- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- BMA: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
NAG-NAG-BMA-BMA.2: 7 residues within 4Å:- Chain A: Q.369, Y.371, Q.375, N.379, M.382, D.385, Y.386
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.375
NAG-NAG-BMA-BMA.5: 8 residues within 4Å:- Chain B: Q.369, Y.371, Q.375, N.379, S.381, M.382, D.385, Y.386
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.371, B:Q.375
- Water bridges: B:Y.371
- 1 x NAG- NDG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
NAG-NDG-BMA-MAN-MAN.3: 10 residues within 4Å:- Chain A: E.109, N.113, Y.116, M.185, F.189
- Chain B: L.207, Y.211, Q.212, P.239
- Ligands: GOL.21
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Water bridges: B:L.207, B:Y.211, B:Y.211, A:N.113, A:Y.116, A:Y.116
- Hydrophobic interactions: A:M.185
- Hydrogen bonds: B:Q.212
- 1 x NAG- NDG- BMA- BMA- BMA: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NDG-BMA-BMA-BMA.6: 10 residues within 4Å:- Chain A: L.207, E.208, Y.211, Q.212, P.239
- Chain B: E.109, N.113, Y.116, M.185, F.189
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Water bridges: A:L.207, A:Y.211, B:N.113, B:Y.116
- Hydrogen bonds: B:Y.116, A:P.239
- Hydrophobic interactions: B:M.185
- 8 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
BOG.7: 11 residues within 4Å:- Chain A: R.52, P.55, I.58, L.62, L.84, V.85, V.88, R.89, L.92, F.439, E.493
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:L.62, A:L.84, A:V.85
- Hydrogen bonds: A:R.89, A:E.493
- Water bridges: A:R.52, A:R.52, A:R.89
- Salt bridges: A:R.89
BOG.8: 1 residues within 4Å:- Chain A: I.43
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:I.43
BOG.9: 4 residues within 4Å:- Chain A: T.39, I.40, P.41, W.46
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:W.46, A:W.46
- Hydrogen bonds: A:T.39
- Water bridges: A:T.39
BOG.10: 7 residues within 4Å:- Chain A: F.60, L.61, H.64, G.65, W.67, L.68, W.69
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:L.68
BOG.15: 13 residues within 4Å:- Chain B: R.52, P.55, I.58, L.61, L.62, L.84, V.85, V.88, R.89, L.92, F.439, E.493
- Ligands: BOG.17
12 PLIP interactions:12 interactions with chain B- Hydrophobic interactions: B:L.61, B:L.62, B:L.84, B:V.85
- Hydrogen bonds: B:R.52, B:V.88, B:R.89, B:E.493, B:E.493
- Water bridges: B:R.89
- Salt bridges: B:R.52, B:R.89
BOG.16: 3 residues within 4Å:- Chain B: S.56, F.57, F.60
No protein-ligand interaction detected (PLIP)BOG.17: 6 residues within 4Å:- Chain B: R.52, I.58, L.84, T.87, V.88
- Ligands: BOG.15
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.52
BOG.18: 6 residues within 4Å:- Chain B: F.60, L.61, H.64, W.67, L.68, W.69
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:L.61, B:L.68
- Water bridges: B:G.65
- 2 x BFL: 2-(1,1'-BIPHENYL-4-YL)PROPANOIC ACID(Non-covalent)
BFL.11: 14 residues within 4Å:- Chain A: V.85, R.89, V.318, L.321, Y.324, L.328, Y.354, W.356, M.491, I.492, G.495, A.496, S.499, L.500
11 PLIP interactions:11 interactions with chain A- Hydrophobic interactions: A:V.318, A:L.321, A:Y.324, A:L.328, A:W.356, A:W.356, A:I.492, A:A.496
- Hydrogen bonds: A:Y.324, A:Y.324
- Salt bridges: A:R.89
BFL.19: 13 residues within 4Å:- Chain B: V.85, R.89, V.318, L.321, Y.324, L.328, Y.354, W.356, M.491, G.495, A.496, S.499, L.500
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:V.318, B:L.321, B:Y.324, B:L.328, B:Y.354, B:W.356, B:W.356, B:A.496
- Hydrogen bonds: B:Y.324
- Salt bridges: B:R.89
- 2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
HEM.12: 21 residues within 4Å:- Chain A: Y.117, A.168, A.171, Q.172, T.175, H.176, F.179, K.180, T.181, L.264, N.351, Y.354, H.355, W.356, H.357, M.360, Y.373, I.413, V.416, D.419
- Ligands: GOL.14
17 PLIP interactions:17 interactions with chain A,- Hydrophobic interactions: A:A.171, A:Q.172, A:F.179, A:F.179, A:L.264, A:W.356, A:Y.373, A:I.413
- Hydrogen bonds: A:Y.117, A:T.181, A:N.351, A:D.419, A:D.419
- Water bridges: A:F.179
- pi-Stacking: A:H.176, A:H.355
- Metal complexes: A:H.357
HEM.20: 23 residues within 4Å:- Chain B: Y.117, A.168, A.171, Q.172, T.175, H.176, F.179, K.180, T.181, L.263, L.264, N.351, Y.354, H.355, W.356, H.357, M.360, Y.373, I.413, V.416, D.419, E.423
- Ligands: GOL.23
20 PLIP interactions:20 interactions with chain B,- Hydrophobic interactions: B:A.171, B:Q.172, B:F.179, B:F.179, B:L.263, B:L.264, B:W.356, B:M.360, B:Y.373, B:I.413, B:V.416
- Hydrogen bonds: B:Y.117, B:F.179, B:T.181, B:T.181, B:N.351, B:D.419
- pi-Stacking: B:H.176, B:H.355
- Metal complexes: B:H.357
- 5 x GOL: GLYCEROL(Non-functional Binders)
GOL.13: 5 residues within 4Å:- Chain A: K.220, Y.223, V.230, N.279, D.283
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.220, A:K.220, A:N.279
GOL.14: 5 residues within 4Å:- Chain A: Q.172, H.176, V.260, L.263
- Ligands: HEM.12
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.172
GOL.21: 9 residues within 4Å:- Chain A: W.108
- Chain B: Y.203, G.204, D.205, N.206, L.207, Q.210, R.302
- Ligands: NAG-NDG-BMA-MAN-MAN.3
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:Y.203, B:L.207, B:R.302, B:R.302
- Water bridges: B:D.198, B:G.204
GOL.22: 4 residues within 4Å:- Chain B: K.220, Y.223, V.230, N.279
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.220, B:N.279
GOL.23: 5 residues within 4Å:- Chain B: Q.172, H.176, V.260, L.263
- Ligands: HEM.20
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:Q.172
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gupta, K. et al., The 2.0A Resolution Crystal Structure of Prostaglandin H(2) Synthase-1: Structural Insights into an Unusual Peroxidase. J.Mol.Biol. (2004)
- Release Date
- 2004-01-06
- Peptides
- Prostaglandin G/H synthase 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- BMA: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 1 x NAG- NDG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 1 x NAG- NDG- BMA- BMA- BMA: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 2 x BFL: 2-(1,1'-BIPHENYL-4-YL)PROPANOIC ACID(Non-covalent)
- 2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 5 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gupta, K. et al., The 2.0A Resolution Crystal Structure of Prostaglandin H(2) Synthase-1: Structural Insights into an Unusual Peroxidase. J.Mol.Biol. (2004)
- Release Date
- 2004-01-06
- Peptides
- Prostaglandin G/H synthase 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B