SMTL ID : 5bu3.1 (1 other biounit)

Crystal Structure of Diels-Alderase PyrI4 in complex with its product

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 13 residues within 4Å: Chain A: E.65, Y.85, E.87, Y.89, A.100, H.117, S.119, A.130, L.147, M.163, L.165, V.179 Ligands: 4W9.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.65, A:E.65, A:Y.85, A:Y.89 GOL.2: 6 residues within 4Å: Chain A: V.131, G.132, R.148 Chain B: A.40, R.148, F.162 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.148, A:R.148 Water bridges: B:R.148, B:S.160

2 x 4W9: (4S,4aS,6aS,8R,9R,10aR,13R,14aS,18aR,18bR)-9-ethyl-4,8,19-trihydroxy-10a,12,13,18a-tetramethyl-2,3,4,4a,5,6,6a,7,8,9,10,10a,13,14,18a,18b-hexadecahydro-1H-14a,17-(metheno)benzo[b]naphtho[2,1-h]azacyclododecine-16,18(15H,17H)-dione(Non-covalent)

4W9.3: 25 residues within 4Å: Chain A: R.9, A.10, A.13, E.65, F.66, A.67, L.70, V.72, T.81, V.83, Y.85, E.87, A.104, V.106, M.109, M.113, Q.115, H.117, I.134, C.136, M.139, L.140, L.165, Y.177 Ligands: GOL.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.10, A:E.65, A:A.67, A:L.70, A:V.83, A:Y.177 Hydrogen bonds: A:Q.115, A:H.117 Water bridges: A:R.9, A:Y.177, A:Y.177 4W9.4: 25 residues within 4Å: Chain B: D.7, R.9, A.10, A.13, E.65, F.66, A.67, L.70, V.72, T.81, V.83, Y.85, E.87, A.104, V.106, M.109, M.113, Q.115, H.117, I.134, C.136, M.139, L.140, L.165, Y.177 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:R.9, B:A.10, B:E.65, B:A.67, B:V.72, B:V.83, B:M.139, B:Y.177, B:Y.177, B:Y.177 Hydrogen bonds: B:Q.115, B:H.117, B:Y.177, B:Y.177 Water bridges: B:R.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, Q. et al., Enzyme-Dependent [4 + 2] Cycloaddition Depends on Lid-like Interaction of the N-Terminal Sequence with the Catalytic Core in PyrI4. Cell Chem Biol (2016)

Release Date

2016-02-24

Peptides

PyrI4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PyrI4

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