ISDA

Deposition Date 1995-12-21

Release Date 1997-01-11

Last Version Date 2024-12-25

Entry Detail

PDB ID:

1REF

Keywords:

HYDROLASE

Title:

ENDO-1,4-BETA-XYLANASE II COMPLEX WITH 2,3-EPOXYPROPYL-BETA-D-XYLOSIDE

Biological Source:

Source Organism:

Hypocrea jecorina (Taxon ID: 51453)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.80 Å

R-Value Free:

0.22

R-Value Work:

0.18

R-Value Observed:

0.18

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:ENDO-1,4-BETA-XYLANASE II
Gene (Uniprot):xyn2
Chain IDs:A, B
Chain Length:190
Number of Molecules:2
Biological Source:Hypocrea jecorina

UniProt ID:P36217 Pfam ID:PF00457 EC:3.2.1.8

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
PCA	A	GLN	PYROGLUTAMIC ACID

Ligand Molecules

BEZ

C3X

Primary Citation

Covalent binding of three epoxyalkyl xylosides to the active site of endo-1,4-xylanase II from Trichoderma reesei.

Havukainen, R, Torronen, A, Laitinen, T, Rouvinen, J, Torronen, A, Harkki, A, Rouvinen, J.Show

Biochemistry 35 9617 9624 (1996)

PMID: 8755744 DOI: 10.1021/bi953052n

Abstact

The three-dimensional structures of endo-1,4-xylanase II (XYNII) from Trichoderma reesei complexed with 4,5-epoxypentyl beta-D-xyloside (X-O-C5),3,4-epoxybutyl beta-D-xyloside (X-O-C4), and 2,3-epoxypropyl beta-D-xyloside (X-O-C3) were determined by X-ray crystallography. High-resolution measurement revealed clear electron densities for each ligand. Both X-O-C5 and X-O-C3 were found to form a covalent bond with the putative nucleophile Glu86. Unexpectedly, X-O-C4 was found to bind to the putative acid/base catalyst Glu177. In all three complexes, clear conformational changes were found in XYNII compared to the native structure. These changes were largest in the X-O-C3 complex structure.

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Primary Citation of related structures