Download MendeleyStructure of PWWP-DNA complex at 2.84 Angstroms resolution
Chen, L.Y., Huang, Y.C., Hsieh, Y.C., Lin, P.J.To be published.
5XSK | pdb_00005xsk
Crystal structure of PWWP-DNA complex for human hepatoma-derived growth factor
- PDB DOI: https://doi.org/10.2210/pdb5XSK/pdb
- NAKB: 5XSK
- Classification: HORMONE
- Organism(s): Escherichia coli BL21, Rattus norvegicus
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2017-06-14 Released: 2018-06-20
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.84 Å
- R-Value Free: 0.269 (Depositor), 0.260 (DCC)
- R-Value Work: 0.191 (Depositor), 0.200 (DCC)
- R-Value Observed: 0.195 (Depositor)
Starting Model: experimental
View more details
This is version 1.2 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Hepatoma-derived growth factor | C [auth A], D [auth B] | 120 | Rattus norvegicus | Mutation(s): 0 Gene Names: Hdgf |  |
UniProt | |||||
Find proteins for Q8VHK7 (Rattus norvegicus) Explore Q8VHK7 Go to UniProtKB: Q8VHK7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8VHK7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MPD (Subject of Investigation/LOI) Query on MPD | E [auth A], F [auth B] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.84 Å
- R-Value Free: 0.269 (Depositor), 0.260 (DCC)
- R-Value Work: 0.191 (Depositor), 0.200 (DCC)
- R-Value Observed: 0.195 (Depositor)
Space Group: P 31
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 32.402 | α = 90 |
| b = 32.402 | β = 90 |
| c = 205.82 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2018-06-20 Deposition Author(s): Chen, L.Y., Huang, Y.C., Hsieh, Y.C., Lin, P.J., Chen, C.J.
Revision History (Full details and data files)
- Version 1.0: 2018-06-20
Type: Initial release - Version 1.1: 2018-06-27
Changes: Data collection, Derived calculations - Version 1.2: 2023-11-22
Changes: Data collection, Database references, Refinement description
