SMTL ID : 5iax.1

Mechanistic and Structural Analysis of Substrate Recognition and Cofactor Binding by an Unusual Bacterial Prolyl Hydroxylase - Co-BaP4H-PPG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 4 residues within 4Å: Chain A: H.128, D.130, H.194 Ligands: AKG.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.128, A:D.130, A:D.130, A:H.194 CO.4: 4 residues within 4Å: Chain B: H.128, D.130, H.194 Ligands: AKG.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.128, B:D.130, B:H.194

2 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.2: 12 residues within 4Å: Chain A: Y.119, Y.125, H.128, D.130, T.160, H.194, G.196, K.204, I.206, T.208, W.210 Ligands: CO.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.125, A:I.206 Hydrogen bonds: A:Y.119, A:Y.119 Water bridges: A:Y.125, A:K.204 Salt bridges: A:H.128, A:K.204 AKG.5: 13 residues within 4Å: Chain B: Y.119, Y.125, H.128, D.130, V.148, T.160, H.194, G.196, K.204, I.206, T.208, W.210 Ligands: CO.4 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.148, B:I.206 Hydrogen bonds: B:T.160 Water bridges: B:K.204 Salt bridges: B:H.128, B:H.194, B:K.204

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 5 residues within 4Å: Chain A: Q.32, G.46, N.47, M.175 Chain B: M.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.47

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

PEG.6: 2 residues within 4Å: Chain B: T.215, Y.216 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schnicker, N.J. et al., Bacillus anthracis Prolyl 4-Hydroxylase Modifies Collagen-like Substrates in Asymmetric Patterns. J.Biol.Chem. (2016)

Release Date

2016-04-27

Peptides

Procollagen-Proline Dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Procollagen-Proline Dioxygenase