- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- hetero-8-8-mer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 8 x CAP: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE(Non-covalent)
CAP.2: 21 residues within 4Å:- Chain A: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, G.403, G.404
- Chain B: E.60, T.65, W.66, N.123
- Ligands: MG.1
34 PLIP interactions:30 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:T.173, A:K.175, A:E.204, A:S.379, A:G.381, A:G.403, A:G.404, B:T.65, B:T.65, B:N.123
- Water bridges: A:T.173, A:K.177, A:K.177, A:K.177, A:R.295, A:R.295, A:R.295, A:H.298, A:H.298, A:G.329, A:S.379, A:S.379, A:G.380, A:I.382, A:I.382, A:G.405, B:E.60
- Salt bridges: A:K.175, A:K.175, A:K.177, A:R.295, A:H.327, A:K.334, A:K.334
CAP.11: 21 residues within 4Å:- Chain A: E.60, T.65, W.66, N.123
- Chain B: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, G.403, G.404
- Ligands: MG.10
34 PLIP interactions:31 interactions with chain B, 3 interactions with chain A- Hydrogen bonds: B:T.173, B:K.175, B:E.204, B:S.379, B:G.381, B:G.403, B:G.404, A:T.65, A:T.65, A:N.123
- Water bridges: B:T.173, B:T.173, B:K.177, B:K.177, B:K.177, B:K.177, B:R.295, B:R.295, B:R.295, B:H.298, B:H.298, B:G.329, B:G.329, B:G.380, B:I.382, B:I.382, B:G.405
- Salt bridges: B:K.175, B:K.175, B:K.177, B:R.295, B:H.327, B:K.334, B:K.334
CAP.18: 21 residues within 4Å:- Chain C: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, G.403, G.404
- Chain D: E.60, T.65, W.66, N.123
- Ligands: MG.17
33 PLIP interactions:30 interactions with chain C, 3 interactions with chain D- Hydrogen bonds: C:T.173, C:K.175, C:E.204, C:S.379, C:G.381, C:G.403, C:G.404, D:T.65, D:T.65, D:N.123
- Water bridges: C:T.173, C:K.177, C:K.177, C:K.177, C:K.177, C:R.295, C:R.295, C:R.295, C:H.298, C:H.298, C:G.329, C:S.379, C:S.379, C:I.382, C:I.382, C:G.405
- Salt bridges: C:K.175, C:K.175, C:K.177, C:R.295, C:H.327, C:K.334, C:K.334
CAP.26: 21 residues within 4Å:- Chain C: E.60, T.65, W.66, N.123
- Chain D: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, G.403, G.404
- Ligands: MG.25
34 PLIP interactions:31 interactions with chain D, 3 interactions with chain C- Hydrogen bonds: D:T.173, D:T.173, D:K.175, D:E.204, D:S.379, D:G.381, D:G.403, D:G.404, C:T.65, C:T.65, C:N.123
- Water bridges: D:K.177, D:K.177, D:K.177, D:K.177, D:R.295, D:R.295, D:R.295, D:H.298, D:H.298, D:G.329, D:S.379, D:S.379, D:G.380, D:I.382, D:Q.401, D:G.405
- Salt bridges: D:K.175, D:K.175, D:K.177, D:R.295, D:H.327, D:K.334, D:K.334
CAP.33: 22 residues within 4Å:- Chain E: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, F.402, G.403, G.404
- Chain F: E.60, T.65, W.66, N.123
- Ligands: MG.32
33 PLIP interactions:29 interactions with chain E, 4 interactions with chain F- Hydrogen bonds: E:T.173, E:K.175, E:E.204, E:S.379, E:G.381, E:G.403, E:G.404, F:T.65, F:T.65, F:N.123
- Water bridges: E:T.173, E:K.177, E:K.177, E:K.177, E:R.295, E:R.295, E:H.298, E:H.298, E:G.329, E:S.379, E:S.379, E:G.380, E:I.382, E:I.382, E:G.405, F:E.60
- Salt bridges: E:K.175, E:K.175, E:K.177, E:R.295, E:H.327, E:K.334, E:K.334
CAP.39: 22 residues within 4Å:- Chain E: E.60, T.65, W.66, N.123
- Chain F: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, F.402, G.403, G.404
- Ligands: MG.38
33 PLIP interactions:29 interactions with chain F, 4 interactions with chain E- Hydrogen bonds: F:T.173, F:T.173, F:K.175, F:E.204, F:S.379, F:G.381, F:G.403, F:G.404, E:T.65, E:N.123
- Water bridges: F:K.177, F:K.177, F:R.295, F:R.295, F:R.295, F:H.298, F:H.298, F:G.329, F:S.379, F:S.379, F:G.380, F:I.382, F:Q.401, F:G.405, E:E.60, E:T.65
- Salt bridges: F:K.175, F:K.175, F:K.177, F:R.295, F:H.327, F:K.334, F:K.334
CAP.47: 21 residues within 4Å:- Chain G: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, G.403, G.404
- Chain H: E.60, T.65, W.66, N.123
- Ligands: MG.46
32 PLIP interactions:28 interactions with chain G, 4 interactions with chain H- Hydrogen bonds: G:T.173, G:K.175, G:E.204, G:S.379, G:G.381, G:G.403, G:G.404, H:T.65, H:N.123
- Water bridges: G:T.173, G:K.177, G:K.177, G:R.295, G:R.295, G:R.295, G:H.298, G:H.298, G:G.329, G:S.379, G:S.379, G:I.382, G:I.382, G:G.405, H:E.60, H:T.65
- Salt bridges: G:K.175, G:K.175, G:K.177, G:R.295, G:H.327, G:K.334, G:K.334
CAP.54: 22 residues within 4Å:- Chain G: E.60, T.65, W.66, N.123
- Chain H: T.173, K.175, K.177, K.201, D.203, E.204, H.294, R.295, H.327, K.334, L.335, S.379, G.380, G.381, F.402, G.403, G.404
- Ligands: MG.53
35 PLIP interactions:31 interactions with chain H, 4 interactions with chain G- Hydrogen bonds: H:T.173, H:T.173, H:K.175, H:D.203, H:D.203, H:S.379, H:G.381, H:G.403, H:G.404, G:T.65, G:N.123
- Water bridges: H:T.173, H:K.177, H:K.177, H:R.295, H:R.295, H:R.295, H:H.298, H:H.298, H:G.329, H:S.379, H:S.379, H:G.380, H:I.382, H:I.382, H:I.382, G:E.60, G:T.65
- Salt bridges: H:K.175, H:K.175, H:K.177, H:R.295, H:H.327, H:K.334, H:K.334
- 59 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 7 residues within 4Å:- Chain A: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.4
Ligand excluded by PLIPEDO.4: 9 residues within 4Å:- Chain A: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.3
Ligand excluded by PLIPEDO.5: 5 residues within 4Å:- Chain A: Y.20, E.52, A.129
- Chain B: F.469
- Ligands: EDO.9
Ligand excluded by PLIPEDO.6: 4 residues within 4Å:- Chain A: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.7: 9 residues within 4Å:- Chain A: R.295, H.298, F.311, S.328, G.329, E.336, G.337, F.345, D.473
Ligand excluded by PLIPEDO.8: 2 residues within 4Å:- Chain A: L.270
- Chain B: L.270
Ligand excluded by PLIPEDO.9: 6 residues within 4Å:- Chain A: D.19, G.47, V.48, P.49, E.52
- Ligands: EDO.5
Ligand excluded by PLIPEDO.12: 7 residues within 4Å:- Chain B: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.13
Ligand excluded by PLIPEDO.13: 9 residues within 4Å:- Chain B: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.12
Ligand excluded by PLIPEDO.14: 3 residues within 4Å:- Chain A: F.469
- Chain B: Y.20, E.52
Ligand excluded by PLIPEDO.15: 4 residues within 4Å:- Chain B: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.16: 9 residues within 4Å:- Chain B: R.295, H.298, D.302, F.311, S.328, G.329, E.336, G.337, F.345
Ligand excluded by PLIPEDO.19: 7 residues within 4Å:- Chain C: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.20
Ligand excluded by PLIPEDO.20: 9 residues within 4Å:- Chain C: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.19
Ligand excluded by PLIPEDO.21: 4 residues within 4Å:- Chain C: Y.20, E.52, A.129
- Chain D: F.469
Ligand excluded by PLIPEDO.22: 4 residues within 4Å:- Chain C: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.23: 7 residues within 4Å:- Chain C: R.295, H.298, D.302, F.311, G.337, F.345, D.473
Ligand excluded by PLIPEDO.24: 2 residues within 4Å:- Chain C: L.270
- Chain D: L.270
Ligand excluded by PLIPEDO.27: 7 residues within 4Å:- Chain D: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.28
Ligand excluded by PLIPEDO.28: 9 residues within 4Å:- Chain D: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.27
Ligand excluded by PLIPEDO.29: 5 residues within 4Å:- Chain C: F.469
- Chain D: Y.20, V.48, E.52, A.129
Ligand excluded by PLIPEDO.30: 4 residues within 4Å:- Chain D: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.31: 6 residues within 4Å:- Chain D: R.295, H.298, D.302, F.311, F.345, D.473
Ligand excluded by PLIPEDO.34: 7 residues within 4Å:- Chain E: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.35
Ligand excluded by PLIPEDO.35: 9 residues within 4Å:- Chain E: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.34
Ligand excluded by PLIPEDO.36: 3 residues within 4Å:- Chain E: Y.20, E.52
- Chain F: F.469
Ligand excluded by PLIPEDO.37: 4 residues within 4Å:- Chain E: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.40: 2 residues within 4Å:- Chain E: L.270
- Chain F: L.270
Ligand excluded by PLIPEDO.41: 7 residues within 4Å:- Chain F: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.42
Ligand excluded by PLIPEDO.42: 9 residues within 4Å:- Chain F: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.41
Ligand excluded by PLIPEDO.43: 5 residues within 4Å:- Chain E: F.469
- Chain F: Y.20, V.48, E.52, A.129
Ligand excluded by PLIPEDO.44: 4 residues within 4Å:- Chain F: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.45: 9 residues within 4Å:- Chain F: R.295, H.298, D.302, F.311, S.328, G.329, E.336, G.337, F.345
Ligand excluded by PLIPEDO.48: 7 residues within 4Å:- Chain G: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.49
Ligand excluded by PLIPEDO.49: 9 residues within 4Å:- Chain G: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.48
Ligand excluded by PLIPEDO.50: 4 residues within 4Å:- Chain G: Y.20, E.52, A.129
- Chain H: F.469
Ligand excluded by PLIPEDO.51: 4 residues within 4Å:- Chain G: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.52: 6 residues within 4Å:- Chain G: R.295, H.298, D.302, F.311, F.345, D.473
Ligand excluded by PLIPEDO.55: 2 residues within 4Å:- Chain G: L.270
- Chain H: L.270
Ligand excluded by PLIPEDO.56: 7 residues within 4Å:- Chain H: Y.24, G.64, T.68, V.69, D.72, L.77
- Ligands: EDO.57
Ligand excluded by PLIPEDO.57: 9 residues within 4Å:- Chain H: G.16, V.17, K.18, Y.20, T.65, W.66, T.67, T.68
- Ligands: EDO.56
Ligand excluded by PLIPEDO.58: 3 residues within 4Å:- Chain G: F.469
- Chain H: Y.20, E.52
Ligand excluded by PLIPEDO.59: 4 residues within 4Å:- Chain H: K.466, F.467, E.468, F.469
Ligand excluded by PLIPEDO.60: 7 residues within 4Å:- Chain C: Y.226, K.227, A.230
- Chain I: K.49, E.55, S.56, D.69
Ligand excluded by PLIPEDO.61: 6 residues within 4Å:- Chain I: G.37, W.38, I.39, F.81, G.82, C.83
Ligand excluded by PLIPEDO.62: 7 residues within 4Å:- Chain H: Y.226, K.227, A.230
- Chain J: K.49, E.55, S.56, D.69
Ligand excluded by PLIPEDO.63: 7 residues within 4Å:- Chain J: G.37, W.38, I.39, F.81, G.82, C.83, R.84
Ligand excluded by PLIPEDO.64: 7 residues within 4Å:- Chain E: Y.226, K.227, A.230
- Chain K: K.49, E.55, D.69, N.70
Ligand excluded by PLIPEDO.65: 6 residues within 4Å:- Chain K: G.37, W.38, I.39, F.81, G.82, C.83
Ligand excluded by PLIPEDO.66: 7 residues within 4Å:- Chain B: Y.226, K.227, A.230
- Chain L: K.49, E.55, S.56, D.69
Ligand excluded by PLIPEDO.67: 7 residues within 4Å:- Chain L: G.37, W.38, I.39, F.81, G.82, C.83, R.84
Ligand excluded by PLIPEDO.68: 6 residues within 4Å:- Chain G: Y.226, K.227, A.230
- Chain M: K.49, E.55, D.69
Ligand excluded by PLIPEDO.69: 6 residues within 4Å:- Chain M: G.37, W.38, I.39, F.81, G.82, C.83
Ligand excluded by PLIPEDO.70: 7 residues within 4Å:- Chain D: Y.226, K.227, A.230
- Chain N: K.49, E.55, S.56, D.69
Ligand excluded by PLIPEDO.71: 7 residues within 4Å:- Chain N: G.37, W.38, I.39, F.81, G.82, C.83, R.84
Ligand excluded by PLIPEDO.72: 5 residues within 4Å:- Chain A: Y.226, K.227, A.230
- Chain O: K.49, E.55
Ligand excluded by PLIPEDO.73: 6 residues within 4Å:- Chain O: G.37, W.38, I.39, F.81, G.82, C.83
Ligand excluded by PLIPEDO.74: 7 residues within 4Å:- Chain F: Y.226, K.227, A.230
- Chain P: K.49, E.55, S.56, D.69
Ligand excluded by PLIPEDO.75: 7 residues within 4Å:- Chain P: G.37, W.38, I.39, M.80, F.81, G.82, C.83
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karkehabadi, S. et al., Structural Analysis of Altered Large-Subunit Loop-6-Carboxy-Terminus Interactions that Influence Catalytic Efficiency and Co2-O2 Specificity of Ribulose-1,5-Bisphosphate Carboxylase Oxygenase. Biochemistry (2007)
- Release Date
- 2007-07-31
- Peptides
- RIBULOSE BISPHOSPHATE CARBOXYLASE LARGE CHAIN: ABCDEFGH
RIBULOSE BISPHOSPHATE CARBOXYLASE SMALL CHAIN 1: IJKLMNOP - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
HI
IJ
JK
KL
LM
MN
NO
OP
P
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- hetero-8-8-mer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 8 x CAP: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE(Non-covalent)
- 59 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karkehabadi, S. et al., Structural Analysis of Altered Large-Subunit Loop-6-Carboxy-Terminus Interactions that Influence Catalytic Efficiency and Co2-O2 Specificity of Ribulose-1,5-Bisphosphate Carboxylase Oxygenase. Biochemistry (2007)
- Release Date
- 2007-07-31
- Peptides
- RIBULOSE BISPHOSPHATE CARBOXYLASE LARGE CHAIN: ABCDEFGH
RIBULOSE BISPHOSPHATE CARBOXYLASE SMALL CHAIN 1: IJKLMNOP - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
HI
IJ
JK
KL
LM
MN
NO
OP
P