3WSY
SorLA Vps10p domain in complex with its own propeptide fragment
- PDB DOI: https://doi.org/10.2210/pdb3WSY/pdb
- Classification: PROTEIN BINDING
- Organism(s): Homo sapiens
- Expression System: Cricetulus griseus
- Mutation(s): No
- Deposited: 2014-03-30 Released: 2015-02-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.11 Å
- R-Value Free: 0.232
- R-Value Work: 0.195
- R-Value Observed: 0.197
This is version 1.3 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Sortilin-related receptor | 678 | Homo sapiens | Mutation(s): 0 Gene Names: SORL1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q92673 (Homo sapiens) Explore Q92673 Go to UniProtKB: Q92673 | |||||
PHAROS: Q92673 GTEx: ENSG00000137642 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q92673 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| peptide from Sortilin-related receptor | B [auth C] | 15 | Homo sapiens | Mutation(s): 0 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q92673 (Homo sapiens) Explore Q92673 Go to UniProtKB: Q92673 | |||||
PHAROS: Q92673 GTEx: ENSG00000137642 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q92673 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | C [auth A], D [auth A], E [auth A], F [auth A], G [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.11 Å
- R-Value Free: 0.232
- R-Value Work: 0.195
- R-Value Observed: 0.197
- Space Group: I 41
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 158.186 | α = 90 |
| b = 158.186 | β = 90 |
| c = 145.458 | γ = 90 |
| Software Name | Purpose |
|---|---|
| UGUIS | data collection |
| MOLREP | phasing |
| REFMAC | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2015-02-04 Deposition Author(s): Kitago, Y., Nakata, Z., Nagae, M., Nogi, T., Takagi, J.
Revision History (Full details and data files)
- Version 1.0: 2015-02-04
Type: Initial release - Version 1.1: 2020-01-01
Changes: Database references, Derived calculations - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary
