- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x MN: MANGANESE (II) ION(Non-covalent)
- 4 x K: POTASSIUM ION(Non-covalent)
K.2: 6 residues within 4Å:- Chain A: N.74, S.76, D.112, T.113, S.242, K.269
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:S.76, A:D.112, A:T.113, H2O.12
K.17: 6 residues within 4Å:- Chain B: N.74, S.76, D.112, T.113, S.242, K.269
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:S.76, B:D.112, B:T.113, H2O.27, H2O.39
K.30: 6 residues within 4Å:- Chain C: N.74, S.76, D.112, T.113, S.242, K.269
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:S.76, C:D.112, C:T.113, H2O.52, H2O.52
K.40: 6 residues within 4Å:- Chain D: N.74, S.76, D.112, T.113, S.242, K.269
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:S.76, D:D.112, D:T.113, H2O.75, H2O.75
- 6 x NA: SODIUM ION(Non-functional Binders)
NA.3: 5 residues within 4Å:- Chain A: K.124, G.125, S.126, G.127, T.128
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.127
NA.4: 3 residues within 4Å:- Chain A: T.431, S.433, S.436
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:T.431, A:T.431, A:R.435, A:S.436
- Water bridges: A:E.432, A:S.433
NA.18: 3 residues within 4Å:- Chain B: T.431, S.433, S.436
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.431, B:S.433, B:R.435, B:S.436
- Water bridges: B:R.435
NA.31: 4 residues within 4Å:- Chain C: T.431, S.433, R.435, S.436
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:S.433, C:R.435, C:S.436
- Water bridges: C:R.435
NA.41: 6 residues within 4Å:- Chain D: K.124, G.125, S.126, G.127, T.128, A.129
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:G.125
NA.42: 3 residues within 4Å:- Chain D: T.431, S.433, S.436
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:T.431, D:R.435, D:S.436
- Water bridges: D:E.432, D:R.435
- 4 x ALA: ALANINE(Non-covalent)
ALA.5: 8 residues within 4Å:- Chain A: R.42, N.43, N.69, R.105, H.463, I.468, F.469, P.470
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:N.69, A:N.69, A:H.463
- Water bridges: A:R.105
- Salt bridges: A:R.42, A:R.105, A:H.463
ALA.19: 8 residues within 4Å:- Chain B: R.42, N.43, N.69, R.105, H.463, I.468, F.469, P.470
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.69, B:N.69, B:H.463
- Water bridges: B:R.105
- Salt bridges: B:R.42, B:R.105, B:H.463
ALA.32: 8 residues within 4Å:- Chain C: R.42, N.43, N.69, R.105, H.463, I.468, F.469, P.470
7 PLIP interactions:7 interactions with chain C- Hydrogen bonds: C:N.69, C:N.69, C:H.463
- Water bridges: C:R.105
- Salt bridges: C:R.42, C:R.105, C:H.463
ALA.43: 8 residues within 4Å:- Chain D: R.42, N.43, N.69, R.105, H.463, I.468, F.469, P.470
7 PLIP interactions:7 interactions with chain D- Hydrogen bonds: D:N.69, D:N.69, D:H.463
- Water bridges: D:R.105
- Salt bridges: D:R.42, D:R.105, D:H.463
- 4 x PYR: PYRUVIC ACID(Non-covalent)
PYR.6: 10 residues within 4Å:- Chain A: K.269, E.271, M.290, A.292, R.293, G.294, D.295, T.327
- Ligands: MN.1, EDO.9
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:K.269, A:G.294, A:D.295
- Water bridges: A:R.72
- Salt bridges: A:K.269
PYR.20: 10 residues within 4Å:- Chain B: K.269, E.271, M.290, A.292, R.293, G.294, D.295, T.327
- Ligands: MN.16, GOL.28
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:K.269, B:G.294, B:D.295, B:T.327
- Water bridges: B:R.72
- Salt bridges: B:K.269
PYR.33: 10 residues within 4Å:- Chain C: R.72, K.269, E.271, M.290, A.292, R.293, G.294, D.295, T.327
- Ligands: MN.29
8 PLIP interactions:8 interactions with chain C- Hydrogen bonds: C:K.269, C:G.294, C:D.295, C:D.295, C:D.295, C:T.327
- Water bridges: C:R.72
- Salt bridges: C:K.269
PYR.44: 10 residues within 4Å:- Chain D: K.269, E.271, M.290, A.292, R.293, G.294, D.295, T.327
- Ligands: MN.39, EDO.47
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:K.269, D:G.294, D:D.295, D:T.327
- Salt bridges: D:K.269
- 16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.7: 6 residues within 4Å:- Chain A: A.37, P.38, I.39, T.40, R.382
- Ligands: EDO.34
Ligand excluded by PLIPEDO.8: 7 residues within 4Å:- Chain A: T.49, R.72, N.74, S.361, G.362, A.365
- Ligands: EDO.11
Ligand excluded by PLIPEDO.9: 5 residues within 4Å:- Chain A: D.177, G.294, D.295, I.298
- Ligands: PYR.6
Ligand excluded by PLIPEDO.10: 4 residues within 4Å:- Chain A: P.52, R.55, Y.82
- Ligands: GOL.15
Ligand excluded by PLIPEDO.11: 7 residues within 4Å:- Chain A: T.49, I.50, G.51, N.74, H.77, A.365
- Ligands: EDO.8
Ligand excluded by PLIPEDO.12: 6 residues within 4Å:- Chain A: R.254, E.284, A.285, S.286, D.287, K.321
Ligand excluded by PLIPEDO.21: 5 residues within 4Å:- Chain B: A.37, P.38, I.39, T.40, R.382
Ligand excluded by PLIPEDO.22: 6 residues within 4Å:- Chain B: R.338, P.339, T.340, R.341
- Chain D: D.177, Q.328
Ligand excluded by PLIPEDO.34: 4 residues within 4Å:- Chain A: A.37, P.38
- Chain C: K.304
- Ligands: EDO.7
Ligand excluded by PLIPEDO.35: 5 residues within 4Å:- Chain C: R.42, K.65, S.66, G.67, H.378
Ligand excluded by PLIPEDO.45: 5 residues within 4Å:- Chain D: T.49, R.72, N.74, S.361, G.362
Ligand excluded by PLIPEDO.46: 6 residues within 4Å:- Chain D: R.254, E.284, A.285, S.286, D.287, K.321
Ligand excluded by PLIPEDO.47: 6 residues within 4Å:- Chain D: D.177, G.294, D.295, I.298, T.327
- Ligands: PYR.44
Ligand excluded by PLIPEDO.48: 4 residues within 4Å:- Chain B: R.315, R.318
- Chain D: C.30, R.31
Ligand excluded by PLIPEDO.49: 3 residues within 4Å:- Chain D: V.57, E.58, K.61
Ligand excluded by PLIPEDO.50: 6 residues within 4Å:- Chain D: P.52, A.53, S.54, R.55, S.56, T.59
Ligand excluded by PLIP- 16 x GOL: GLYCEROL(Non-functional Binders)
GOL.13: 9 residues within 4Å:- Chain A: P.116, V.208, N.209, L.210, V.215, F.243, R.245, E.299
- Ligands: GOL.14
Ligand excluded by PLIPGOL.14: 8 residues within 4Å:- Chain A: E.117, I.118, R.119, G.207, V.208, F.243, D.295
- Ligands: GOL.13
Ligand excluded by PLIPGOL.15: 2 residues within 4Å:- Chain A: P.52
- Ligands: EDO.10
Ligand excluded by PLIPGOL.23: 9 residues within 4Å:- Chain B: P.116, I.118, V.208, N.209, L.210, V.215, R.245, E.299
- Ligands: GOL.24
Ligand excluded by PLIPGOL.24: 9 residues within 4Å:- Chain B: E.117, I.118, R.119, G.207, V.208, F.243, D.295
- Ligands: GOL.23, GOL.28
Ligand excluded by PLIPGOL.25: 6 residues within 4Å:- Chain B: K.229, V.232, E.233, I.256, L.257, K.260
Ligand excluded by PLIPGOL.26: 5 residues within 4Å:- Chain B: R.42, K.65, S.66, G.67, H.378
Ligand excluded by PLIPGOL.27: 8 residues within 4Å:- Chain B: D.177, L.179, I.298, Q.328
- Chain D: R.338, P.339, T.340, R.341
Ligand excluded by PLIPGOL.28: 6 residues within 4Å:- Chain B: D.177, G.294, D.295, I.298
- Ligands: PYR.20, GOL.24
Ligand excluded by PLIPGOL.36: 9 residues within 4Å:- Chain C: P.116, I.118, V.208, N.209, L.210, V.215, R.245, E.299
- Ligands: GOL.37
Ligand excluded by PLIPGOL.37: 8 residues within 4Å:- Chain C: E.117, I.118, R.119, G.207, V.208, F.243, D.295
- Ligands: GOL.36
Ligand excluded by PLIPGOL.38: 5 residues within 4Å:- Chain C: A.37, P.38, I.39, T.40, R.382
Ligand excluded by PLIPGOL.51: 8 residues within 4Å:- Chain D: P.116, V.208, N.209, L.210, V.215, R.245, E.299
- Ligands: GOL.52
Ligand excluded by PLIPGOL.52: 8 residues within 4Å:- Chain D: E.117, I.118, R.119, G.207, V.208, F.243, D.295
- Ligands: GOL.51
Ligand excluded by PLIPGOL.53: 7 residues within 4Å:- Chain D: I.64, K.65, F.97, L.103, Y.104, R.105, R.499
Ligand excluded by PLIPGOL.54: 5 residues within 4Å:- Chain D: R.42, K.65, S.66, G.67, H.378
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Williams, R. et al., Differentiating a Ligand's Chemical Requirements for Allosteric Interactions from Those for Protein Binding. Phenylalanine Inhibition of Pyruvate Kinase. Biochemistry (2006)
- Release Date
- 2006-05-09
- Peptides
- Pyruvate kinase isozymes M1/M2: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x MN: MANGANESE (II) ION(Non-covalent)
- 4 x K: POTASSIUM ION(Non-covalent)
- 6 x NA: SODIUM ION(Non-functional Binders)
- 4 x ALA: ALANINE(Non-covalent)
- 4 x PYR: PYRUVIC ACID(Non-covalent)
- 16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 16 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Williams, R. et al., Differentiating a Ligand's Chemical Requirements for Allosteric Interactions from Those for Protein Binding. Phenylalanine Inhibition of Pyruvate Kinase. Biochemistry (2006)
- Release Date
- 2006-05-09
- Peptides
- Pyruvate kinase isozymes M1/M2: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H