SMTL ID : 3gze.2 (1 other biounit)

Algal prolyl 4-hydroxylase complexed with zinc and (Ser-Pro)5 peptide substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

hetero-2-1-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.115, D.117, H.199 Ligands: ACY.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.115, A:D.117, A:H.199, ACY.5 ZN.2: 3 residues within 4Å: Chain A: H.107, D.108, D.208 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.107, A:D.208 ZN.3: 2 residues within 4Å: Chain A: E.55, H.120 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.55, A:H.120 ZN.4: 1 residues within 4Å: Chain A: H.129 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.129, H2O.5 ZN.6: 4 residues within 4Å: Chain B: H.115, D.117, H.199 Ligands: ACY.8 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.115, B:D.117, B:D.117, B:H.199, ACY.8 ZN.7: 3 residues within 4Å: Chain B: H.105, H.107, D.208 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.105, B:H.107, B:D.208, B:D.208

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 8 residues within 4Å: Chain A: L.104, Y.112, H.115, D.117, H.199, W.215 Chain C: P.6 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.104, A:W.215 Salt bridges: A:H.115, A:H.199 ACY.8: 7 residues within 4Å: Chain B: H.115, D.117, L.138, H.199, T.213, W.215 Ligands: ZN.6 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.138, B:T.213 Salt bridges: B:H.115, B:H.199

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koski, M.K. et al., The Crystal Structure of an Algal Prolyl 4-Hydroxylase Complexed with a Proline-rich Peptide Reveals a Novel Buried Tripeptide Binding Motif. J.Biol.Chem. (2009)

Release Date

2009-06-23

Peptides

Predicted protein: AB
Peptide substrate (Ser-Pro)5: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
Y

Predicted protein

Peptide substrate (Ser-Pro)5

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