SMTL ID : 7scp.1

The crystal structure of ScoE in complex with intermediate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

monomer

Ligands

1 x FE2: FE (II) ION(Non-covalent)

FE2.1: 5 residues within 4Å: Chain A: H.152, D.154, H.315, R.330 Ligands: 8S6.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.152, A:D.154, A:H.315, H2O.1, H2O.5

1 x 8S6: (3R)-3-(oxaloamino)butanoic acid(Non-covalent)

8S6.2: 15 residues within 4Å: Chain A: Y.116, Y.121, T.147, G.148, F.150, H.152, D.154, Y.155, F.157, V.208, Y.211, K.213, F.259, R.330 Ligands: FE2.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.121, A:V.208 Hydrogen bonds: A:Y.116, A:Y.121, A:G.148, A:D.154, A:Y.155, A:R.330 Water bridges: A:K.213 Salt bridges: A:K.213, A:R.330

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: S.132, T.147, I.167, R.177, G.178, T.179, A.317, H.319 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.132, A:T.147, A:R.177, A:R.177, A:T.179, A:H.319

15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 4 residues within 4Å: Chain A: R.112, D.335, R.337, K.338 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.337, A:K.338 EDO.5: 2 residues within 4Å: Chain A: R.209, I.227 No protein-ligand interaction detected (PLIP) EDO.6: 1 residues within 4Å: Chain A: R.337 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.337 EDO.7: 3 residues within 4Å: Chain A: D.281, A.282, H.292 No protein-ligand interaction detected (PLIP) EDO.8: 4 residues within 4Å: Chain A: K.197, E.198, S.200, T.202 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.200 EDO.9: 4 residues within 4Å: Chain A: E.274, K.277, R.278, D.281 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.274, A:D.281 EDO.10: 3 residues within 4Å: Chain A: D.79, Y.86, E.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.79, A:K.82 EDO.11: 5 residues within 4Å: Chain A: R.205, G.262, I.263, E.264, P.270 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.263, A:I.263 EDO.12: 4 residues within 4Å: Chain A: E.125, V.126, T.127, E.128 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.125, A:T.127 EDO.13: 3 residues within 4Å: Chain A: H.245, P.246, G.249 No protein-ligand interaction detected (PLIP) EDO.14: 3 residues within 4Å: Chain A: L.297, Q.298, S.299 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.299, A:S.299 EDO.15: 1 residues within 4Å: Chain A: R.209 No protein-ligand interaction detected (PLIP) EDO.16: 2 residues within 4Å: Chain A: Q.170, Y.329 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.170 Water bridges: A:V.135 EDO.17: 3 residues within 4Å: Chain A: H.292, D.293, I.295 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.293 EDO.18: 5 residues within 4Å: Chain A: N.59, T.87, K.88, K.89, D.183 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, T.Y. et al., Deciphering the Reaction Pathway of Mononuclear Iron Enzyme-Catalyzed N-C Triple Bond Formation in Isocyanide Lipopeptide and Polyketide Biosynthesis. Acs Catalysis (2022)

Release Date

2022-03-23

Peptides

ScoE protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ScoE protein

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