SMTL ID : 2yda.1

Sulfolobus sulfataricus 2-keto-3-deoxygluconate aldolase Y103F,Y130F, A198F variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

homo-tetramer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: K.146, L.170, N.171, P.172, N.173, M.174 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.146, A:N.171, A:N.173, A:M.174 GOL.2: 8 residues within 4Å: Chain A: L.50, P.52, K.55, G.75, L.76, N.77, D.80, Y.102 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.55, A:L.76, A:N.77, A:D.80, A:Y.102, A:Y.102 Water bridges: A:L.50, A:N.77 GOL.4: 8 residues within 4Å: Chain B: G.240, S.241, L.242, S.243 Chain C: R.106, M.107, S.108, H.111 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain C Hydrogen bonds: B:G.240, B:S.241, B:L.242, B:S.243, C:R.106, C:S.108, C:S.108, C:H.111 GOL.5: 3 residues within 4Å: Chain B: C.150, F.151, T.152 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.173 GOL.6: 4 residues within 4Å: Chain B: K.114, K.117, T.118, E.121 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.114, B:K.114, B:T.118 GOL.9: 6 residues within 4Å: Chain C: K.146, L.170, N.171, P.172, N.173, M.174 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.146, C:N.171, C:N.173, C:M.174 GOL.10: 8 residues within 4Å: Chain C: L.50, P.52, K.55, G.75, L.76, N.77, D.80, Y.102 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:K.55, C:L.76, C:N.77, C:D.80, C:D.80, C:Y.102 Water bridges: C:L.50, C:N.77, C:Y.102 GOL.12: 8 residues within 4Å: Chain A: R.106, M.107, S.108, H.111 Chain D: G.240, S.241, L.242, S.243 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain A Hydrogen bonds: D:G.240, D:S.241, D:L.242, D:S.243, A:R.106, A:S.108, A:S.108 GOL.13: 3 residues within 4Å: Chain D: C.150, F.151, T.152 1 PLIP interactions: 1 interactions with chain D Water bridges: D:N.173 GOL.14: 4 residues within 4Å: Chain D: K.114, K.117, T.118, E.121 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:E.121 Water bridges: D:K.114, D:K.114, D:T.118

2 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 6 residues within 4Å: Chain A: Y.63, D.64, V.65, T.66, N.67, K.68 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.64, A:D.64, A:N.67, A:N.67 Water bridges: A:K.68, A:K.68 Salt bridges: A:K.68 EPE.11: 6 residues within 4Å: Chain C: Y.63, D.64, V.65, T.66, N.67, K.68 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:D.64, C:T.66, C:N.67, C:N.67 Water bridges: C:K.68, C:K.68 Salt bridges: C:K.68

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.7: 6 residues within 4Å: Chain A: I.162 Chain B: S.180, D.181, M.182, F.198, R.237 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.198, A:I.162 Hydrogen bonds: B:M.182 IPA.8: 3 residues within 4Å: Chain B: Y.63, D.90, F.91 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.63, B:D.90, B:F.91 IPA.15: 6 residues within 4Å: Chain C: I.162 Chain D: S.180, D.181, M.182, F.198, R.237 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:I.162, D:F.198 Hydrogen bonds: D:M.182 IPA.16: 3 residues within 4Å: Chain D: Y.63, D.90, F.91 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:Y.63, D:D.90, D:F.91

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Royer, S.F. et al., Sulfolobus Sulfataricus 2-Keto-3-Deoxygluconate Aldolase. To be Published

Release Date

2012-03-28

Peptides

2-KETO-3-DEOXY GLUCONATE ALDOLASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

2-KETO-3-DEOXY GLUCONATE ALDOLASE

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