PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 26-AUG-2013

⊟Summary

• organism: Staphylococcus aureus N315
• locus tag: SA2312 [new locus tag: SA_RS13255 ]
• pan locus tag^?: SAUPAN006169000
• symbol: ddh
• pan gene symbol^?: ddh
• synonym:
• product: D-lactate dehydrogenase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SA2312 [new locus tag: SA_RS13255 ]
• symbol: ddh
• product: D-lactate dehydrogenase
• replicon: chromosome
• strand: +
• coordinates: 2596930..2597985
• length: 1056
• essential: no DEG other strains

⊟Accession numbers

• Gene ID: 1125239 NCBI
• RefSeq: NP_375636 NCBI
• BioCyc: see SA_RS13255
• MicrobesOnline: 104662 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
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  301
  361
  421
  481
  541
  601
  661
  721
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  841
  901
  961
  1021
  
  ATGTACATAATCTTTAATTTCACTCATTTACTTTTCAATCTTTTAAAAGCGAGGTTTTTA
  ATAATGACAAAAATTATGTTCTTTGGTACGCGTGATTATGAGAAAGAGATGGCATTAAAT
  TGGGGGAAAAAGAATAATGTCGAAGTAACTACTTCTAAAGAGCTATTATCAAGTGCTACA
  GTCGATCAATTAAAAGATTACGATGGCGTAACTACAATGCAATTTGGTAAGTTAGAAAAT
  GACGTTTATCCTAAATTAGAATCTTACGGTATTAAACAAATTGCACAACGTACTGCTGGA
  TTTGATATGTATGATTTAGATTTAGCTAAAAAACACAACATTGTGATATCTAACGTTCCT
  AGTTATTCACCTGAAACAATTGCAGAGTATTCTGTTTCTATCGCCCTACAATTAGTGCGT
  CGCTTCCCAGATATTGAACGCCGTGTACAAACACATGATTTTACTTGGCAAGCAGAAATC
  ATGTCTAAACCAGTTAAAAATATGACTGTTGCAATTATCGGTACGGGTCGTATCGGTGCT
  GCTACAGCTAAAATATATGCAGGATTTGGTGCTACAATTACAGCTTATGACGCTTATCCT
  AATAAAGATTTAGACTTTTTAACTTATAAAGATAGTGTTAAAGAAGCTATTAAAGATGCC
  GATATTATTTCTTTACATGTTCCAGCGAACAAAGAAAGCTATCATTTATTCGATAAAGCA
  ATGTTTGATCATGTGAAAAAAGGTGCAATCTTAGTTAACGCAGCACGTGGTGCAGTCATC
  AATACACCTGATTTAATCGCTGCAGTGAACGATGGTACTTTGTTAGGTGCTGCGATTGAT
  ACTTATGAAAATGAAGCTGCATACTTCACAAATGACTGGACTAATAAAGACATTGACGAT
  AAAACATTATTAGAGTTAATCGAACATGAAAGAATTTTAGTAACACCACATATTGCTTTC
  TTCTCTGATGAAGCAGTACAAAACCTTGTTGAAGGTGGTTTAAACGCAGCATTATCTGTC
  ATTAACACTGGTACATGTGAAACACGTTTAAATTAA
  60
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  1020
  1056
  

⊟Protein

⊟General

• locus tag: SA2312 [new locus tag: SA_RS13255 ]
• symbol: Ddh
• description: D-lactate dehydrogenase
• length: 351
• theoretical pI: 5.25457
• theoretical MW: 39321.6
• GRAVY: -0.112821

⊟Function

• reaction:
  EC 1.1.1.28?  ExPASy
  D-lactate dehydrogenase (R)-lactate + NAD⁺ = pyruvate + NADH
• TIGRFAM:
  Metabolism Amino acid biosynthesis Serine family phosphoglycerate dehydrogenase (TIGR01327; EC 1.1.1.95; HMM-score: 154.4)
  and 11 more
  Metabolism Energy metabolism Amino acids and amines alanine dehydrogenase (TIGR00518; EC 1.4.1.1; HMM-score: 19.8)
  Metabolism Energy metabolism Amino acids and amines 3-hydroxyisobutyrate dehydrogenase (TIGR01692; EC 1.1.1.31; HMM-score: 18.2)
  Metabolism Amino acid biosynthesis Other pyrrolysine biosynthesis protein PylD (TIGR03911; HMM-score: 17)
  glutamate synthase, small subunit (TIGR01318; HMM-score: 14.9)
  Metabolism Energy metabolism Methanogenesis 5,10-methenyltetrahydromethanopterin hydrogenase (TIGR01723; EC 1.12.98.2; HMM-score: 14.5)
  Metabolism Amino acid biosynthesis Aspartate family aspartate-semialdehyde dehydrogenase (TIGR01745; EC 1.2.1.11; HMM-score: 13.8)
  dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 13.5)
  nucleotide sugar dehydrogenase (TIGR03026; HMM-score: 12.9)
  2-hydroxy-3-oxopropionate reductase (TIGR01505; EC 1.1.1.60; HMM-score: 12.8)
  Metabolism Energy metabolism Electron transport glutathione-disulfide reductase (TIGR01424; EC 1.8.1.7; HMM-score: 11.9)
  3-hydroxyacyl-CoA dehydrogenase PaaC (TIGR02279; EC 1.1.1.-; HMM-score: 11.5)
• TheSEED  :
  • D-lactate dehydrogenase (EC 1.1.1.28)
  Carbohydrates Fermentation Fermentations: Lactate  D-lactate dehydrogenase (EC 1.1.1.28)
  and 1 more
  Carbohydrates Fermentation Fermentations: Mixed acid  D-lactate dehydrogenase (EC 1.1.1.28)
• PFAM:
  NADP_Rossmann (CL0063) 2-Hacid_dh_C; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (PF02826; HMM-score: 172.9)
  and 11 more
  Form_Glyc_dh (CL0325) 2-Hacid_dh; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (PF00389; HMM-score: 89.5)
  NADP_Rossmann (CL0063) NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 26.3)
  AlaDh_PNT_C; Alanine dehydrogenase/PNT, C-terminal domain (PF01262; HMM-score: 23.6)
  IlvN; Acetohydroxy acid isomeroreductase, NADPH-binding domain (PF07991; HMM-score: 21.7)
  3HCDH_N; 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain (PF02737; HMM-score: 16.4)
  UDPG_MGDP_dh_N; UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain (PF03721; HMM-score: 15.8)
  NAD_binding_7; Putative NAD(P)-binding (PF13241; HMM-score: 15.7)
  F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 15.5)
  NAD_Gly3P_dh_N; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus (PF01210; HMM-score: 15)
  Rossmann-like; Rossmann-like domain (PF10727; HMM-score: 14.8)
  Form_Glyc_dh (CL0325) DpaA_N; Dipicolinate synthase subunit A N-terminal domain (PF16924; HMM-score: 13)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • Internal Helices: 0
• LocateP: Intracellular
  • Prediction by SwissProt Classification: Cytoplasmic
  • Pathway Prediction: No pathway
  • Intracellular possibility: 0.67
  • Signal peptide possibility: -0.5
  • N-terminally Anchored Score: 1
  • Predicted Cleavage Site: No CleavageSite
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.02097
  • TAT(Tat/SPI): 0.00105
  • LIPO(Sec/SPII): 0.005633
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 15928103 NCBI
• RefSeq: NP_375636 NCBI
• UniProt: P99116 UniProt

⊟Protein sequence

• MYIIFNFTHLLFNLLKARFLIMTKIMFFGTRDYEKEMALNWGKKNNVEVTTSKELLSSATVDQLKDYDGVTTMQFGKLENDVYPKLESYGIKQIAQRTAGFDMYDLDLAKKHNIVISNVPSYSPETIAEYSVSIALQLVRRFPDIERRVQTHDFTWQAEIMSKPVKNMTVAIIGTGRIGAATAKIYAGFGATITAYDAYPNKDLDFLTYKDSVKEAIKDADIISLHVPANKESYHLFDKAMFDHVKKGAILVNAARGAVINTPDLIAAVNDGTLLGAAIDTYENEAAYFTNDWTNKDIDDKTLLELIEHERILVTPHIAFFSDEAVQNLVEGGLNAALSVINTGTCETRLN

⊟Experimental data

• experimentally validated: data available for COL, NCTC8325
• protein localization: data available for COL
• quantitative data / protein copy number per cell: data available for COL
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: no polycistronic organisation predicted

⊟Regulation

• regulator: Rex* (repression) regulon

  Rex*

  (TF)

  important in Energy metabolism; RegPrecise

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: data available for COL

⊟Protein stability

• half-life: no data available

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications

Alexander Scherl, Patrice François, Manuela Bento, Jacques M Deshusses, Yvan Charbonnier, Véronique Converset, Antoine Huyghe, Nadia Walter, Christine Hoogland, Ron D Appel, Jean-Charles Sanchez, Catherine G Zimmermann-Ivol, Garry L Corthals, Denis F Hochstrasser, Jacques Schrenzel
Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth.
J Microbiol Methods: 2005, 60(2);247-57
[PubMed:15590099] [WorldCat.org] [DOI] (P p)