9W1K | pdb_00009w1k

Crystal structure of Aedes aegypti Dopachrome Conversion Enzyme.

  • Classification: ISOMERASE
  • Organism(s): Aedes aegypti
  • Mutation(s): No 

  • Deposited: 2025-07-25 Released: 2025-09-03 
  • Deposition Author(s): Guo, Y., Zhang, L., Guo, D., Deng, J., Li, J., Han, Q.
  • Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 
    0.256 (Depositor), 0.223 (DCC) 
  • R-Value Work: 
    0.208 (Depositor) 
  • R-Value Observed: 
    0.210 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history. 

Literature

Crystal structure of Aedes aegypti Dopachrome Conversion Enzyme.

Guo, Y., Zhang, L., Wang, S., Guo, D., Deng, J., Li, J., Han, Q.

To be published.

Macromolecule Content 

  • Total Structure Weight: 217.59 kDa 
  • Atom Count: 13,335 
  • Modeled Residue Count: 1,585 
  • Deposited Residue Count: 1,852 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Dopachrome conversion enzyme
A, B, C, D
463Aedes aegyptiMutation(s): 0 
UniProt
Find proteins for Q8T4S2 (Aedes aegypti)
Explore Q8T4S2 
Go to UniProtKB:  Q8T4S2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8T4S2
Glycosylation
Glycosylation Sites: 1
Sequence Annotations
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Reference Sequence

Oligosaccharides

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Entity ID: 2
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
E
3N-Glycosylation
Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose
F
3N/A
Entity ID: 4
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose
G
3N/A
Entity ID: 5
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-3)-[alpha-L-arabinopyranose-(1-6)]beta-D-mannopyranose-(1-4)-beta-D-mannopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-alpha-D-glucopyranose
H
6N/A
Entity ID: 6
MoleculeChains Length2D Diagram GlycosylationD Interactions
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
I
4N-Glycosylation
Entity ID: 7
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
J
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G90333CG
GlyCosmos: G90333CG
GlyGen: G90333CG
Entity ID: 8
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose
K
2N/A
Glycosylation Resources
GlyTouCan: G96721TP
GlyCosmos: G96721TP
GlyGen: G96721TP
Entity ID: 9
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
L
3N-Glycosylation

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ACY

Query on ACY


Download:Ideal Coordinates CCD File
AA [auth C]
CA [auth D]
DA [auth D]
EA [auth D]
FA [auth D]
AA [auth C],
CA [auth D],
DA [auth D],
EA [auth D],
FA [auth D],
GA [auth D],
HA [auth D],
N [auth A],
O [auth A],
P [auth A],
Q [auth A],
R [auth A],
S [auth A],
T [auth A],
V [auth B],
W [auth B],
X [auth B],
Z [auth C]
ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
CA

Query on CA


Download:Ideal Coordinates CCD File
BA [auth D],
M [auth A],
U [auth B],
Y [auth C]		CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free:  0.256 (Depositor), 0.223 (DCC) 
  • R-Value Work:  0.208 (Depositor) 
  • R-Value Observed: 0.210 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.76α = 90
b = 105.073β = 109.97
c = 101.404γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
SCALEPACKdata scaling
HKL-2000data reduction
MOLREPphasing
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

& Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI044399
National Natural Science Foundation of China (NSFC)ChinaU22A20363

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-03
    Type: Initial release