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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: 31-JAN-2014

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae TIGR4
  • locus tag: SP_1000 [new locus tag: SP_RS04960 ]
  • pan locus tag?: PNEUPAN002003000
  • symbol: SP_1000
  • pan gene symbol?: sdbB
  • synonym:
  • product: thioredoxin family protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SP_1000 [new locus tag: SP_RS04960 ]
  • symbol: SP_1000
  • product: thioredoxin family protein
  • replicon: chromosome
  • strand: +
  • coordinates: 940874..941431
  • length: 558
  • 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
    ATGAAAAAAGTAATGTTTGCTGGCTTAAGTCTCTTGTCATTAGTTGTATTGATGGCCTGT
    GGTGAGGAAGAAACTAAAAAGACTCAAGCAGCACAACAGCCAAAACAACAAACGACTGTA
    CAACAAATTGCTGTTGGAAAAGATGCTCCAGACTTCACATTGCAATCCATGGATGGCAAA
    GAAGTTAAGTTATCTGATTTTAAGGGTAAAAAGGTTTACTTGAAGTTTTGGGCTTCATGG
    TGTGGTCCATGCAAGAAAAGTATGCCAGAGTTGATGGAACTAGCGGCGAAACCAGATCGT
    GATTTCGAAATTCTTACTGTCATTGCACCAGGAATTCAAGGTGAAAAAACTGTTGAGCAA
    TTCCCACAATGGTTCCAGGAACAAGGATATAAGGATATCCCAGTTCTTTATGATACCAAA
    GCAACCACCTTCCAAGCTTATCAAATTCGAAGCATTCCTACAGAATATTTAATTGATAGC
    CAAGGAAAGATTGGAAAGATTCAATTTGGTGCTATCAGTAATGCGGATGCAGAAGCAGCA
    TTTAAAGAAATGAACTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    558

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SP_1000 [new locus tag: SP_RS04960 ]
  • symbol: SP_1000
  • description: thioredoxin family protein
  • length: 185
  • theoretical pI: 6.64619
  • theoretical MW: 20701.8
  • GRAVY: -0.329189

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Protein folding and stabilization periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily (TIGR00385; HMM-score: 47.4)
    Metabolism Energy metabolism Electron transport thioredoxin (TIGR01068; HMM-score: 42.3)
    and 9 more
    Genetic information processing Protein fate Protein folding and stabilization methylamine dehydrogenase accessory protein MauD (TIGR02661; HMM-score: 27.8)
    Metabolism Energy metabolism Amino acids and amines methylamine dehydrogenase accessory protein MauD (TIGR02661; HMM-score: 27.8)
    Genetic information processing Protein fate Protein folding and stabilization protein disulfide-isomerase domain (TIGR01126; HMM-score: 26.7)
    protein disulfide isomerase (TIGR01130; HMM-score: 24.7)
    type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB (TIGR02738; HMM-score: 20.4)
    TraF-like protein (TIGR02740; HMM-score: 16.7)
    small lipoprotein, LB_250 family (TIGR04454; HMM-score: 16)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other Fe-S cluster assembly protein NifU (TIGR02000; HMM-score: 12.5)
    Metabolism Central intermediary metabolism Nitrogen fixation Fe-S cluster assembly protein NifU (TIGR02000; HMM-score: 12.5)
  • TheSEED  :
    • Thiol:disulfide oxidoreductase related to ResA
    Respiration Respiration - no subcategory Biogenesis of c-type cytochromes  Thiol:disulfide oxidoreductase related to ResA
  • PFAM:
    Thioredoxin (CL0172) Redoxin; Redoxin (PF08534; HMM-score: 79.3)
    AhpC-TSA; AhpC/TSA family (PF00578; HMM-score: 77)
    and 6 more
    Thioredoxin_8; Thioredoxin-like (PF13905; HMM-score: 43.7)
    Thioredoxin; Thioredoxin (PF00085; HMM-score: 40.2)
    Thioredoxin_2; Thioredoxin-like domain (PF13098; HMM-score: 30.2)
    GSHPx; Glutathione peroxidase (PF00255; HMM-score: 17.7)
    SCO1-SenC; SCO1/SenC (PF02630; HMM-score: 13.1)
    no clan defined IMP2_N; Immune Mapped Protein 2 (IMP2) N-terminal domain (PF18590; HMM-score: 12.9)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cellwall
    • Cytoplasmic Score: 0.01
    • Cytoplasmic Membrane Score: 0.53
    • Cellwall Score: 8.75
    • Extracellular Score: 0.7
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0.0001
    • Cytoplasmic Membrane Score: 0.9052
    • Cell wall & surface Score: 0.0214
    • Extracellular Score: 0.0733
  • SignalP: Signal peptide LIPO(Sec/SPII) length 19 aa
    • SP(Sec/SPI): 0.002487
    • TAT(Tat/SPI): 0.000048
    • LIPO(Sec/SPII): 0.997319
    • Cleavage Site: CS pos: 19-20. LMA-CG. Pr: 0.9978
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKKVMFAGLSLLSLVVLMACGEEETKKTQAAQQPKQQTTVQQIAVGKDAPDFTLQSMDGKEVKLSDFKGKKVYLKFWASWCGPCKKSMPELMELAAKPDRDFEILTVIAPGIQGEKTVEQFPQWFQEQGYKDIPVLYDTKATTFQAYQIRSIPTEYLIDSQGKIGKIQFGAISNADAEAAFKEMN

⊟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]

  1. ↑ 1.0 1.1 Indu Warrier, Nikhil Ram-Mohan, Zeyu Zhu, Ariana Hazery, Haley Echlin, Jason Rosch, Michelle M Meyer, Tim van Opijnen
    The Transcriptional landscape of Streptococcus pneumoniae TIGR4 reveals a complex operon architecture and abundant riboregulation critical for growth and virulence.
    PLoS Pathog: 2018, 14(12);e1007461
    [PubMed:30517198] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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