- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.60 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- XYP- FUC: beta-D-xylopyranose-(1-2)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 2 x NAG- NAG- BMA- XYP- MAN- FUC: beta-D-xylopyranose-(1-2)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-XYP-MAN-FUC.3: 4 residues within 4Å:- Chain A: N.292, T.294, Q.297, I.300
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.297, A:Q.297, A:Q.297, A:Q.297, A:Q.297
- Water bridges: A:Q.297, A:D.301
NAG-NAG-BMA-XYP-MAN-FUC.27: 4 residues within 4Å:- Chain B: N.292, T.294, Q.297, I.300
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.297, B:Q.297, B:Q.297, B:Q.297, B:Q.297
- Water bridges: B:Q.297
- 12 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.4: 6 residues within 4Å:- Chain A: T.17, D.18, A.19, N.21, S.24, P.501
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:P.501
- Hydrogen bonds: A:D.18, A:N.21
- Water bridges: A:A.19, A:N.441
NAG.5: 2 residues within 4Å:- Chain A: N.90, S.500
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.90, A:S.500
NAG.6: 3 residues within 4Å:- Chain A: K.165, L.240, N.244
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:L.240
- Hydrogen bonds: A:N.244
- Water bridges: A:N.244
NAG.7: 4 residues within 4Å:- Chain A: Y.58, N.60, S.213
- Ligands: SO4.19
2 PLIP interactions:2 interactions with chain A- Water bridges: A:N.60, A:S.213
NAG.8: 3 residues within 4Å:- Chain A: S.344, N.346, M.351
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.344
- Water bridges: A:N.346, A:N.346
NAG.9: 2 residues within 4Å:- Chain A: N.482, D.485
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.482, A:D.485
- Water bridges: A:T.484, A:D.485
NAG.28: 6 residues within 4Å:- Chain B: T.17, D.18, A.19, N.21, S.24, P.501
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:P.501
- Hydrogen bonds: B:N.21
- Water bridges: B:A.19, B:N.441, B:P.501
NAG.29: 2 residues within 4Å:- Chain B: N.90, S.500
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.90, B:S.500
NAG.30: 3 residues within 4Å:- Chain B: K.165, L.240, N.244
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:L.240
- Hydrogen bonds: B:N.244
- Water bridges: B:N.244
NAG.31: 4 residues within 4Å:- Chain B: Y.58, N.60, S.213
- Ligands: SO4.43
2 PLIP interactions:2 interactions with chain B- Water bridges: B:N.60, B:S.213
NAG.32: 3 residues within 4Å:- Chain B: S.344, N.346, M.351
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:S.344
- Water bridges: B:N.346, B:N.346
NAG.33: 2 residues within 4Å:- Chain B: N.482, D.485
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:N.482, B:D.485
- Water bridges: B:T.484, B:D.485, B:D.485
- 2 x ASC: ASCORBIC ACID(Non-covalent)
ASC.10: 9 residues within 4Å:- Chain A: Q.187, I.257, R.259, Y.330, F.331, F.371, F.473
- Ligands: GOX.11, SO4.23
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Q.187, A:R.259
- Water bridges: A:S.190
- Salt bridges: A:R.259
ASC.34: 9 residues within 4Å:- Chain B: Q.187, I.257, R.259, Y.330, F.331, F.371, F.473
- Ligands: GOX.35, SO4.47
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:Q.187, B:R.259
- Water bridges: B:S.190, B:E.464
- Salt bridges: B:R.259
- 2 x GOX: (2S,3S,4R,5R)-6-(HYDROXYAMINO)-2-(HYDROXYMETHYL)-2,3,4,5-TETRAHYDROPYRIDINE-3,4,5-TRIOL(Non-covalent)
GOX.11: 14 residues within 4Å:- Chain A: Q.39, H.141, N.186, Q.187, I.257, N.328, Y.330, E.409, W.457, E.464, F.465, F.473
- Ligands: ASC.10, SO4.23
10 PLIP interactions:10 interactions with chain A- Hydrogen bonds: A:Q.39, A:Q.39, A:H.141, A:N.186, A:Q.187, A:Q.187, A:Q.187, A:N.328
- Water bridges: A:N.462, A:E.464
GOX.35: 14 residues within 4Å:- Chain B: Q.39, H.141, N.186, Q.187, I.257, N.328, Y.330, E.409, W.457, E.464, F.465, F.473
- Ligands: ASC.34, SO4.47
12 PLIP interactions:12 interactions with chain B- Hydrogen bonds: B:Q.39, B:Q.39, B:H.141, B:N.186, B:Q.187, B:Q.187, B:Q.187, B:N.328
- Water bridges: B:N.462, B:E.464, B:E.464, B:E.464
- 2 x ZN: ZINC ION(Non-covalent)
ZN.12: 5 residues within 4Å:- Chain A: H.56, D.70
- Chain B: H.56, D.70
- Ligands: ZN.36
5 PLIP interactions:2 interactions with chain B, 3 interactions with chain A- Metal complexes: B:H.56, B:D.70, A:H.56, A:D.70, A:D.70
ZN.36: 5 residues within 4Å:- Chain A: H.56, D.70
- Chain B: H.56, D.70
- Ligands: ZN.12
5 PLIP interactions:2 interactions with chain A, 3 interactions with chain B- Metal complexes: A:H.56, A:D.70, B:H.56, B:D.70, B:D.70
- 16 x SO4: SULFATE ION(Non-functional Binders)
SO4.13: 3 residues within 4Å:- Chain A: E.153, R.205
- Chain B: R.106
Ligand excluded by PLIPSO4.14: 2 residues within 4Å:- Chain A: K.108, R.111
Ligand excluded by PLIPSO4.15: 2 residues within 4Å:- Chain A: R.259, Q.333
Ligand excluded by PLIPSO4.16: 3 residues within 4Å:- Chain A: Q.7, E.8, N.9
Ligand excluded by PLIPSO4.17: 4 residues within 4Å:- Chain A: R.269, H.270, A.273, R.277
Ligand excluded by PLIPSO4.18: 3 residues within 4Å:- Chain A: R.109, V.113, E.173
Ligand excluded by PLIPSO4.19: 3 residues within 4Å:- Chain A: N.60, H.66
- Ligands: NAG.7
Ligand excluded by PLIPSO4.23: 6 residues within 4Å:- Chain A: Q.187, I.257, R.259, Y.330
- Ligands: ASC.10, GOX.11
Ligand excluded by PLIPSO4.37: 3 residues within 4Å:- Chain A: R.106
- Chain B: E.153, R.205
Ligand excluded by PLIPSO4.38: 2 residues within 4Å:- Chain B: K.108, R.111
Ligand excluded by PLIPSO4.39: 2 residues within 4Å:- Chain B: R.259, Q.333
Ligand excluded by PLIPSO4.40: 3 residues within 4Å:- Chain B: Q.7, E.8, N.9
Ligand excluded by PLIPSO4.41: 4 residues within 4Å:- Chain B: R.269, H.270, A.273, R.277
Ligand excluded by PLIPSO4.42: 3 residues within 4Å:- Chain B: R.109, V.113, E.173
Ligand excluded by PLIPSO4.43: 3 residues within 4Å:- Chain B: N.60, H.66
- Ligands: NAG.31
Ligand excluded by PLIPSO4.47: 6 residues within 4Å:- Chain B: Q.187, I.257, R.259, Y.330
- Ligands: ASC.34, GOX.35
Ligand excluded by PLIP- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.20: 9 residues within 4Å:- Chain A: G.53, F.54, R.57, Y.58, Q.146, Q.149, D.150, P.203, Y.215
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.57, A:Q.146
GOL.21: 3 residues within 4Å:- Chain A: H.247, Q.248, G.249
No protein-ligand interaction detected (PLIP)GOL.22: 3 residues within 4Å:- Chain A: I.129, G.132, T.134
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:I.129, A:T.134
- Water bridges: A:G.132, A:T.134, A:T.134
GOL.24: 1 residues within 4Å:- Chain A: R.269
No protein-ligand interaction detected (PLIP)GOL.44: 9 residues within 4Å:- Chain B: G.53, F.54, R.57, Y.58, Q.146, Q.149, D.150, P.203, Y.215
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.57, B:Q.146
- Water bridges: B:D.150
GOL.45: 3 residues within 4Å:- Chain B: H.247, Q.248, G.249
No protein-ligand interaction detected (PLIP)GOL.46: 3 residues within 4Å:- Chain B: I.129, G.132, T.134
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:I.129, B:T.134
- Water bridges: B:G.132, B:T.134
GOL.48: 1 residues within 4Å:- Chain B: R.269
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Burmeister, W.P. et al., High resolution X-ray crystallography shows that ascorbate is a cofactor for myrosinase and substitutes for the function of the catalytic base. J. Biol. Chem. (2000)
- Release Date
- 2001-01-05
- Peptides
- MYROSINASE MA1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
MB
M
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.60 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- XYP- FUC: beta-D-xylopyranose-(1-2)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 2 x NAG- NAG- BMA- XYP- MAN- FUC: beta-D-xylopyranose-(1-2)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 12 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x ASC: ASCORBIC ACID(Non-covalent)
- 2 x GOX: (2S,3S,4R,5R)-6-(HYDROXYAMINO)-2-(HYDROXYMETHYL)-2,3,4,5-TETRAHYDROPYRIDINE-3,4,5-TRIOL(Non-covalent)
- 2 x ZN: ZINC ION(Non-covalent)
- 16 x SO4: SULFATE ION(Non-functional Binders)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Burmeister, W.P. et al., High resolution X-ray crystallography shows that ascorbate is a cofactor for myrosinase and substitutes for the function of the catalytic base. J. Biol. Chem. (2000)
- Release Date
- 2001-01-05
- Peptides
- MYROSINASE MA1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
MB
M