9AV4

Design and application of synthetic 17B-HSD13 substrates to drug discovery, and to reveal preserved catalytic activity of protective human variants

• PDB DOI: https://doi.org/10.2210/pdb9AV4/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Insect BA phytoplasma
• Mutation(s): Yes 


• Deposited: 2024-03-01 Released: 2024-11-27 
• Deposition Author(s): Liu, S.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.239 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 

Starting Model: experimental

Literature

Design and application of synthetic 17B-HSD13 substrates to drug discovery, and to reveal preserved catalytic activity of protective human variants

Liu, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 72.76 kDa 
• Atom Count: 4,139 
• Modelled Residue Count: 503 
• Deposited Residue Count: 630 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hydroxysteroid 17-beta dehydrogenase 13	A, B	315	Homo sapiens	Mutation(s): 4  Gene Names: HSD17B13, HSD17B11
UniProt
Find proteins for A0A8C0PP93 (Canis lupus familiaris) Explore A0A8C0PP93  Go to UniProtKB:  A0A8C0PP93

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD (Subject of Investigation/LOI)	C [auth A], E [auth B]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
A1AG4 (Subject of Investigation/LOI)	D [auth A], F [auth B]	4-(3,4-dichlorobenzene-1-sulfonamido)-2-fluorobenzoic acid C13 H8 Cl2 F N O4 S MZRQIERHJHPZRP-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.239 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 186.97	α = 90
b = 76.06	β = 94.69
c = 65.24	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
autoPROC	data reduction
STARANISO	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-27 
Deposition Author(s): Liu, S.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-11-27
  Type: Initial release