4RKK
Structure of a product bound phosphatase
- PDB DOI: https://doi.org/10.2210/pdb4RKK/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2014-10-13 Released: 2015-01-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.211
- R-Value Work: 0.166
- R-Value Observed: 0.171
This is version 2.1 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 |
| Laforin | A, B [auth C] | 332 | Homo sapiens | Mutation(s): 1 Gene Names: EPM2A EC: 3.1.3 (PDB Primary Data), 3.1.3.16 (PDB Primary Data), 3.1.3.48 (PDB Primary Data) |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O95278 (Homo sapiens) Explore O95278 Go to UniProtKB: O95278 | |||||
PHAROS: O95278 GTEx: ENSG00000112425 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O95278 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose | C [auth B], E, F | 6 |  | N/A | |
Glycosylation Resources | |||||
GlyTouCan: G91368RN GlyCosmos: G91368RN GlyGen: G91368RN | |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GLC Query on GLC | J [auth A], L [auth C] | alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N |  | ||
| PO4 Query on PO4 | I [auth A], K [auth C] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
Biologically Interesting Molecules (External Reference) 3 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900035 Query on PRD_900035 | C [auth B], E, F | alpha-maltohexaose | Oligosaccharide / Substrate analog |  | |
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900009 Query on PRD_900009 | D, G | alpha-maltotriose | Oligosaccharide / Nutrient |  | |
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900010 Query on PRD_900010 | H | alpha-maltotetraose | Oligosaccharide / Substrate analog |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.211
- R-Value Work: 0.166
- R-Value Observed: 0.171
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 78.706 | α = 90 |
| b = 78.706 | β = 90 |
| c = 321.124 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| PHENIX | model building |
| REFMAC | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2015-01-07 Deposition Author(s): Vander Kooi, C.W.
Revision History (Full details and data files)
- Version 1.0: 2015-01-07
Type: Initial release - Version 1.1: 2015-02-04
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2024-02-28
Changes: Data collection, Database references, Structure summary
