SMTL ID : 4p53.1

ValA (2-epi-5-epi-valiolone synthase) from Streptomyces hygroscopicus subsp. jinggangensis 5008 with NAD+ and Zn2+ bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.171, E.219, H.290, H.306, V.310 Ligands: NAI.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.219, A:H.290, A:H.306, H2O.5 ZN.4: 6 residues within 4Å: Chain B: D.171, E.219, H.290, H.306, V.310 Ligands: NAI.5 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.219, B:H.290, B:H.306, H2O.12

2 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.2: 26 residues within 4Å: Chain A: D.76, T.78, V.79, L.82, Y.83, E.107, K.110, G.139, G.140, V.141, D.144, T.164, T.165, I.167, D.171, A.172, K.177, K.186, N.187, F.204, T.207, L.208, H.212, N.215, H.306 Ligands: ZN.1 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:D.171, A:A.172 Hydrogen bonds: A:D.76, A:E.107, A:K.110, A:G.140, A:V.141, A:L.142, A:D.144, A:T.164, A:T.164, A:K.186, A:K.186, A:N.187, A:T.207, A:N.215 Water bridges: A:A.77, A:T.78, A:A.105, A:G.139, A:G.139, A:G.175, A:H.212 NAI.5: 26 residues within 4Å: Chain B: D.76, T.78, V.79, L.82, Y.83, E.107, K.110, G.139, G.140, V.141, D.144, T.164, T.165, I.167, D.171, A.172, K.177, K.186, N.187, F.204, T.207, L.208, H.212, N.215, H.306 Ligands: ZN.4 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:D.171, B:A.172 Hydrogen bonds: B:D.76, B:E.107, B:K.110, B:G.140, B:V.141, B:L.142, B:D.144, B:T.164, B:T.165, B:K.186, B:K.186, B:N.187, B:N.215 Water bridges: B:A.77, B:A.105, B:G.139, B:G.139, B:G.175, B:H.212

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain A: Q.274 Chain B: R.33, S.35 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.35 PEG.6: 3 residues within 4Å: Chain A: R.33, S.35 Chain B: Q.274 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kean, K.M. et al., Structure of a sedoheptulose 7-phosphate cyclase: ValA from Streptomyces hygroscopicus. Biochemistry (2014)

Release Date

2014-07-30

Peptides

Cyclase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cyclase