal (PF08784; HMM-score: 19.1)
    Phage_rep_O; Bacteriophage replication protein O (PF04492; HMM-score: 19)
    Rrf2; Iron-dependent Transcriptional regulator (PF02082; HMM-score: 18.7)
    HTH_34; Winged helix DNA-binding domain (PF13601; HMM-score: 18.6)
    DUF4423; Domain of unknown function (DUF4423) (PF14394; HMM-score: 18.3)
    HxlR; HxlR-like helix-turn-helix (PF01638; HMM-score: 17.9)
    Sigma70_r4_2; Sigma-70, region 4 (PF08281; HMM-score: 17.6)
    HTH_6; Helix-turn-helix domain, rpiR family (PF01418; HMM-score: 17.4)
    HTH_36; Helix-turn-helix domain (PF13730; HMM-score: 16.2)
    HTH_1; Bacterial regulatory helix-turn-helix protein, lysR family (PF00126; HMM-score: 16.1)
    HTH_23; Homeodomain-like domain (PF13384; HMM-score: 15.9)
    HTH_AsnC-type; AsnC-type helix-turn-helix domain (PF13404; HMM-score: 15.9)
    UPF0122; Putative helix-turn-helix protein, YlxM / p13 like (PF04297; HMM-score: 15.4)
    HTH_PafC; PafC helix-turn-helix domain (PF19187; HMM-score: 15.1)
    SMC_Nse1; Nse1 non-SMC component of SMC5-6 complex (PF07574; HMM-score: 14.8)
    ESCRT-II; ESCRT-II complex subunit (PF05871; HMM-score: 14.3)
    PPP-I (CL0570) Pro-kuma_activ; Pro-kumamolisin, activation domain (PF09286; HMM-score: 13.9)
    HTH (CL0123) HTH_37; Helix-turn-helix domain (PF13744; HMM-score: 13.8)
    PheRS_DBD1; PheRS DNA binding domain 1 (PF18552; HMM-score: 13.8)
    EAP30; EAP30/Vps36 family (PF04157; HMM-score: 13.7)
    HTH_38; Helix-turn-helix domain (PF13936; HMM-score: 13.7)
    HTH_3; Helix-turn-helix (PF01381; HMM-score: 13.4)
    DUF2582; Winged helix-turn-helix domain (DUF2582) (PF10771; HMM-score: 13.3)
    DprA_WH; DprA winged helix domain (PF17782; HMM-score: 13.2)
    TetR_C (CL0174) TetR_C_24; Tetracyclin repressor-like, C-terminal domain (PF17932; HMM-score: 13.2)
    HTH (CL0123) PadR; Transcriptional regulator PadR-like family (PF03551; HMM-score: 13.1)
    HTH_9; RNA polymerase III subunit RPC82 helix-turn-helix domain (PF08221; HMM-score: 13.1)
    TFIIE_alpha; TFIIE alpha subunit (PF02002; HMM-score: 13)
    HTH_26; Cro/C1-type HTH DNA-binding domain (PF13443; HMM-score: 12.9)
    PaaX; PaaX-like protein (PF07848; HMM-score: 12.8)
    DUF1495; Winged helix DNA-binding domain (DUF1495) (PF07381; HMM-score: 12.7)
    Cullin_Nedd8; Cullin protein neddylation domain (PF10557; HMM-score: 12.4)
    HTH_41; Helix-turn-helix domain (PF14502; HMM-score: 12.2)
    no clan defined DUF2713; Protein of unknown function (DUF2713) (PF10897; HMM-score: 11.9)

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

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • genes regulated by AdcR, TF important in Zinc homeostasis: in TIGR4

⊟Localization[edit | edit source]

  • ⊞PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9951
    • Cytoplasmic Membrane Score: 0.0006
    • Cell wall & surface Score: 0.0003
    • Extracellular Score: 0.004
  • ⊞SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.008236
    • TAT(Tat/SPI): 0.000271
    • LIPO(Sec/SPII): 0.000489
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_001249319 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MRQLAKDINAFLNEVILQAENQHEILIGHCTSEVALTNTQEHILMLLSEESLTNSELARRLNVSQAAVTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPIAEEHHHHHEHTLLTYEQVATQFTPNEQKVIQRFLTALVGEIK

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • data available for TIGR4

⊟Expression data[edit | edit source]

  • PneumoExpress for strain D39V: SPV_2000 PneumoExpress

⊞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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

Ekaterina M Panina, Andrey A Mironov, Mikhail S Gelfand
Comparative genomics of bacterial zinc regulons: enhanced ion transport, pathogenesis, and rearrangement of ribosomal proteins.
Proc Natl Acad Sci U S A: 2003, 100(17);9912-7
[PubMed:12904577] [WorldCat.org] [DOI] (P p)Hermes Reyes-Caballero, Alfredo J Guerra, Faith E Jacobsen, Krystyna M Kazmierczak, Darin Cowart, Uma Mahendra Kumar Koppolu, Robert A Scott, Malcolm E Winkler, David P Giedroc
The metalloregulatory zinc site in Streptococcus pneumoniae AdcR, a zinc-activated MarR family repressor.
J Mol Biol: 2010, 403(2);197-216
[PubMed:20804771] [WorldCat.org] [DOI] (I p)Sulman Shafeeq, Tomas G Kloosterman, Oscar P Kuipers
Transcriptional response of Streptococcus pneumoniae to Zn2+) limitation and the repressor/activator function of AdcR.
Metallomics: 2011, 3(6);609-18
[PubMed:21603707] [WorldCat.org] [DOI] (I p)

Retrieved from "http://pneumowiki.med.uni-greifswald.de/index.php?title=HMPREF1038_RS10725&oldid=77234"
  • This page was last edited on 20 January 2022, at 16:01.
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