SMTL ID : 2d0w.1 (1 other biounit)

Crystal structure of cytochrome cL from Hyphomicrobium denitrificans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

monomer

Ligands

5 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.1: 4 residues within 4Å: Chain A: G.64, H.65, I.66, E.68 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.65, A:E.68, A:E.68 ZN.2: 2 residues within 4Å: Chain A: H.106, D.109 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.106, A:D.109, H2O.8 ZN.3: 3 residues within 4Å: Chain A: G.74, D.77, Y.79 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.74, A:D.77, A:Y.79, H2O.1, H2O.2 ZN.4: 3 residues within 4Å: Chain A: E.52, E.153, K.157 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.153, H2O.4 ZN.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.6: 20 residues within 4Å: Chain A: S.58, C.59, C.62, H.63, P.73, L.75, W.80, T.81, Y.82, N.85, L.91, T.94, I.95, A.99, N.100, M.102, M.103, H.106, L.118, I.122 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:P.73, A:L.75, A:L.75, A:L.91, A:T.94, A:I.95, A:I.95, A:A.99, A:M.102, A:M.103, A:L.118, A:I.122 Hydrogen bonds: A:T.81, A:T.81, A:Y.82, A:Y.82, A:N.85, A:N.100 Water bridges: A:G.74, A:Y.79 Metal complexes: A:H.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nojiri, M. et al., Crystal structures of cytochrome c(L) and methanol dehydrogenase from Hyphomicrobium denitrificans: structural and mechanistic insights into interactions between the two proteins. Biochemistry (2006)

Release Date

2006-08-10

Peptides

cytochrome cL: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cytochrome cL

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