SMTL ID : 4kmm.1

M76H variant of human ferrochelatase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 18 residues within 4Å: Chain A: H.23, F.35, L.39, L.45, R.62, I.66, Y.70, Y.138, S.144, T.145, H.210, L.212, Y.223, V.252, H.288, I.289, E.290 Ligands: CHD.3 12 PLIP interactions: 12 interactions with chain A, Hydrophobic interactions: A:F.35, A:L.45, A:L.45, A:Y.138, A:T.145, A:H.210, A:I.289 Hydrogen bonds: A:Y.70, A:Y.70 Salt bridges: A:R.62, A:K.65 pi-Stacking: A:H.210 HEM.6: 20 residues within 4Å: Chain B: H.23, F.35, L.39, L.45, R.62, I.66, Y.70, Y.138, S.144, T.145, H.210, L.212, P.213, V.216, V.252, F.284, H.288, I.289, E.290 Ligands: CHD.8 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:F.35, B:F.35, B:L.39, B:L.39, B:L.45, B:Y.138, B:T.145, B:H.210, B:L.212, B:V.216, B:V.252, B:F.284, B:I.289 Hydrogen bonds: B:Y.70, B:Y.70 Salt bridges: B:R.62, B:K.65 pi-Stacking: B:H.23, B:H.210

2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.2: 6 residues within 4Å: Chain A: C.143, R.219, S.349, C.350, C.353, C.358 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.143, A:C.350, A:C.353, A:C.358 FES.7: 6 residues within 4Å: Chain B: C.143, R.219, S.349, C.350, C.353, C.358 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.143, B:C.350, B:C.353, B:C.358

4 x CHD: CHOLIC ACID(Non-covalent)

CHD.3: 11 residues within 4Å: Chain A: F.40, L.45, M.46, R.62, P.213, S.215, V.252, M.255, W.257 Ligands: HEM.1, CHD.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.40, A:R.62, A:P.213, A:W.257 Hydrogen bonds: A:S.215, A:V.252 Salt bridges: A:R.62 CHD.4: 3 residues within 4Å: Chain A: T.47, I.58 Ligands: CHD.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.58 Water bridges: A:T.47 CHD.8: 10 residues within 4Å: Chain B: L.45, M.46, T.47, L.48, R.62, P.213, S.215, V.252 Ligands: HEM.6, CHD.9 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:M.46, B:L.48, B:P.213, B:P.213 Hydrogen bonds: B:S.215, B:S.215, B:V.252 Salt bridges: B:R.62 CHD.9: 3 residues within 4Å: Chain B: T.47, P.49 Ligands: CHD.8 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 5 residues within 4Å: Chain A: Y.70, S.77, I.79, H.288, I.289 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain B: Y.70, S.77, I.79, H.288, I.289 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lanzilotta, W.N. et al., M76H variant of human ferrochelatase. To be Published

Release Date

2014-05-14

Peptides

Ferrochelatase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ferrochelatase, mitochondrial