- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 4 x K: POTASSIUM ION(Non-covalent)
- 2 x COY: CO-(ADENIN-9-YL-PENTYL)-COBALAMIN(Non-covalent)
COY.3: 37 residues within 4Å:- Chain A: T.172, V.173, E.205, T.222, S.224, V.225, Y.226, D.234, T.259, S.260, G.261, S.264, Q.267, M.268, S.299, V.300, S.301, C.302, Q.336, M.373, F.374, A.375
- Chain B: D.112, V.113, K.135, T.137, L.148, N.150, L.153, P.155, Q.156, A.157, P.158, R.193, Y.196, Q.197, S.200
45 PLIP interactions:29 interactions with chain B, 15 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:V.113, B:L.148, B:L.153, B:P.155, B:Y.196, A:T.222, A:Q.267
- Hydrogen bonds: B:D.112, B:K.135, B:T.137, B:N.150, B:N.150, B:P.155, B:P.155, B:Q.156, B:A.157, B:Q.197, B:S.200, B:S.200, A:V.173, A:E.205, A:E.205, A:G.261, A:S.301, A:M.373, A:M.373
- Water bridges: B:D.112, B:D.112, B:D.112, B:D.112, B:D.112, B:D.112, B:V.113, B:Q.133, B:Q.133, B:N.150, B:L.153, A:A.176, A:T.222, A:Y.226, A:S.264, A:S.264, A:Q.267
- Salt bridges: B:K.135
- Metal complexes: COY.3
COY.7: 39 residues within 4Å:- Chain D: T.172, V.173, L.203, E.205, T.222, S.224, V.225, Y.226, D.234, T.259, S.260, G.261, S.264, Q.267, M.268, S.299, V.300, S.301, C.302, Q.336, M.373, F.374, A.375
- Chain E: D.112, V.113, A.114, K.135, T.137, L.148, N.150, L.153, P.155, Q.156, A.157, P.158, R.193, Y.196, Q.197, S.200
42 PLIP interactions:27 interactions with chain E, 14 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: E:V.113, E:A.114, E:L.148, E:L.148, E:L.153, E:L.153, E:L.153, E:P.155, E:Y.196, D:T.222, D:Y.226, D:Q.267, D:A.375
- Hydrogen bonds: E:D.112, E:K.135, E:N.150, E:N.150, E:P.155, E:P.155, E:Q.156, E:A.157, E:Q.197, E:S.200, D:T.172, D:E.205, D:G.261, D:Q.267, D:S.301, D:M.373, D:M.373
- Water bridges: E:D.112, E:D.112, E:D.112, E:D.112, E:Q.133, E:L.153, E:H.204, D:A.176, D:K.242, D:S.264
- Salt bridges: E:K.135
- Metal complexes: COY.7
- 2 x PGO: S-1,2-PROPANEDIOL(Non-covalent)
PGO.4: 12 residues within 4Å:- Chain A: H.143, E.170, E.221, T.222, Q.296, V.300, S.301, D.335, Q.336, S.362, F.374
- Ligands: K.1
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:Q.336, A:F.374
- Hydrogen bonds: A:E.170, A:Q.296, A:Q.296
PGO.8: 12 residues within 4Å:- Chain D: H.143, E.170, E.221, T.222, Q.296, V.300, S.301, D.335, Q.336, S.362, F.374
- Ligands: K.5
8 PLIP interactions:8 interactions with chain D- Hydrophobic interactions: D:V.300, D:Q.336, D:F.374
- Hydrogen bonds: D:E.170, D:E.221, D:Q.296, D:Q.296, D:D.335
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Masuda, J. et al., How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex. Structure Fold.Des. (2000)
- Release Date
- 2001-02-07
- Peptides
- PROPANEDIOL DEHYDRATASE: AD
PROPANEDIOL DEHYDRATASE: BE
PROPANEDIOL DEHYDRATASE: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
LB
BE
EC
GF
M
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 4 x K: POTASSIUM ION(Non-covalent)
- 2 x COY: CO-(ADENIN-9-YL-PENTYL)-COBALAMIN(Non-covalent)
- 2 x PGO: S-1,2-PROPANEDIOL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Masuda, J. et al., How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex. Structure Fold.Des. (2000)
- Release Date
- 2001-02-07
- Peptides
- PROPANEDIOL DEHYDRATASE: AD
PROPANEDIOL DEHYDRATASE: BE
PROPANEDIOL DEHYDRATASE: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
LB
BE
EC
GF
M