SMTL ID : 6zmq.1

Cytochrome c Heme Lyase CcmF

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.67 Å

Oligo State

monomer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: R.224, L.228, W.231, L.275, H.276, F.279, L.366, G.369, F.373, I.416, L.419, M.420, R.502, R.503, S.506, V.509, H.510, V.513, I.644 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:W.231, A:W.231, A:W.231, A:L.275, A:F.279, A:F.373, A:F.373, A:M.420, A:V.513, A:I.644 Hydrogen bonds: A:S.506 Salt bridges: A:R.224, A:R.502, A:R.503, A:H.510 Metal complexes: A:H.510

2 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.2: 5 residues within 4Å: Chain A: L.454, L.455, R.456, G.457, T.459 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.455 LMT.3: 16 residues within 4Å: Chain A: G.252, G.253, Y.254, W.255, W.257, W.268, W.376, A.402, N.406, M.516, I.520, Q.524, R.527, E.529, R.620 Ligands: PTY.7 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.254, A:W.255, A:W.255, A:W.257, A:W.268, A:W.268, A:W.376, A:I.520, A:I.520 Hydrogen bonds: A:G.252, A:N.406, A:N.406, A:Q.524, A:E.529, A:R.620, A:R.620 Salt bridges: A:R.527

4 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.4: 18 residues within 4Å: Chain A: L.36, L.39, L.140, A.143, V.144, G.147, V.150, F.151, G.154, V.155, T.158, P.324, P.327, A.328, G.331, F.332, F.335, L.339 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.36, A:L.39, A:L.140, A:V.150, A:F.151, A:T.158, A:F.332, A:F.335, A:F.335, A:L.339 PTY.5: 11 residues within 4Å: Chain A: Y.124, V.188, L.192, L.195, E.221, E.222, W.225, W.226, I.229, F.233 Ligands: PTY.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.124, A:Y.124, A:V.188, A:L.192, A:L.195, A:F.233 Hydrogen bonds: A:E.221 PTY.6: 10 residues within 4Å: Chain A: L.192, W.225, I.229, G.232, F.233, A.236, L.642, L.645, W.646 Ligands: PTY.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.192, A:F.233, A:A.236, A:L.642, A:L.645 PTY.7: 14 residues within 4Å: Chain A: W.268, N.406, A.410, A.414, I.416, L.417, G.461, F.464, V.513, G.517, A.521, Q.524, T.525 Ligands: LMT.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.268, A:N.406, A:A.410, A:A.414, A:I.416, A:L.417, A:F.464, A:F.464, A:Q.524, A:Q.524

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brausemann, A. et al., Architecture of the membrane-bound cytochrome c heme lyase CcmF. Nat.Chem.Biol. (2021)

Release Date

2021-05-19

Peptides

Cytochrome C-type biogenesis protein ccmF: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Cytochrome C-type biogenesis protein ccmF