From PneumoWiki
Jump to navigation Jump to search
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: 02-MAY-2018

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae D39
  • locus tag: SPD_0736 [new locus tag: SPD_RS03965 ]
  • pan locus tag?: PNEUPAN001791000
  • symbol: pdp
  • pan gene symbol?: pdp
  • synonym:
  • product: pyrimidine-nucleoside phosphorylase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SPD_0736 [new locus tag: SPD_RS03965 ]
  • symbol: pdp
  • product: pyrimidine-nucleoside phosphorylase
  • replicon: chromosome
  • strand: +
  • coordinates: 748003..749280
  • length: 1278
  • 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
    ATGAGAGCAGTTGATTTAATACAAAAAAAACGAGACGGTCAAGAACTGACTTCAAGTGAA
    ATTGAATGGCTGGTAGAAGGCTATGTGTCAGGAACTGTTCCTGATTATCAGATGTCTGCC
    TTTGCTATGGCTGTTTATTTTAAAGGAATGACGACTCGAGAAATCTCTGATTTAACGATG
    AATATGGTTAAGACTGGGCAAGAGTTTGACCTGTCAGCCATTGATGGTGTGAAAGTTAAC
    AAGCATTCTACTGGTGGTGTCGGCGATAAGGTAACCTTGATTTTAGTTCCTCTTGTTGCT
    AGCTTCGGTGTGCCTGTAGCAAAAATGAGTGGTCGTGGTCTTGGCCATACAGGCGGAACA
    ATTGATAAATTGGAGTCCATTAAGGGCTATCAAGTAGAACGTAGTCAAGAGGATTTTATT
    CGTCAGGTTCAGGATATTGGAGTATCTGTCATTGGGCAATCAGACCAGCTGGTCAAAGCA
    GATAAGCTTCTCTATGCCCTTCGTGATGTGACCGCAACTGTCGACACGATTCCTTTGATT
    GCGAGTTCGGTGATGAGCAAGAAAATTGCGGCAGGGGCGGATGCTATTTTGCTAGACGTG
    ACTGTCGGTGAGGGTGCCTTCATGAAGACGGTTGATGAGGCGCGTGAGTTGGCTCAAACT
    ATGGTAGATCTTGGTAAGGTTGTTGGACGGAAGACAGTAGCAGTGATTACGGATATGAGC
    CAGCCTTTGGGACGAGCGATTGGAAATCGTCTGGAAATCCTTGAAGCATTGGAGATTTTG
    CAAGGTCAAGGACGTCAGGATATTACCCACTTTATTTGTGAATTGGCTCAAATTATGCTT
    GGTTTGGCAAATGTTAACAAAACTGTTGAAGAAGTTCGCCAACATCTTGAGAATGGTCAA
    GCACTGGCTAAGTTTGAGGAAATGGTGCAAGCCCAAGGTGGAGACTTGGAAGACCTCTAT
    CGTCCTGTAAATGTAGCTCATGTGGTGGAAATCCCTGCTCAGGAAACGGGTGTCATTTCA
    GCTCTTCCAGCTATGGACTTTGGTCTTTATGCCATGAGGCTGGGTGCTGGTCGTGCAGTT
    AAGTCTGATGCCTTGGACTATGAAACAGGAATTGTTTTTGAAAAGAAGATTGGAGACTCC
    GTTCAAAAGGGTGAAATTGTTGCAAAAGTATACACAAATGAAAAAATTCCACCTCAACTA
    GTTACAGATTTCCAAAAATGTGTTAAAATAAGTGATGAAGTAAAAAAAATCCGTGAAATT
    GTAGAAATCATCTCCTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1278

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPD_0736 [new locus tag: SPD_RS03965 ]
  • symbol: Pdp
  • description: pyrimidine-nucleoside phosphorylase
  • length: 425
  • theoretical pI: 4.81504
  • theoretical MW: 46158.9
  • GRAVY: 0.0174118

⊟Function[edit | edit source]

  • reaction:
    EC 2.4.2.2?  ExPASy
    Pyrimidine-nucleoside phosphorylase Uridine + phosphate = uracil + alpha-D-ribose 1-phosphate Thymidine + phosphate = thymine + 2-deoxy-alpha-D-ribose 1-phosphate 2'-deoxyuridine + phosphate = uracil + 2-deoxy-alpha-D-ribose 1-phosphate
  • TIGRFAM:
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other pyrimidine-nucleoside phosphorylase (TIGR02644; EC 2.4.2.2; HMM-score: 561.7)
    and 5 more
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other thymidine phosphorylase (TIGR02643; EC 2.4.2.4; HMM-score: 372.2)
    AMP phosphorylase (TIGR03327; EC 2.4.-.-; HMM-score: 229.4)
    putative thymidine phosphorylase (TIGR02645; EC 2.4.2.4; HMM-score: 222.1)
    Metabolism Amino acid biosynthesis Aromatic amino acid family anthranilate phosphoribosyltransferase (TIGR01245; EC 2.4.2.18; HMM-score: 46.5)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair nucleoside triphosphatase YtkD (TIGR02705; EC 3.6.1.-; HMM-score: 12.1)
  • TheSEED  :
    • Pyrimidine-nucleoside phosphorylase (EC 2.4.2.2)
    Carbohydrates Monosaccharides Deoxyribose and Deoxynucleoside Catabolism  Pyrimidine-nucleoside phosphorylase (EC 2.4.2.2)
    and 1 more
    Nucleosides and Nucleotides Pyrimidines pyrimidine conversions  Pyrimidine-nucleoside phosphorylase (EC 2.4.2.2)
  • PFAM:
    no clan defined Glycos_transf_3; Glycosyl transferase family, a/b domain (PF00591; HMM-score: 134.1)
    and 6 more
    Glycos_trans_3N; Glycosyl transferase family, helical bundle domain (PF02885; HMM-score: 83.5)
    Hybrid (CL0105) PYNP_C; Pyrimidine nucleoside phosphorylase C-terminal domain (PF07831; HMM-score: 82.1)
    DUF2254; Predicted membrane protein (DUF2254) (PF10011; HMM-score: 13.2)
    no clan defined DUF3349; Protein of unknown function (DUF3349) (PF11829; HMM-score: 13.1)
    DUF2959; Protein of unknown function (DUF2959) (PF11172; HMM-score: 12.6)
    CmlA_N; Diiron non-heme beta-hydroxylase N-terminal domain (PF18456; HMM-score: 11.6)

⊟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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9986
    • Cytoplasmic Membrane Score: 0.0006
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0007
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.004293
    • TAT(Tat/SPI): 0.000498
    • LIPO(Sec/SPII): 0.000485
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MRAVDLIQKKRDGQELTSSEIEWLVEGYVSGTVPDYQMSAFAMAVYFKGMTTREISDLTMNMVKTGQEFDLSAIDGVKVNKHSTGGVGDKVTLILVPLVASFGVPVAKMSGRGLGHTGGTIDKLESIKGYQVERSQEDFIRQVQDIGVSVIGQSDQLVKADKLLYALRDVTATVDTIPLIASSVMSKKIAAGADAILLDVTVGEGAFMKTVDEARELAQTMVDLGKVVGRKTVAVITDMSQPLGRAIGNRLEILEALEILQGQGRQDITHFICELAQIMLGLANVNKTVEEVRQHLENGQALAKFEEMVQAQGGDLEDLYRPVNVAHVVEIPAQETGVISALPAMDFGLYAMRLGAGRAVKSDALDYETGIVFEKKIGDSVQKGEIVAKVYTNEKIPPQLVTDFQKCVKISDEVKKIREIVEIIS

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription[edit | edit source]

  • transcription start site:

⊟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]

Retrieved from "http://pneumowiki.med.uni-greifswald.de/index.php?title=SPD_0736&oldid=7319"