Download MendeleyCrystal structure of the first two Ubl domains of Deubiquitylase USP7
Ong, M.S., Walker, J.R., Dong, A., Dhe-Paganon, S., Kania, J., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Tong, Y., Structural Genomics Consortium (SGC)To be published.
4PYZ
Crystal structure of the first two Ubl domains of Deubiquitylase USP7
- PDB DOI: https://doi.org/10.2210/pdb4PYZ/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2014-03-28 Released: 2014-04-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.84 Å
- R-Value Free: 0.287 (Depositor), 0.310 (DCC)
- R-Value Work: 0.244 (Depositor), 0.250 (DCC)
- R-Value Observed: 0.245 (Depositor)
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.3 of the entry. See complete history.
Literature
To be published.
Macromolecules
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(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ubiquitin carboxyl-terminal hydrolase 7 | 273 | Homo sapiens | Mutation(s): 0 Gene Names: USP7, HAUSP EC: 3.4.19.12 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q93009 (Homo sapiens) Explore Q93009 Go to UniProtKB: Q93009 | |||||
PHAROS: Q93009 GTEx: ENSG00000187555 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q93009 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| UNX Query on UNX | C [auth B], D [auth B] | UNKNOWN ATOM OR ION X |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.84 Å
- R-Value Free: 0.287 (Depositor), 0.310 (DCC)
- R-Value Work: 0.244 (Depositor), 0.250 (DCC)
- R-Value Observed: 0.245 (Depositor)
Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 68.328 | α = 90 |
| b = 103.755 | β = 90 |
| c = 116.197 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SCALEPACK | data scaling |
| BUSTER-TNT | refinement |
| PDB_EXTRACT | data extraction |
| SBC-Collect | data collection |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| PHASER | phasing |
| BUSTER | refinement |
| Coot | model building |
Entry History
Deposition Data
- Released Date: 2014-04-16 Deposition Author(s): Walker, J.R., Dong, A., Ong, M.S., Dhe-Paganon, S., Kania, J., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Tong, Y., Structural Genomics Consortium (SGC)
Revision History (Full details and data files)
- Version 1.0: 2014-04-16
Type: Initial release - Version 1.1: 2017-11-22
Changes: Refinement description - Version 1.2: 2023-09-20
Changes: Data collection, Database references, Refinement description - Version 1.3: 2024-10-09
Changes: Structure summary
