Download MendeleyCrystal structure of the extracellular domain of human CD38
Kukimoto-Niino, M., Nureki, O., Murayama, K., Shirouzu, M., Katada, T., Hara-Yokoyama, M., Yokoyama, S.To be published.
2EF1
Crystal structure of the extracellular domain of human CD38
- PDB DOI: https://doi.org/10.2210/pdb2EF1/pdb
- Entry: 2EF1 supersedes: 2DF1
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-02-20 Released: 2007-02-27
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.256
- R-Value Work: 0.203
- R-Value Observed: 0.203
wwPDB Validation 3D Report Full Report
This is version 1.3 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| ADP-ribosyl cyclase 1 | 256 | Homo sapiens | Mutation(s): 0 Gene Names: CD38 EC: 3.2.2.5 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P28907 (Homo sapiens) Explore P28907 Go to UniProtKB: P28907 | |||||
PHAROS: P28907 GTEx: ENSG00000004468 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P28907 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EPE Query on EPE | C [auth A], D [auth B] | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.256
- R-Value Work: 0.203
- R-Value Observed: 0.203
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 57.593 | α = 90 |
| b = 51.164 | β = 97.53 |
| c = 101.135 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| HKL-2000 | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2007-02-27 Deposition Author(s): Kukimoto-Niino, M., Nureki, O., Murayama, K., Shirouzu, M., Katada, T., Hara-Yokoyama, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
- This entry supersedes: 2DF1
Revision History (Full details and data files)
- Version 1.0: 2007-02-27
Type: Initial release - Version 1.1: 2008-04-30
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description
