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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
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
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: 02-MAY-2018

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae D39
  • locus tag: SPD_0187 [new locus tag: SPD_RS01040 ]
  • pan locus tag?: PNEUPAN000936000
  • symbol: nrdD
  • pan gene symbol?: nrdD
  • synonym:
  • product: anaerobic ribonucleoside-triphosphate reductase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SPD_0187 [new locus tag: SPD_RS01040 ]
  • symbol: nrdD
  • product: anaerobic ribonucleoside-triphosphate reductase
  • replicon: chromosome
  • strand: +
  • coordinates: 191178..193385
  • length: 2208
  • essential: unknown

⊟Accession numbers[edit | edit source]

⊟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
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    ATGATTGCACTAGAAGAAAAAATTACAATTTTGCCAACTCTCTTCGTCGAGAAACGAGAT
    GGGAGACGTGTTGTATTTGATGTGGACAAGATTGACAAGGCTCTCCACACGGCGGCTGAC
    AAGGTTATGGATGTGACACCCCTGGTTGAAAAACGCCTCAATGATCTGACTGAGCGAATT
    ATTACAGAAATTCATAGTCGCTTTCCACAGGGAATTAAGATTTACGAAATTCAAAATATC
    GTAGAACATGAACTCCTTGAAGCCAAAGAATATGCGCTGGCTGAGGAGTATATTACTTAT
    CGGACACAGAGGGATTTTGAGCGCTCAAAAGCGACGGATATCAACTTTAGTATTCATAAA
    CTTCTCAACAAAGACCAGACAGTTGTCAATGAAAACGCTAATAAAGACAGTGATGTCTTT
    AACACTCAGCGTGATTTGACAGCAGGGATTGTTGGGAAATCAATCGGACTGCAAATGCTT
    CCTAAGCACGTAGCCAATGCCCACCAAAAGGGGGATATCCACTATCACGATTTGGACTAC
    AGTCCCTATACCCCTATGACCAACTGCTGTTTGATTGATTTTAAGGGTATGTTGGAAAAT
    GGTTTTAAGATTGGAAATGCAGAGGTAGAGAGTCCCAAGTCTATCCAGACTGCGACAGCA
    CAGATTTCTCAAATCATTGCCAACGTTGCTTCTAGCCAGTACGGTGGCTGTTCAGCTGAC
    CGTATCGATGAAATTTTGGCGCCTTATGCAGAGAAGAATTATCAAAAACATCTCAAAGAT
    GCAGAAGAGTGGGTATTGCCTGAAAAACAGGAAGATTACGCTTGGAAGAAAGCGCAAAAG
    GACATCTACGATGCCATGCAATCTCTTGAGTATGAAATCAATACTCTCTTCACTTCAAAT
    GGACAAACACCTTTTACTTCGTTAGGTTTTGGTCTGGGAACCAGTCGTTTTGAACGAGAA
    ATTCAAAAAGCTATTTTAAACATTCGCATCAAGGGTCTTGGTTCAGAACACCGTACGGCT
    ATCTTTCCTAAACTTATCTTTACGCTTAAAAGAGGCCTCAACTTAGAGGAAGGAACTCCC
    AACTATGACATCAAGCAGTTGGCTCTAGAGTGTGCAACCAAGCGGATGTATCCAGACGTC
    TTGTCTTATGATAAGATTGTTGATTTGACAGGTTCTTTCAAGGTGCCTATGGGCTGCCGT
    TCTTTCCTTCAAGGGTGGAAGGATGAAAATGGTGTAGAAGTCAATTCAGGTCGCATGAAT
    CTGGGTGTTGTGACGGTTAATCTGCCTCGTATTGCTCTTGAGTCTGAAGGTGATATGAAT
    AAGTTCTGGGAAATCTTCAACGAGCGAATGAATATCGCAGAAGATGCTCTTGTTTACCGT
    GTCGAACGCACTAAAGAGGCGACACCAGCGAATGCTCCTATCCTTTATCAGTACGGTGCT
    TTTGGCCATCGTCTAGGTAAAGAAGAAAGTGTTGACCAGCTCTTTAAGAATCGTCGGGCG
    ACCGTTTCGCTGGGCTATATCGGCTTGTATGAAGTAGCGACAGTTTTCTTTGGTAACAGC
    TGGGAAAGTAATCCAGATGCTAAGGAATTCACGCTAGACATCATTCACGATATGAAACGC
    CGTGTAGAAGAGTGGTCAGACCAATATGGCTACCATTTCTCTATCTACTCAACACCATCC
    GAAAGTCTGACAGACCGTTTCTGCCGACTAGATATAGACAAGTTTGGCTCTATTCCTGAT
    ATCACAGACAAGGAATACTACACCAACTCTTTCCACTACGATGTTCGTAAAAATCCAACA
    CCGTTTGAAAAATTGGACTTTGAGAAAGTCTATCCAGAAGCAGGTGCGTCAGGTGGTTTC
    ATCCATTATTGTGAGTATCCAGTCCTTCAGCAAAATCCAAAGGCCTTGGAAGCTGTCTGG
    GATTATGCTTATGACCGTGTAGGCTATCTAGGCACCAATACTCCGATTGACCGTTGCTAC
    AAGTGTGACTTTGAAGGGGATTTTGAACCAACTGAGAGAGGGTTTGCTTGTCCAAACTGT
    GGCAATAGCGATCCTAAAACAGTAGACGTTGTTAAACGGACTTGTGGCTATCTTGGCAAT
    CCTCAAGCGAGACCAATGGTTAACGGGCGTCACAAGGAAATCGCTGCGCGTGTCAAACAT
    ATGAATGGTTCAACGATTAAAATAGCTGGGCATCAAGTAACAAATTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2208

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPD_0187 [new locus tag: SPD_RS01040 ]
  • symbol: NrdD
  • description: anaerobic ribonucleoside-triphosphate reductase
  • length: 735
  • theoretical pI: 5.67326
  • theoretical MW: 83804.1
  • GRAVY: -0.513605

⊟Function[edit | edit source]

  • reaction:
    EC 1.17.4.2?  ExPASy
    Ribonucleoside-triphosphate reductase (thioredoxin) 2'-deoxyribonucleoside triphosphate + thioredoxin disulfide + H2O = ribonucleoside triphosphate + thioredoxin
  • TIGRFAM:
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase (TIGR02487; EC 1.17.4.2; HMM-score: 603.7)
    and 3 more
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase (TIGR02827; EC 1.17.4.2; HMM-score: 54.9)
    radical SAM-linked protein (TIGR03936; HMM-score: 12.1)
    Signal transduction Regulatory functions DNA interactions transcriptional regulator NrdR (TIGR00244; HMM-score: 9.5)
  • TheSEED  :
    • Ribonucleoside-triphosphate reductase (formate) (EC 1.1.98.6)
    Nucleosides and Nucleotides Nucleosides and Nucleotides - no subcategory Ribonucleotide reduction  Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2)
  • PFAM:
    PFL-like (CL0339) NRDD; Anaerobic ribonucleoside-triphosphate reductase (PF13597; HMM-score: 615)
    and 4 more
    no clan defined ATP-cone; ATP cone domain (PF03477; HMM-score: 74.7)
    PFL-like (CL0339) Gly_radical; Glycine radical (PF01228; HMM-score: 74.4)
    PseudoU_synth (CL0649) DUF2344; Uncharacterized protein conserved in bacteria (DUF2344) (PF10105; HMM-score: 15.6)
    no clan defined Anti-TRAP; Tryptophan RNA-binding attenuator protein inhibitory protein (PF15777; HMM-score: 10.7)

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

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟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
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.003459
    • TAT(Tat/SPI): 0.000158
    • LIPO(Sec/SPII): 0.000807
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MIALEEKITILPTLFVEKRDGRRVVFDVDKIDKALHTAADKVMDVTPLVEKRLNDLTERIITEIHSRFPQGIKIYEIQNIVEHELLEAKEYALAEEYITYRTQRDFERSKATDINFSIHKLLNKDQTVVNENANKDSDVFNTQRDLTAGIVGKSIGLQMLPKHVANAHQKGDIHYHDLDYSPYTPMTNCCLIDFKGMLENGFKIGNAEVESPKSIQTATAQISQIIANVASSQYGGCSADRIDEILAPYAEKNYQKHLKDAEEWVLPEKQEDYAWKKAQKDIYDAMQSLEYEINTLFTSNGQTPFTSLGFGLGTSRFEREIQKAILNIRIKGLGSEHRTAIFPKLIFTLKRGLNLEEGTPNYDIKQLALECATKRMYPDVLSYDKIVDLTGSFKVPMGCRSFLQGWKDENGVEVNSGRMNLGVVTVNLPRIALESEGDMNKFWEIFNERMNIAEDALVYRVERTKEATPANAPILYQYGAFGHRLGKEESVDQLFKNRRATVSLGYIGLYEVATVFFGNSWESNPDAKEFTLDIIHDMKRRVEEWSDQYGYHFSIYSTPSESLTDRFCRLDIDKFGSIPDITDKEYYTNSFHYDVRKNPTPFEKLDFEKVYPEAGASGGFIHYCEYPVLQQNPKALEAVWDYAYDRVGYLGTNTPIDRCYKCDFEGDFEPTERGFACPNCGNSDPKTVDVVKRTCGYLGNPQARPMVNGRHKEIAARVKHMNGSTIKIAGHQVTN

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: NrdR* (repression) regulon, ComX1 regulon
    NrdR*(TF)important in Deoxyribonucleotide biosynthesis; RegPrecise 
    ComX1(sigma factor)controls the expression of late competence genes [1]

⊟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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Jelle Slager, Rieza Aprianto, Jan-Willem Veening
    Refining the Pneumococcal Competence Regulon by RNA Sequencing.
    J Bacteriol: 2019, 201(13);
    [PubMed:30885934] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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