SMTL ID : 2wnh.1

Crystal Structure Analysis of Klebsiella sp ASR1 Phytase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

homo-tetramer

Ligands

6 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: E.48, W.49, T.51, H.52 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.48, A:W.49, A:D.53 NA.4: 2 residues within 4Å: Chain B: E.247, R.312 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.247, B:R.312 Water bridges: B:R.160, B:E.247 NA.5: 3 residues within 4Å: Chain B: R.76 Chain D: R.76 Ligands: NA.11 No protein-ligand interaction detected (PLIP) NA.7: 4 residues within 4Å: Chain C: E.48, W.49, T.51, H.52 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.51, C:D.53 NA.10: 2 residues within 4Å: Chain D: E.247, R.312 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.247, D:R.312 Water bridges: D:R.160 NA.11: 3 residues within 4Å: Chain B: R.76 Chain D: R.76 Ligands: NA.5 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: H.358 Chain C: H.358 Ligands: MG.8 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:H.358, A:H.358, H2O.13, H2O.43 MG.8: 3 residues within 4Å: Chain A: H.358 Chain C: H.358 Ligands: MG.2 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:H.358, A:H.358, H2O.13, H2O.43

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: H.59, E.220, N.221, L.222 Chain B: Y.61, Q.106, D.110 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.106, A:E.220 Water bridges: B:Q.106, B:V.118, A:T.50, A:T.51 GOL.6: 7 residues within 4Å: Chain A: Y.61, Q.106, D.110 Chain B: H.59, E.220, N.221, L.222 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.110 Water bridges: A:Q.106, A:Q.106, A:Q.106, A:V.118, B:T.50, B:T.51 GOL.9: 7 residues within 4Å: Chain C: H.59, E.220, N.221, L.222 Chain D: Y.61, Q.106, D.110 6 PLIP interactions: 3 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:Q.106, D:Q.106, C:H.59, C:E.220 Water bridges: D:V.118, C:T.50 GOL.12: 7 residues within 4Å: Chain C: Y.61, Q.106, D.110 Chain D: H.59, E.220, N.221, L.222 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:D.110, D:E.220 Water bridges: C:Q.106, C:Q.106, C:Q.106, C:V.118, D:T.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bohm, K. et al., Crystal Structure of Klebsiella Sp. Asr1 Phytase Suggests Substrate Binding to a Preformed Active Site that Meets the Requirements of a Plant Rhizosphere Enzyme. FEBS J. (2010)

Release Date

2010-04-28

Peptides

3-PHYTASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-PHYTASE