Download MendeleyCrystal structure of Rru_A2000 from Rhodospirillum rubrum: A cupin-2 domain.
Ramagopal, U.A., Toro, R., Burley, S.K., Almo, S.C.To be published.
3JZV
Crystal structure of Rru_A2000 from Rhodospirillum rubrum: A cupin-2 domain.
- PDB DOI: https://doi.org/10.2210/pdb3JZV/pdb
- Classification: structural genomics, unknown function
- Organism(s): Rhodospirillum rubrum ATCC 11170
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2009-09-24 Released: 2009-10-13
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.278
- R-Value Work: 0.225
- R-Value Observed: 0.227
wwPDB Validation 3D Report Full Report
This is version 1.3 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 |
| uncharacterized protein Rru_A2000 | 166 | Rhodospirillum rubrum ATCC 11170 | Mutation(s): 0 Gene Names: Rru_A2000 |  | |
UniProt | |||||
Find proteins for Q2RSU5 (Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIMB 8255 / S1)) Explore Q2RSU5 Go to UniProtKB: Q2RSU5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q2RSU5 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MN Query on MN | B [auth A] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.278
- R-Value Work: 0.225
- R-Value Observed: 0.227
- Space Group: H 3 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 90.886 | α = 90 |
| b = 90.886 | β = 90 |
| c = 161.252 | γ = 120 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| ADSC | data collection |
| HKL-2000 | data reduction |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2009-10-13 Deposition Author(s): Ramagopal, U.A., Toro, R., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)
Revision History (Full details and data files)
- Version 1.0: 2009-10-13
Type: Initial release - Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2021-02-10
Changes: Database references, Derived calculations, Structure summary
