› 2d98

X-ray diffraction
2Å resolution

Structure of VIL (extra KI/I2 added)-xylanase

Released:
DOI: 10.2210/pdb2d98/pdb
PDB entry 2d98 coloured by chain, front view.
PDB entry 2d98 coloured by chain, side view.
PDB entry 2d98 coloured by chain, top view.
Source organism: Trichoderma reesei
Primary publication:
New methods to prepare iodinated derivatives by vaporizing iodine labelling (VIL) and hydrogen peroxide VIL (HYPER-VIL).
Miyatake H, Hasegawa T, Yamano A
Acta Crystallogr D Biol Crystallogr 62 280-9 (2006)
PMID: 16510975

Function and Biology Details

Reaction catalysed: 
Endohydrolysis of (1->4)-beta-D-xylosidic linkages in xylans
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153153 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Endo-1,4-beta-xylanase 2 Chain: A
Molecule details ›
Chain: A
Length: 189 amino acids
Theoretical weight: 21.73 KDa
Source organism: Trichoderma reesei
UniProt:
  • Canonical: P36217 (Residues: 35-223; Coverage: 93%)
Gene names: M419DRAFT_124931, xyn2
Sequence domains: Glycosyl hydrolases family 11
Structure domains: Jelly Rolls

Ligands and Environments

1 bound ligand:
Ligand IOD 1 x IOD
2 modified residues:
Ligand IYR 4 x IYR
Ligand TYI 2 x TYI

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E
Spacegroup: P21
Unit cell:
a: 40.191Å b: 38.564Å c: 56.794Å
α: 90° β: 110.18° γ: 90°
R-values:
R R work R free
0.209 0.209 0.253

Quick links

Citations

16 citation in other articles

SAD phasing using iodide ions in a high-throughput structural genomics environment.
Abendroth et al. (2011)
15 more