SMTL ID : 9w2c.1

Crystal structure of Aedes aegypti Dopachrome Conversion Enzyme with L-Dopamine.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.39 Å

Oligo State

homo-tetramer

Ligands

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 3 residues within 4Å: Chain A: D.46, W.74, N.145 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.46, A:D.46

1 x NDG- MAN- FUC: alpha-D-mannopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-MAN-FUC.2: 3 residues within 4Å: Chain B: D.46, W.74, N.145 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.46

1 x NDG- MAN- FUC: alpha-D-mannopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-MAN-FUC.3: 4 residues within 4Å: Chain C: W.74, A.109, L.111, N.145 No protein-ligand interaction detected (PLIP)

1 x NDG- BMA- MAN- BMA- ARB- FUC: beta-D-mannopyranose-(1-3)-[beta-L-arabinopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-beta-D-mannopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-BMA-MAN-BMA-ARB-FUC.4: 3 residues within 4Å: Chain D: D.46, W.74, N.145 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:N.145 Hydrogen bonds: D:N.145

1 x NAG- NAG- FUC- FUC: alpha-L-fucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC-FUC.5: 5 residues within 4Å: Chain A: N.285, T.287, A.288, R.291, D.297 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.291, A:D.297

1 x NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-MAN.6: 5 residues within 4Å: Chain B: A.281, N.285, T.287, A.288, R.291 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.287

1 x NDG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose(Post Translational Modification)

NDG-MAN.7: 4 residues within 4Å: Chain C: N.285, T.287, A.288, R.291 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.287, C:T.287

7 x CA: CALCIUM ION(Non-covalent)

CA.8: 4 residues within 4Å: Chain A: Q.204, D.245, D.246 Ligands: LDP.12 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.245, A:D.246, H2O.1, H2O.1 CA.9: 3 residues within 4Å: Chain A: H.60, K.62, E.367 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.60, A:K.62, A:E.367, H2O.1, H2O.1 CA.13: 4 residues within 4Å: Chain B: Q.204, D.245, D.246 Ligands: LDP.16 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.245, B:D.246, H2O.1, H2O.1 CA.14: 3 residues within 4Å: Chain B: H.60, K.62, E.367 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.60, B:K.62, B:E.367 CA.17: 4 residues within 4Å: Chain C: Q.204, D.245, D.246 Ligands: LDP.19 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.245, C:D.246, H2O.1, H2O.1 CA.18: 3 residues within 4Å: Chain C: H.60, N.63, E.367 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.60, C:E.367, C:E.367 CA.21: 4 residues within 4Å: Chain D: Q.204, D.245, D.246 Ligands: LDP.24 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.245, D:D.246, H2O.1, H2O.1

5 x ACY: ACETIC ACID(Non-functional Binders)

ACY.10: 2 residues within 4Å: Chain A: D.189, R.284 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.189 Salt bridges: A:R.284 ACY.11: 3 residues within 4Å: Chain A: D.234, F.235, Q.328 No protein-ligand interaction detected (PLIP) ACY.15: 5 residues within 4Å: Chain B: D.189, P.190, D.191, K.261, R.284 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.284 ACY.22: 2 residues within 4Å: Chain D: G.144, F.146 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.144 ACY.23: 2 residues within 4Å: Chain D: P.164, L.165 No protein-ligand interaction detected (PLIP)

4 x LDP: L-DOPAMINE(Non-covalent)

LDP.12: 6 residues within 4Å: Chain A: R.72, Q.204, W.244, D.245, D.246 Ligands: CA.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.244 Hydrogen bonds: A:R.72, A:D.245 LDP.16: 6 residues within 4Å: Chain B: Y.179, Q.204, W.244, D.245, D.246 Ligands: CA.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.244, B:W.244 Hydrogen bonds: B:Y.179, B:Q.204 LDP.19: 5 residues within 4Å: Chain C: Q.204, W.244, D.245, D.246 Ligands: CA.17 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:W.244 Hydrogen bonds: C:Q.204, C:D.245 Water bridges: C:Y.358 LDP.24: 6 residues within 4Å: Chain D: R.72, Q.204, W.244, D.245, D.246 Ligands: CA.21 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:W.244, D:W.244 Hydrogen bonds: D:R.72, D:D.245

1 x NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose(Post Translational Modification)

NDG.20: 3 residues within 4Å: Chain D: N.285, T.287, A.288 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, Y. et al., Crystal structure of Aedes aegypti Dopachrome Conversion Enzyme. To Be Published

Release Date

2025-09-24

Peptides

Dopachrome conversion enzyme: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Dopachrome conversion enzyme

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