7XIM

PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES

PDB DOI: 10.2210/pdb7XIM/pdb

Classification: ISOMERASE(INTRAMOLECULAR OXIDOREDUCTASE)
Organism(s): Actinoplanes missouriensis
Mutation(s): No

Deposited: 1992-04-03 Released: 1993-07-15
Deposition Author(s): Janin, J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Observed: 0.158

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites.

Jenkins, J., Janin, J., Rey, F., Chiadmi, M., van Tilbeurgh, H., Lasters, I., De Maeyer, M., Van Belle, D., Wodak, S.J., Lauwereys, M., Stanssens, P., Matthyssens, G., Lambeir, A.M.

(1992) Biochemistry 31: 5449-5458

PubMed: 1610791 Search on PubMed
DOI: 10.1021/bi00139a005
Primary Citation of Related Structures:
1XIN, 2XIN, 3XIN, 4XIM, 5XIM, 5XIN, 6XIM, 7XIM, 8XIM, 9XIM

PubMed Abstract:

The structure and function of the xylose (glucose) isomerase from Actinoplanes missouriensis have been analyzed by X-ray crystallography and site-directed mutagenesis after cloning and overexpression in Escherichia coli. The crystal structure of wild-type enzyme has been refined to an R factor of 15.2% against diffraction data to 2.2-A resolution. The structures of a number of binary and ternary complexes involving wild-type and mutant enzymes, the divalent cations Mg2+, Co2+, or Mn2+, and either the substrate xylose or substrate analogs have also been determined and refined to comparable R factors. Two metal sites are identified. Metal site 1 is four-coordinated and tetrahedral in the absence of substrate and is six-coordinated and octahedral in its presence; the O2 and O4 atoms of linear inhibitors and substrate bind to metal 1. Metal site 2 is octahedral in all cases; its position changes by 0.7 A when it binds O1 of the substrate and by more than 1 A when it also binds O2; these bonds replace bonds to carboxylate ligands from the protein. Side chains involved in metal binding have been substituted by site-directed mutagenesis. The biochemical properties of the mutant enzymes are presented. Together with structural data, they demonstrate that the two metal ions play an essential part in binding substrates, in stabilizing their open form, and in catalyzing hydride transfer between the C1 and C2 positions.

Related Citations:

Protein Engineering of Xylose (Glucose) Isomerase from Actinoplanes Missouriensis. 2. Site-Directed Mutagenesis of the Xylose Binding Site
Lambeir, A.-M., Lauwereys, M., Stanssens, P., Mrabet, N.T., Snauwaert, J., Vantilbeurgh, H., Matthyssens, G., Lasters, I., Demaeyer, M., Wodak, S.J., Jenkins, J., Chiadmi, M., Janin, J.
(1992) Biochemistry 31: 5459

Protein Engineering of Xylose (Glucose) Isomerase from Actinoplanes Missouriensis. 3. Changing Metal Specificity and the Ph Profile by Site-Directed Mutagenesis
Vantilbeurgh, H., Jenkins, J., Chiadmi, M., Wodak, J.Janin S.J., Mrabet, N.T., Lambeir, A.-M.
(1992) Biochemistry 31: 5467

Arginine Residues as Stabilizing Elements in Proteins
Mrabet, N.T., Van Denbroek, A., Van Den Brande, I., Stanssens, P., Laroche, Y., Lambeir, A.-M., Matthijssens, G., Jenkins, J., Chiadmi, M., Vantilbeurgh, H., Rey, F., Janin, J., Quax, W.J., Lasters, I., Demaeyer, M., Wodak, S.J.
(1992) Biochemistry 31: 2239

Structural Analysis of the 2.8 Angstroms Model of Xylose Isomerase from Actinoplanes Missouriensis
Rey, F., Jenkins, J., Janin, J., Lasters, I., Alard, P., Claessens, M., Matthyssens, G., Wodak, S.
(1988) Proteins 4: 165

Organizational Affiliation:

Laboratoire de Biologie Physicochimique, CNRS UA1131, Université Paris-Sud, Orsay, France.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-XYLOSE ISOMERASE	A, B, C, D	393	Actinoplanes missouriensis	Mutation(s): 0 EC: 5.3.1.5
UniProt
Find proteins for P12851 (Actinoplanes missouriensis (strain ATCC 14538 / DSM 43046 / CBS 188.64 / JCM 3121 / NBRC 102363 / NCIMB 12654 / NRRL B-3342 / UNCC 431)) Explore P12851 Go to UniProtKB: P12851
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P12851
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Reference Sequence