Download MendeleyCrystal structure of Putative calcium/calmodulin-dependent protein kinase type II association domain (YP_315894.1) from THIOBACILLUS DENITRIFICANS ATCC 25259 at 2.00 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3GWR | pdb_00003gwr
Crystal structure of Putative calcium/calmodulin-dependent protein kinase type II association domain (YP_315894.1) from THIOBACILLUS DENITRIFICANS ATCC 25259 at 2.00 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3GWR/pdb
- Classification: PROTEIN BINDING
- Organism(s): Thiobacillus denitrificans ATCC 25259
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-04-01 Released: 2009-04-14
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.01 Å
- R-Value Free: 0.211 (Depositor), 0.220 (DCC)
- R-Value Work: 0.173 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.175 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Putative calcium/calmodulin-dependent protein kinase type II association domain | 144 | Thiobacillus denitrificans ATCC 25259 | Mutation(s): 0 Gene Names: Tbd_2136, YP_315894.1 |  | |
UniProt | |||||
Find proteins for Q3SH04 (Thiobacillus denitrificans (strain ATCC 25259 / T1)) Explore Q3SH04 Go to UniProtKB: Q3SH04 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q3SH04 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PG4 Query on PG4 | D [auth A] E [auth A] F [auth A] H [auth B] I [auth B] | TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N |  | ||
| UNL Query on UNL | C [auth A], G [auth B] | Unknown ligand UWHCKJMYHZGTIT-UHFFFAOYSA-N | |||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.01 Å
- R-Value Free: 0.211 (Depositor), 0.220 (DCC)
- R-Value Work: 0.173 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.175 (Depositor)
Diffraction Data: https://doi.org/10.18430/M33GWR
Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 41.445 | α = 90 |
| b = 89.655 | β = 90 |
| c = 90.259 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2009-04-14 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2009-04-14
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-27
Changes: Data collection, Refinement description, Structure summary
