3HM8
Crystal structure of the C-terminal Hexokinase domain of human HK3
- PDB DOI: https://doi.org/10.2210/pdb3HM8/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2009-05-28 Released: 2009-08-11 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.270 
- R-Value Work: 0.245 
- R-Value Observed: 0.245 
This is version 1.4 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 |
Hexokinase-3 | 445 | Homo sapiens | Mutation(s): 0  Gene Names: HK3 EC: 2.7.1.1 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P52790 (Homo sapiens) Explore P52790  Go to UniProtKB:  P52790 | |||||
PHAROS:  P52790 GTEx:  ENSG00000160883  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P52790 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
BG6 Query on BG6 | F [auth A], H [auth B], J [auth C], L [auth D] | 6-O-phosphono-beta-D-glucopyranose C6 H13 O9 P NBSCHQHZLSJFNQ-VFUOTHLCSA-N | |||
GLC Query on GLC | E [auth A], G [auth B], I [auth C], K [auth D] | alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.270 
- R-Value Work: 0.245 
- R-Value Observed: 0.245 
- Space Group: P 41
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 83.904 | α = 90 |
b = 83.904 | β = 90 |
c = 323.327 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
PHASER | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
Entry History 
Deposition Data
- Released Date: 2009-08-11  Deposition Author(s): Nedyalkova, L., Tong, Y., Rabeh, W., Tempel, W., Landry, R., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)
Revision History (Full details and data files)
- Version 1.0: 2009-08-11
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.4: 2023-09-06
Changes: Data collection, Database references, Refinement description, Structure summary