SMTL ID : 1jq3.1

Crystal Structure of Spermidine Synthase in Complex with Transition State Analogue AdoDATO

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

3 x AAT: S-ADENOSYL-1,8-DIAMINO-3-THIOOCTANE(Non-covalent)

AAT.1: 29 residues within 4Å: Chain A: Q.46, L.62, I.65, T.66, M.67, T.68, Y.76, H.77, G.98, G.99, G.100, D.101, C.120, E.121, V.122, V.126, A.151, N.152, G.153, D.170, S.171, T.172, D.173, Q.178, G.179, L.182, Y.239, P.240, W.244 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:M.67 Hydrogen bonds: A:Q.46, A:Q.46, A:G.99, A:G.100, A:D.101, A:V.122, A:N.152, A:G.153, A:D.173 Water bridges: A:Q.178 AAT.2: 28 residues within 4Å: Chain C: Q.46, F.60, L.62, T.66, M.67, T.68, Y.76, H.77, I.97, G.98, G.99, G.100, D.101, C.120, E.121, V.122, V.126, A.151, N.152, G.153, D.170, S.171, T.172, D.173, L.182, Y.239, P.240, W.244 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:T.68, C:Y.239, C:Y.239 Hydrogen bonds: C:Q.46, C:Q.46, C:G.99, C:G.100, C:D.101, C:V.122, C:N.152, C:G.153, C:D.173 Water bridges: C:T.66, C:G.102, C:E.206, C:E.206 AAT.3: 29 residues within 4Å: Chain D: Q.46, L.62, T.66, M.67, Y.76, H.77, I.97, G.98, G.99, G.100, D.101, C.120, E.121, V.122, V.126, A.151, N.152, G.153, D.170, S.171, T.172, D.173, G.177, Q.178, G.179, L.182, Y.239, P.240, W.244 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:Y.239 Hydrogen bonds: D:Q.46, D:Q.46, D:T.66, D:G.99, D:G.100, D:D.101, D:V.122, D:N.152, D:G.153, D:T.172 Water bridges: D:T.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Korolev, S. et al., The crystal structure of spermidine synthase with a multisubstrate adduct inhibitor. Nat.Struct.Biol. (2002)

Release Date

2001-11-21

Peptides

Spermidine synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Spermidine synthase

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