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TitleMetal ion roles and the movement of hydrogen during reaction catalyzed by D-xylose isomerase: a joint x-ray and neutron diffraction study.
Journal, issue, pagesStructure, Vol. 18, Page 688-699, Year 2010
Publish dateOct 20, 2009 (structure data deposition date)
AuthorsKovalevsky, A.Y. / Hanson, L. / Fisher, S.Z. / Mustyakimov, M. / Mason, S.A. / Forsyth, V.T. / Blakeley, M.P. / Keen, D.A. / Wagner, T. / Carrell, H.L. ...Kovalevsky, A.Y. / Hanson, L. / Fisher, S.Z. / Mustyakimov, M. / Mason, S.A. / Forsyth, V.T. / Blakeley, M.P. / Keen, D.A. / Wagner, T. / Carrell, H.L. / Katz, A.K. / Glusker, J.P. / Langan, P.
External linksStructure / PubMed:20541506
MethodsX-ray diffraction / neutron diffraction
Resolution1.53 - 2 Å
Structure data

PDB-3kbm:
Room Temperature X-ray structure of D-Xylose Isomerase complexed with 2Cd(2+) co-factors and d12-D-alpha-glucose in the cyclic form
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-3kbn:
Room temperature structure of D-Xylose Isomerase in complex with 2Ni(2+) co-factors and d12-D-glucose in the linear form
Method: X-RAY DIFFRACTION / Resolution: 1.53 Å

PDB-3kbs:
Room Temperature X-ray structure of D-Xylose Isomerase in complex with 2Cd(2+) co-factors
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-3kbv:
Room temperature structure of D-Xylose Isomerase in complex with 2Ni(2+) co-factors
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-3kbw:
Room temperature X-ray mixed-metal structure of D-Xylose Isomerase in complex with Ni(2+) and Mg(2+) co-factors
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-3kcl:
Room temperature neutron structure of D-Xylose Isomerase in complex with two Cd2+ cations and d12-D-alpha-glucose in the ring form (refined jointly with X-ray structure 3KBM)
Method: NEUTRON DIFFRACTION / X-RAY DIFFRACTION / Resolution: 2 Å

PDB-3kco:
Room temperature neutron structure of D-Xylose Isomerase in complex with two Ni2+ cations and d12-D-glucose in the linear form (refined jointly with X-ray structure 3KBN)
Method: NEUTRON DIFFRACTION / X-RAY DIFFRACTION / Resolution: 1.8 Å

Chemicals

ChemComp-CD:
Unknown entry

ChemComp-GLC:
alpha-D-glucopyranose

ChemComp-HOH:
WATER

ChemComp-NI:
NICKEL (II) ION

ChemComp-GLO:
D-glucose

ChemComp-MG:
Unknown entry

ChemComp-DOD:
DEUTERATED WATER

Source
  • streptomyces rubiginosus (bacteria)
KeywordsISOMERASE / xylose isomerase / cyclic glucose / Carbohydrate metabolism / Metal-binding / Pentose shunt / Xylose metabolism / linear D-glucose / D-xylose isomerase / deuterated glucose

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