SMTL ID : 1eq2.1 (1 other biounit)

THE CRYSTAL STRUCTURE OF ADP-L-GLYCERO-D-MANNOHEPTOSE 6-EPIMERASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-pentamer

Ligands

5 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 27 residues within 4Å: Chain A: T.5, G.6, G.9, F.10, I.11, V.30, D.31, N.32, K.38, K.53, E.75, G.76, A.77, S.79, Y.88, N.92, Y.96, A.114, S.115, S.116, Y.140, K.144, Y.167, F.168, V.170, H.177, K.178 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:Y.167 Hydrogen bonds: A:G.6, A:F.10, A:I.11, A:N.32, A:K.53, A:E.75, A:A.77, A:S.79, A:Y.88, A:N.92, A:N.92, A:K.144, A:V.170, A:V.170 Water bridges: A:G.12, A:K.38, A:N.93, A:A.114 Salt bridges: A:K.38, A:K.53, A:H.177, A:K.178, A:K.178 pi-Stacking: A:Y.96, A:Y.167 NAP.3: 29 residues within 4Å: Chain B: T.5, G.6, G.9, F.10, I.11, V.30, D.31, N.32, K.38, K.53, E.75, G.76, A.77, C.78, S.79, Y.88, N.92, Y.96, A.114, S.115, S.116, Y.140, K.144, Y.167, F.168, V.170, H.177, K.178 Ligands: ADQ.4 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:Y.167 Hydrogen bonds: B:G.6, B:F.10, B:I.11, B:N.32, B:K.53, B:E.75, B:A.77, B:S.79, B:Y.88, B:N.92, B:N.92, B:Y.140, B:K.144, B:V.170, B:V.170 Water bridges: B:G.12, B:K.38, B:A.114, B:K.178 Salt bridges: B:K.38, B:K.53, B:H.177, B:K.178, B:K.178 pi-Stacking: B:Y.167 NAP.5: 27 residues within 4Å: Chain C: G.6, G.9, F.10, I.11, V.30, D.31, N.32, K.38, K.53, E.75, G.76, A.77, C.78, S.79, Y.88, N.92, Y.96, A.114, S.115, S.116, Y.140, K.144, Y.167, F.168, V.170, H.177, K.178 29 PLIP interactions: 29 interactions with chain C Hydrophobic interactions: C:Y.167 Hydrogen bonds: C:G.6, C:F.10, C:I.11, C:N.32, C:K.53, C:E.75, C:A.77, C:S.79, C:Y.88, C:N.92, C:N.92, C:Y.140, C:K.144, C:V.170, C:V.170 Water bridges: C:G.12, C:K.38, C:A.114, C:K.178, C:K.178 Salt bridges: C:K.38, C:K.53, C:H.177, C:K.178, C:K.178 pi-Stacking: C:Y.96, C:Y.167 pi-Cation interactions: C:K.53 NAP.7: 29 residues within 4Å: Chain D: T.5, G.6, G.9, F.10, I.11, V.30, D.31, N.32, K.38, K.53, E.75, G.76, A.77, C.78, S.79, Y.88, N.92, Y.96, A.114, S.115, S.116, Y.140, K.144, Y.167, F.168, V.170, H.177, K.178 Ligands: ADQ.8 31 PLIP interactions: 31 interactions with chain D Hydrophobic interactions: D:Y.167 Hydrogen bonds: D:G.6, D:F.10, D:I.11, D:N.32, D:K.53, D:E.75, D:A.77, D:S.79, D:Y.88, D:N.92, D:N.92, D:K.144, D:V.170, D:V.170 Water bridges: D:G.12, D:K.38, D:K.38, D:K.38, D:S.79, D:A.114, D:K.178, D:K.178 Salt bridges: D:K.38, D:K.53, D:H.177, D:K.178, D:K.178 pi-Stacking: D:Y.96, D:Y.167 pi-Cation interactions: D:K.53 NAP.9: 27 residues within 4Å: Chain E: G.6, G.9, F.10, I.11, V.30, D.31, N.32, K.38, K.53, E.75, G.76, A.77, C.78, S.79, Y.88, N.92, Y.96, A.114, S.115, S.116, Y.140, K.144, Y.167, F.168, V.170, H.177, K.178 25 PLIP interactions: 25 interactions with chain E Hydrophobic interactions: E:Y.167 Hydrogen bonds: E:G.6, E:F.10, E:I.11, E:N.32, E:K.53, E:E.75, E:A.77, E:S.79, E:Y.88, E:N.92, E:N.92, E:K.144, E:V.170, E:V.170 Water bridges: E:G.12, E:K.38, E:K.178 Salt bridges: E:K.38, E:K.53, E:H.177, E:K.178, E:K.178 pi-Stacking: E:Y.96 pi-Cation interactions: E:K.53

5 x ADQ: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE(Non-covalent)

ADQ.2: 9 residues within 4Å: Chain A: T.81, N.169, S.180, M.181, A.182, V.184, H.187, R.209, F.243 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.81, A:N.169, A:A.182 Salt bridges: A:R.209, A:R.209 ADQ.4: 18 residues within 4Å: Chain B: S.116, A.117, Y.167, F.168, N.169, S.180, A.182, V.184, H.187, L.200, F.201, S.204, R.209, F.243, Y.272, Q.273, T.276 Ligands: NAP.3 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Y.167, B:N.169, B:N.169, B:A.182, B:F.201, B:S.204, B:S.204, B:Y.272, B:Q.273 Salt bridges: B:R.209, B:R.209, B:R.209 pi-Stacking: B:F.201, B:F.201 ADQ.6: 11 residues within 4Å: Chain C: T.81, N.169, S.180, M.181, A.182, V.184, H.187, F.207, R.209, F.243, Y.272 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:N.169, C:A.182, C:Y.272, C:Y.272 Salt bridges: C:R.209, C:R.209 ADQ.8: 20 residues within 4Å: Chain D: S.79, T.81, S.116, Y.140, N.169, K.178, S.180, M.181, A.182, V.184, H.187, L.200, F.201, S.204, F.207, R.209, F.243, L.268, Y.272 Ligands: NAP.7 23 PLIP interactions: 23 interactions with chain D Hydrogen bonds: D:S.116, D:Y.140, D:N.169, D:N.169, D:K.178, D:K.178, D:M.181, D:A.182, D:F.201, D:S.204, D:S.204 Water bridges: D:T.81, D:N.169, D:S.183, D:S.183, D:R.209, D:R.209, D:R.271 Salt bridges: D:R.209, D:R.209 pi-Stacking: D:F.201, D:F.201, D:F.243 ADQ.10: 14 residues within 4Å: Chain E: T.81, N.169, S.180, M.181, A.182, V.184, H.187, L.200, F.201, S.204, R.209, F.243, Y.272, Q.273 14 PLIP interactions: 14 interactions with chain E Hydrogen bonds: E:T.81, E:N.169, E:N.169, E:A.182, E:F.201, E:S.204, E:S.204, E:Y.272, E:Q.273 Water bridges: E:R.209 Salt bridges: E:R.209, E:R.209 pi-Stacking: E:F.201, E:F.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deacon, A.M. et al., The crystal structure of ADP-L-glycero-D-mannoheptose 6-epimerase: catalysis with a twist. Structure Fold.Des. (2000)

Release Date

2000-11-08

Peptides

ADP-L-GLYCERO-D-MANNOHEPTOSE 6-EPIMERASE: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

ADP-L-GLYCERO-D-MANNOHEPTOSE 6-EPIMERASE

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