SMTL ID : 4q1h.1

Structure and mechanism of a dehydratase/decarboxylase enzyme couple involved in polyketide beta-branching

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-trimer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: H.229, L.230, P.233 Chain C: T.162, F.163, P.166, V.241 No protein-ligand interaction detected (PLIP) GOL.2: 7 residues within 4Å: Chain A: T.162, F.163, P.166, V.241 Chain B: H.229, L.230, P.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.162 GOL.3: 5 residues within 4Å: Chain A: Y.207, E.210, L.211, E.214 Ligands: EPE.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.210 GOL.4: 6 residues within 4Å: Chain A: E.190, F.196, K.197, V.198 Chain C: K.191 Ligands: EPE.9 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.190, A:F.196, A:K.197, A:V.198 Water bridges: A:R.142 GOL.5: 8 residues within 4Å: Chain A: L.90, I.93, F.100, F.150, F.155, G.158, M.159, H.249 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.158 GOL.7: 5 residues within 4Å: Chain A: N.79, H.123, E.143, R.185, R.201 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.79, A:E.143, A:R.185, A:R.201, A:R.201 GOL.8: 2 residues within 4Å: Chain B: Y.80, I.125 No protein-ligand interaction detected (PLIP) GOL.10: 7 residues within 4Å: Chain A: K.167, K.168, G.170, P.195 Chain C: G.170, F.171, S.172 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.172, A:K.167 Water bridges: C:F.171, C:L.173

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 6 residues within 4Å: Chain A: E.250, K.251, T.252, F.253, H.254, H.255 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.250, A:H.254

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

EPE.9: 13 residues within 4Å: Chain A: K.197, Y.207, L.211, E.214 Chain C: E.176, N.180, G.182, S.183, Y.184, D.188, R.192 Ligands: GOL.3, GOL.4 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain C Salt bridges: A:K.197, A:E.214, C:D.188, C:R.192 Hydrogen bonds: C:E.176, C:N.180, C:Y.184 Water bridges: C:S.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nair, A.V. et al., Structure and mechanism of a dehydratase/decarboxylase enzyme couple involved in polyketide beta-methyl branch incorporation. Sci Rep (2020)

Release Date

2015-05-06

Peptides

Polyketide biosynthesis enoyl-CoA isomerase PksI: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Polyketide biosynthesis enoyl-CoA isomerase PksI

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