SMTL ID : 1bs1.2 (1 other biounit)

DETHIOBIOTIN SYNTHETASE COMPLEXED WITH DETHIOBIOTIN, ADP , INORGANIC PHOSPHATE AND MAGNESIUM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: T.16, K.37, D.54, E.115 Ligands: MG.2, ADP.3, DAA.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.16, A:D.54, A:E.115, H2O.4 MG.2: 4 residues within 4Å: Chain A: E.12 Ligands: MG.1, ADP.3, DAA.4 No protein-ligand interaction detected (PLIP) MG.5: 7 residues within 4Å: Chain B: T.16, K.37, D.54, E.115 Ligands: MG.6, ADP.7, DAA.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.16, B:D.54, B:E.115, H2O.13 MG.6: 4 residues within 4Å: Chain B: E.12 Ligands: MG.5, ADP.7, DAA.8 No protein-ligand interaction detected (PLIP)

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 19 residues within 4Å: Chain A: T.11, E.12, V.13, G.14, K.15, T.16, V.17, E.115, N.175, D.176, I.203, P.204, W.205, L.206, P.210, E.211 Ligands: MG.1, MG.2, DAA.4 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:E.12, A:E.12, A:V.13, A:G.14, A:K.15, A:T.16, A:V.17, A:N.175, A:P.204, A:L.206, A:E.211 Salt bridges: A:K.15 ADP.7: 19 residues within 4Å: Chain B: T.11, E.12, V.13, G.14, K.15, T.16, V.17, E.115, N.175, D.176, I.203, P.204, W.205, L.206, P.210, E.211 Ligands: MG.5, MG.6, DAA.8 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:T.11, B:E.12, B:E.12, B:E.12, B:V.13, B:G.14, B:K.15, B:T.16, B:V.17, B:N.175, B:P.204, B:L.206, B:E.211 Water bridges: B:E.211 Salt bridges: B:K.15

2 x DAA: 8-AMINO-7-CARBOXYAMINO-NONANOIC ACID WITH ALUMINUM FLUORIDE(Non-covalent)

DAA.4: 22 residues within 4Å: Chain A: T.11, K.15, K.37, A.40, S.41, D.54, P.79, T.80, S.81, E.115, A.117, G.118, T.122 Chain B: L.149, G.150, C.151, I.152, N.153, Y.187 Ligands: MG.1, MG.2, ADP.3 14 PLIP interactions: 8 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:K.37, A:S.41, A:S.41, B:G.150, B:I.152, B:N.153, B:Y.187 Water bridges: A:T.11, A:E.12, A:E.12, A:N.52, A:T.122, B:N.153 Hydrophobic interactions: B:L.149 DAA.8: 22 residues within 4Å: Chain A: L.149, G.150, C.151, I.152, N.153, Y.187 Chain B: T.11, K.15, K.37, A.40, S.41, D.54, P.79, T.80, S.81, E.115, A.117, G.118, T.122 Ligands: MG.5, MG.6, ADP.7 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:L.149 Hydrogen bonds: A:G.150, A:I.152, A:N.153, B:K.37, B:S.41, B:S.41 Water bridges: A:G.150, A:N.153, B:T.11, B:E.12, B:E.12, B:N.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kack, H. et al., Crystal structure of two quaternary complexes of dethiobiotin synthetase, enzyme-MgADP-AlF3-diaminopelargonic acid and enzyme-MgADP-dethiobiotin-phosphate; implications for catalysis. Protein Sci. (1998)

Release Date

1999-01-13

Peptides

PROTEIN (DETHIOBIOTIN SYNTHETASE): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROTEIN (DETHIOBIOTIN SYNTHETASE)

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