2A2D
X-ray structure of human n-acetyl galactosamine kinase complexed with Mn-AMPPNP and n-acetyl glactosamine
- PDB DOI: https://doi.org/10.2210/pdb2A2D/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2005-06-22 Released: 2005-07-05
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.247
- R-Value Work: 0.203
- R-Value Observed: 0.207
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 |
| N-acetylgalactosamine kinase | 478 | Homo sapiens | Mutation(s): 0 Gene Names: GALK2, GK2 EC: 2.7.1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q01415 (Homo sapiens) Explore Q01415 Go to UniProtKB: Q01415 | |||||
PHAROS: Q01415 GTEx: ENSG00000156958 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q01415 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ANP Query on ANP | D [auth A] | PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N |  | ||
| A2G Query on A2G | B [auth A] | 2-acetamido-2-deoxy-alpha-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-CBQIKETKSA-N |  | ||
| MN Query on MN | C [auth A] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.247
- R-Value Work: 0.203
- R-Value Observed: 0.207
- Space Group: P 65
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 119.1 | α = 90 |
| b = 119.1 | β = 90 |
| c = 65.9 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PROTEUM PLUS | data collection |
| SAINT | data reduction |
| AMoRE | phasing |
| TNT | refinement |
| PROTEUM PLUS | data reduction |
| SAINT | data scaling |
Entry History
Deposition Data
- Released Date: 2005-07-05 Deposition Author(s): Thoden, J.B., Holden, H.M.
Revision History (Full details and data files)
- Version 1.0: 2005-07-05
Type: Initial release - Version 1.1: 2008-04-30
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2023-08-23
Changes: Data collection, Database references, Refinement description, Structure summary
