SMTL ID : 4a7k.1

Bifunctional Aldos-2-ulose dehydratase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: Y.35, H.215, H.295, H.337 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.215, A:H.295, A:H.337, H2O.2, H2O.8 ZN.2: 5 residues within 4Å: Chain A: D.343, D.345, D.347, E.349, E.351 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.343, A:D.345, A:D.347, A:E.349, A:E.351, A:E.351 ZN.3: 4 residues within 4Å: Chain A: H.630, H.632, E.639, H.709 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.630, A:H.632, A:E.639, A:H.709, H2O.17 ZN.10: 4 residues within 4Å: Chain B: Y.35, H.215, H.295, H.337 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.215, B:H.295, B:H.337, H2O.23, H2O.29 ZN.11: 5 residues within 4Å: Chain B: D.343, D.345, D.347, E.349, E.351 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:D.343, B:D.345, B:D.347, B:E.349, B:E.351, B:E.351 ZN.12: 4 residues within 4Å: Chain B: H.630, H.632, E.639, H.709 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.630, B:H.632, B:E.639, B:H.709, H2O.38

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: D.101, T.103, N.105, F.107, D.109 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.101, A:T.103, A:F.107, A:D.109, H2O.3 MG.13: 5 residues within 4Å: Chain B: D.101, T.103, N.105, F.107, D.109 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.101, B:T.103, B:F.107, B:D.109, H2O.24

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: F.40, P.41, F.42, R.43, S.46, K.48, C.49, P.50, N.51 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.40, A:F.42, A:R.43, A:S.46, A:N.51 GOL.6: 11 residues within 4Å: Chain A: R.817, W.818, P.819, Q.824, R.825 Chain B: D.660, A.661, F.663, N.664, P.665, W.708 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.660, A:W.818, A:Q.824, A:R.825 GOL.7: 5 residues within 4Å: Chain A: P.514, F.515, W.688, R.689, T.690 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.688, A:T.690 Water bridges: A:T.739 GOL.8: 9 residues within 4Å: Chain A: E.438, M.445, R.447, N.604 Chain B: E.438, M.445, R.447, N.604 Ligands: GOL.17 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.438, A:N.604, B:N.604 GOL.9: 8 residues within 4Å: Chain A: F.595, W.619, A.627, H.630, E.639, H.641, W.726, A.728 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.639, A:W.726 GOL.14: 9 residues within 4Å: Chain B: F.40, P.41, F.42, R.43, S.46, K.48, C.49, P.50, N.51 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:F.40, B:F.42, B:R.43, B:S.46, B:N.51 GOL.15: 11 residues within 4Å: Chain A: D.660, A.661, F.663, N.664, P.665, W.708 Chain B: R.817, W.818, P.819, Q.824, R.825 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:W.818, B:Q.824, B:R.825, A:D.660 GOL.16: 5 residues within 4Å: Chain B: P.514, F.515, W.688, R.689, T.690 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.688, B:T.690 Water bridges: B:T.739 GOL.17: 9 residues within 4Å: Chain A: E.438, M.445, R.447, N.604 Chain B: E.438, M.445, R.447, N.604 Ligands: GOL.8 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.604, B:E.438, B:N.604 GOL.18: 8 residues within 4Å: Chain B: F.595, W.619, A.627, H.630, E.639, H.641, W.726, A.728 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.639, B:W.726 Water bridges: B:E.639

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Claesson, M. et al., Crystal Structure of Bifunctional Aldos-2-Ulose Dehydratase/Isomerase from Phanerochaete Chrysosporium with the Reaction Intermediate Ascopyrone M. J.Mol.Biol. (2012)

Release Date

2012-03-21

Peptides

ALDOS-2-ULOSE DEHYDRATASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ALDOS-2-ULOSE DEHYDRATASE

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