10OT | pdb_000010ot

Crystal structure of mouse CD38 in complex with compound 6

• PDB DOI: https://doi.org/10.2210/pdb10OT/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Cricetulus griseus
• Mutation(s): Yes 


• Deposited: 2026-01-29 Released: 2026-10-07 
• Deposition Author(s): Jain, R., Bigelow, L.
• Funding Organization(s): Not funded

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.280 (Depositor), 0.279 (DCC) 
• R-Value Work: 
  0.264 (Depositor), 0.266 (DCC) 
• R-Value Observed: 
  0.265 (Depositor) 

Starting Model: experimental

Literature

Design and Exploration of a Tricyclic Series of CNS-Penetrant CD38 Small Molecule Inhibitors

Hodges, T.R., Jang, Y., Korch, K., Osuma, A., Randolph, J.T., Shiroodi, R., Bergstrom, B.D., Brosey, C., Jejurkar, P., Sheehan, M.M., Sadowski, R.N., Lin, K.A., Brown, J.W., Balakrishnan, A., Zoi, I., Bigelow, L., Jain, R., Bradley, N.P., Chapman, A., Korepanova, A., Swensen, A.M., Benekareddy, M., Shotwell, J.B.

(2026) ACS Med Chem Lett 

• DOI: https://doi.org/10.1021/acsmedchemlett.6c00301

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 62.23 kDa 
• Atom Count: 4,367 
• Modeled Residue Count: 496 
• Deposited Residue Count: 526 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1	A, B	263	Mus musculus	Mutation(s): 5  Gene Names: Cd38 EC: 3.2.2 (PDB Primary Data), 3.2.2.6 (PDB Primary Data), 2.4.99.20 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P56528 (Mus musculus) Explore P56528  Go to UniProtKB:  P56528
IMPC:  MGI:107474

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1C64	C [auth A], E [auth B]	[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-[3-[4-(1-cyclopropylsulfonylpyrazol-4-yl)pyrimidin-2-yl]imidazol-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate C28 H34 N11 O15 P2 S JFCHBAHPTOIUPD-NUGCJFILSA-O
ACT	D [auth A], F [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.280 (Depositor), 0.279 (DCC) 
• R-Value Work:  0.264 (Depositor), 0.266 (DCC) 
• R-Value Observed: 0.265 (Depositor) 

Space Group: P 2₁ 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 128.965	α = 90
b = 58.151	β = 90
c = 87.86	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-07 
Deposition Author(s): Jain, R., Bigelow, L.

---

Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2026-10-07
  Type: Initial release