SMTL ID : 2iby.1

Crystallographic and kinetic studies of human mitochondrial acetoacetyl-CoA thiolase (T2): the importance of potassium and chloride for its structure and function

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: P.86, C.87 Chain B: N.382, G.386 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: N.382, G.386 Chain B: P.86, C.87 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain C: R.73, P.86, C.87 Chain D: N.382, G.386 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain C: G.386 Chain D: P.86, C.87 Ligand excluded by PLIP

4 x K: POTASSIUM ION(Non-covalent)

K.2: 6 residues within 4Å: Chain A: Y.187, A.248, A.249, A.251, T.253, V.349 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.187, A:A.249, A:A.251, A:V.349, H2O.6 K.7: 6 residues within 4Å: Chain B: Y.187, A.248, A.249, A.251, T.253, V.349 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:Y.187, B:A.249, B:A.251, B:V.349, H2O.18 K.11: 6 residues within 4Å: Chain C: Y.187, A.248, A.249, A.251, T.253, V.349 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:Y.187, C:A.249, C:A.251, C:V.349, H2O.33 K.14: 6 residues within 4Å: Chain D: Y.187, A.248, A.249, A.251, T.253, V.349 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:Y.187, D:A.249, D:A.251, D:V.349, H2O.39

4 x COA: COENZYME A(Non-covalent)

COA.3: 22 residues within 4Å: Chain A: C.94, L.152, H.160, M.161, Y.187, R.226, V.227, D.228, K.231, V.232, L.235, V.238, F.239, A.248, A.249, S.252, T.253, F.293, A.323, F.324, H.353 Ligands: MES.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.187, A:D.228, A:K.231, A:S.252 Water bridges: A:Y.187, A:L.254 Salt bridges: A:K.231 COA.8: 21 residues within 4Å: Chain B: C.94, L.152, H.160, M.161, Y.187, R.226, V.227, D.228, K.231, V.232, L.235, F.239, A.248, A.249, S.252, T.253, L.254, F.293, A.323, F.324, H.353 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.239, B:L.254 Hydrogen bonds: B:Y.187, B:D.228, B:K.231, B:S.252, B:S.252, B:S.252 Water bridges: B:Y.187, B:K.231, B:L.254 Salt bridges: B:K.231 COA.12: 21 residues within 4Å: Chain C: C.94, L.152, H.160, M.161, Y.187, R.226, V.227, D.228, K.231, V.232, L.235, V.238, F.239, A.248, A.249, S.252, T.253, F.293, A.323, F.324, H.353 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:V.238, C:F.239 Hydrogen bonds: C:Y.187, C:D.228, C:K.231, C:S.252, C:S.252 Water bridges: C:Y.187, C:L.254 Salt bridges: C:K.231 COA.15: 20 residues within 4Å: Chain D: C.94, L.152, H.160, M.161, Y.187, R.226, V.227, D.228, K.231, L.235, V.238, F.239, A.248, A.249, S.252, L.254, F.293, A.323, F.324, H.353 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:L.254 Hydrogen bonds: D:Y.187, D:D.228, D:K.231, D:S.252, D:S.252, D:S.252 Water bridges: D:Y.187, D:Y.187, D:L.254 Salt bridges: D:K.231

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 5 residues within 4Å: Chain A: F.23, L.24, L.254 Chain C: Y.138 Ligands: COA.3 1 PLIP interactions: 1 interactions with chain C Water bridges: C:Y.138

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: A.169, K.170, N.173, I.174, A.175, T.245 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.173 Water bridges: A:E.166, A:E.166, A:N.173 GOL.9: 4 residues within 4Å: Chain A: L.77, I.83 Chain B: Y.156, E.289 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.289 Water bridges: B:E.289, B:E.289

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haapalainen, A.M. et al., Crystallographic and Kinetic Studies of Human Mitochondrial Acetoacetyl-CoA Thiolase: The Importance of Potassium and Chloride Ions for Its Structure and Function. Biochemistry (2007)

Release Date

2007-04-03

Peptides

Acetyl-CoA acetyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acetyl-CoA acetyltransferase

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