SMTL ID : 3v8d.1

Crystal structure of human CYP7A1 in complex with 7-ketocholesterol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 23 residues within 4Å: Chain A: H.84, N.109, F.112, L.116, A.268, S.269, N.272, T.273, A.276, S.343, N.345, P.419, F.420, T.425, I.426, C.427, P.428, G.429, F.432, A.433, E.436, I.471 Ligands: 0GV.2 14 PLIP interactions: 13 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.112, A:F.112, A:L.116, A:A.268, A:N.272, A:A.276, A:F.420, A:P.428, A:F.432, A:I.471 Water bridges: A:I.426 Salt bridges: A:H.84 Metal complexes: A:C.427, H2O.1 HEM.11: 23 residues within 4Å: Chain B: H.84, N.109, F.112, L.116, A.268, S.269, N.272, T.273, A.276, S.343, N.345, P.419, F.420, T.425, I.426, C.427, P.428, G.429, F.432, A.433, E.436, I.471 Ligands: 0GV.12 14 PLIP interactions: 13 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: B:F.112, B:F.112, B:L.116, B:N.272, B:A.276, B:F.420, B:P.428, B:F.432, B:I.471 Hydrogen bonds: B:N.345 Water bridges: B:L.344 Salt bridges: B:H.84 Metal complexes: B:C.427, H2O.8

2 x 0GV: (3beta,8alpha,9beta)-3-hydroxycholest-5-en-7-one(Non-covalent)

0GV.2: 17 residues within 4Å: Chain A: H.84, S.88, I.97, I.108, F.112, R.243, T.261, V.264, W.267, A.268, N.272, S.343, L.344, G.468, L.469, G.470 Ligands: HEM.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:H.84, A:I.97, A:I.108, A:I.108, A:F.112, A:T.261, A:V.264, A:W.267, A:A.268 Hydrogen bonds: A:L.344, A:L.344 Water bridges: A:N.272 0GV.12: 17 residues within 4Å: Chain B: H.84, S.88, I.97, I.108, F.112, R.243, T.261, V.264, W.267, A.268, N.272, S.343, L.344, G.468, L.469, G.470 Ligands: HEM.11 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:H.84, B:I.97, B:I.108, B:I.108, B:F.112, B:T.261, B:V.264, B:W.267, B:A.268 Hydrogen bonds: B:L.344, B:L.344 Water bridges: B:N.272

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 9 residues within 4Å: Chain A: H.48, V.49, N.64, S.67, L.357, E.358, D.359, G.360, Y.362 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.64, A:S.67, A:E.358, A:D.359, A:G.360, A:G.360, A:Y.362 Water bridges: A:H.48, A:S.67 SO4.4: 5 residues within 4Å: Chain A: K.483, F.484, K.485, H.486, H.487 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.484, A:H.486, A:H.487 Salt bridges: A:K.483, A:H.487 SO4.5: 3 residues within 4Å: Chain A: E.234, S.235, I.236 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.235, A:I.236, A:I.236 SO4.13: 9 residues within 4Å: Chain B: H.48, V.49, N.64, S.67, L.357, E.358, D.359, G.360, Y.362 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.64, B:S.67, B:D.359, B:G.360 Water bridges: B:S.67 SO4.14: 8 residues within 4Å: Chain A: Y.24, C.27, A.28, Q.30 Chain B: Y.24, C.27, A.28, Q.30 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.24, B:A.28, B:Q.30, B:Q.30, A:A.28, A:Q.30 SO4.15: 4 residues within 4Å: Chain B: R.233, E.234, S.235, I.236 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.235, B:I.236

14 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.6: 2 residues within 4Å: Chain A: L.339, L.388 No protein-ligand interaction detected (PLIP) UNX.7: 3 residues within 4Å: Chain A: I.135, M.136, R.160 No protein-ligand interaction detected (PLIP) UNX.8: 1 residues within 4Å: Chain A: Y.155 No protein-ligand interaction detected (PLIP) UNX.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.10: 3 residues within 4Å: Chain A: L.413, K.414, Y.415 No protein-ligand interaction detected (PLIP) UNX.16: 3 residues within 4Å: Chain B: M.55, K.90, A.204 No protein-ligand interaction detected (PLIP) UNX.17: 1 residues within 4Å: Chain B: F.38 No protein-ligand interaction detected (PLIP) UNX.18: 1 residues within 4Å: Chain B: L.462 No protein-ligand interaction detected (PLIP) UNX.19: 3 residues within 4Å: Chain B: V.71, C.73, R.347 No protein-ligand interaction detected (PLIP) UNX.20: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.21: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.22: 7 residues within 4Å: Chain B: R.8, E.14, H.60, N.363, I.364, R.365, D.368 No protein-ligand interaction detected (PLIP) UNX.23: 3 residues within 4Å: Chain B: L.413, K.414, Y.415 No protein-ligand interaction detected (PLIP) UNX.24: 3 residues within 4Å: Chain B: R.40, L.376, L.379 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strushkevich, N. et al., Crystal structure of human CYP7A1 in complex with 7-ketocholesterol. To be Published

Release Date

2013-01-09

Peptides

Cholesterol 7-alpha-monooxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cholesterol 7-alpha-monooxygenase

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