4GQ0 | pdb_00004gq0

Crystal structure of AKR1B10 complexed with NADP+ and Caffeic acid phenethyl ester

• PDB DOI: https://doi.org/10.2210/pdb4GQ0/pdb
• Entry: 4GQ0 supersedes: 3V9Q

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-08-22 Released: 2013-08-28 
• Deposition Author(s): Liping, Z., Xuehua, Z., Shangke, C., Jing, Z., Xiaopeng, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.225 (Depositor), 0.217 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.168 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of AKR1B10 complexed with NADP+ and Caffeic acid phenethyl ester

Liping, Z., Xuehua, Z., Shangke, C., Jing, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 37.33 kDa 
• Atom Count: 2,813 
• Modeled Residue Count: 318 
• Deposited Residue Count: 318 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldo-keto reductase family 1 member B10	A	318	Homo sapiens	Mutation(s): 0  Gene Names: AKR1B10 EC: 1.1.1 (PDB Primary Data), 1.1.1.372 (UniProt), 1.1.1.21 (UniProt), 1.1.1.300 (UniProt), 1.1.1.54 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P15121 (Homo sapiens) Explore P15121  Go to UniProtKB:  P15121
PHAROS:  P15121 GTEx:  ENSG00000085662

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	C [auth A]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
QAP	B [auth A]	2-phenylethyl (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoate C17 H16 O4 SWUARLUWKZWEBQ-VQHVLOKHSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
QAP	BindingDB:  4GQ0	Ki: 46 (nM) from 1 assay(s)
		IC50: min: 80, max: 390 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.225 (Depositor), 0.217 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.168 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.593	α = 90
b = 90.593	β = 90
c = 78.372	γ = 120

Software Package:

Software Name	Purpose
CrysalisPro	data collection
MOLREP	phasing
PHENIX	refinement
CrysalisPro	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-08-28 
Deposition Author(s): Liping, Z., Xuehua, Z., Shangke, C., Jing, Z., Xiaopeng, H.
• This entry supersedes: 3V9Q

Revision History  

• Version 1.0: 2013-08-28
  Type: Initial release
  
• Version 1.1: 2013-12-04
  Changes: Other
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description