Download MendeleyCrystal structure of uncharacterized protein (YP_388795.1) from Desulfovibrio desulfuricans G20 at 1.94 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2Q30
Crystal structure of a rmlc-like cupin protein (dde_2303) from desulfovibrio desulfuricans subsp. at 1.94 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2Q30/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Oleidesulfovibrio alaskensis G20
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2007-05-29 Released: 2007-06-19
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.94 Å
- R-Value Free: 0.212
- R-Value Work: 0.167
- R-Value Observed: 0.169
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 |
| Uncharacterized protein | 110 | Oleidesulfovibrio alaskensis G20 | Mutation(s): 4 Gene Names: YP_388795.1, Dde_2303 |  | |
UniProt | |||||
Find proteins for Q30YZ6 (Oleidesulfovibrio alaskensis (strain ATCC BAA-1058 / DSM 17464 / G20)) Explore Q30YZ6 Go to UniProtKB: Q30YZ6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q30YZ6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | L [auth D] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| EDO Query on EDO | I [auth A] J [auth B] K [auth C] M [auth D] N [auth E] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D, E A, B, C, D, E, F, G, H | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.94 Å
- R-Value Free: 0.212
- R-Value Work: 0.167
- R-Value Observed: 0.169
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/M32Q30
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 43.14 | α = 90 |
| b = 133.95 | β = 93.04 |
| c = 74.66 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| ADSC | data collection |
| XDS | data reduction |
| SHARP | phasing |
Entry History
Deposition Data
- Released Date: 2007-06-19 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-06-19
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.5: 2023-01-25
Changes: Database references, Derived calculations
