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Structure paper

TitleStructure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis
Journal, issue, pagesBiochem. J., Vol. 474, Page 105-122, Year 2017
Publish dateJan 18, 2016 (structure data deposition date)
AuthorsShimizu, T. / Yin, L. / Yoshida, A. / Yokooji, Y. / Hachisuka, S.I. / Sato, T. / Tomita, T. / Nishida, H. / Atomi, H. / Kuzuyama, T. / Nishiyama, M.
External linksBiochem. J. / PubMed:27831491
MethodsX-ray diffraction
Resolution1.7 - 2.64 Å
Structure data

PDB-5hn3:
Crystal structure of beta-decarboxylating dehydrogenase (TK0280) from Thermococcus kodakarensis (apo form)
Method: X-RAY DIFFRACTION / Resolution: 1.7 Å

PDB-5hn4:
Crystal structure of beta-decarboxylating dehydrogenase (TK0280) from Thermococcus kodakarensis complexed with Mn and homoisocitrate
Method: X-RAY DIFFRACTION / Resolution: 2.64 Å

PDB-5hn5:
Crystal structure of beta-decarboxylating dehydrogenase (TK0280) from Thermococcus kodakarensis complexed with Mn and isocitrate
Method: X-RAY DIFFRACTION / Resolution: 2.55 Å

PDB-5hn6:
Crystal structure of beta-decarboxylating dehydrogenase (TK0280) from Thermococcus kodakarensis complexed with Mn and 3-isopropylmalate
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

Chemicals

ChemComp-IMD:
IMIDAZOLE

ChemComp-NA:
Unknown entry

ChemComp-HOH:
WATER

ChemComp-48Y:
(1R,2S)-1-hydroxybutane-1,2,4-tricarboxylic acid

ChemComp-MN:
Unknown entry

ChemComp-IPA:
ISOPROPYL ALCOHOL / alkaloid*YM

ChemComp-ICT:
ISOCITRIC ACID

ChemComp-MPD:
(4S)-2-METHYL-2,4-PENTANEDIOL / precipitant*YM

ChemComp-IPM:
3-ISOPROPYLMALIC ACID

Source
  • thermococcus kodakarensis (strain atcc baa-918 / jcm 12380 / kod1) (archaea)
KeywordsOXIDOREDUCTASE / homoisocitrate dehydrogenase beta-decarboxylating dehydrogenase / homoisocitrate dehydrogenase / beta-decarboxylating dehydrogenase

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