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Structure paper

TitleStructural Studies based on two Lysine Dioxygenases with Distinct Regioselectivity Brings Insights Into Enzyme Specificity within the Clavaminate Synthase-Like Family.
Journal, issue, pagesSci Rep, Vol. 8, Page 16587-16587, Year 2018
Publish dateOct 30, 2017 (structure data deposition date)
AuthorsBastard, K. / Isabet, T. / Stura, E.A. / Legrand, P. / Zaparucha, A.
External linksSci Rep / PubMed:30410048
MethodsX-ray diffraction
Resolution1.9 - 2.6 Å
Structure data

PDB-6euo:
Crystal structure of APO Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-6eur:
Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/alpha-ketoglutarate
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-6exf:
Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/Lysine
Method: X-RAY DIFFRACTION / Resolution: 1.95 Å

PDB-6exh:
Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/succinate/(4R)-4-hydroxy-L-lysine
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

PDB-6f2a:
Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO1 with Fe(II)/Lysine
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-6f2b:
Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO1 with Fe(II)/alpha-ketoglutarate
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-6f2e:
Crystal structure of the APO Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO1
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-6f6j:
Crystal structure of the Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO1 with Fe(II)/succinate/(3S)-3-hydroxy-L-lysine
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-6f9p:
Crystal structure of the Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Re(II)
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

Chemicals

ChemComp-FE:
Unknown entry / Iron

ChemComp-MLT:
D-MALATE / Malic acid

ChemComp-GOL:
GLYCEROL / Glycerol

ChemComp-SO4:
SULFATE ION / Sulfate

ChemComp-HOH:
WATER / Water

ChemComp-AKG:
2-OXOGLUTARIC ACID / Α-Ketoglutaric acid

ChemComp-LYS:
LYSINE / Lysine

ChemComp-LYO:
4-HYDROXY-LYSINE

ChemComp-SIN:
SUCCINIC ACID / Succinic acid

ChemComp-FE2:
Unknown entry

ChemComp-ACY:
ACETIC ACID / Acetic acid

ChemComp-CL:
Unknown entry / Chloride

ChemComp-CUW:
(2~{S},3~{R})-2,6-bis(azanyl)-3-oxidanyl-hexanoic acid

ChemComp-ACT:
ACETATE ION / Acetate

ChemComp-RE:
RHENIUM / Rhenium

Source
  • flavobacterium sp. (strain cf136) (bacteria)
  • flavobacterium sp. (bacteria)
  • catenulispora acidiphila (strain dsm 44928 / nrrl b-24433 / nbrc 102108 / jcm 14897) (bacteria)
KeywordsOXIDOREDUCTASE / "Fe(II)/alpha-ketoglutarate / Fe(II)/alpha-ketoglutarate / dioxygenases / enzyme / FeII alphaKG form / oxydoreductase / FeII Lysine form

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