Download MendeleyX-ray crystal structure of clavaminate synthase with vanadyl, succinate, and deoxyproclavaminic acid
Vavra, J., Dunham, N.P., Krebs, C., Boal, A.K., Bollinger, J.M.To be published.
6VWQ
X-ray crystal structure of clavaminate synthase with vanadyl, succinate, and deoxyproclavaminic acid
- PDB DOI: https://doi.org/10.2210/pdb6VWQ/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Streptomyces antibioticus
- Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
- Mutation(s): No
- Deposited: 2020-02-20 Released: 2021-02-24
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.207
- R-Value Work: 0.177
- R-Value Observed: 0.179
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
Currently 6VWQ does not have a validation slider image.
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: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Clavaminate synthase 3 | 346 | Streptomyces antibioticus | Mutation(s): 0 Gene Names: cas3 EC: 1.14.11.21 |  | |
UniProt | |||||
Find proteins for I0CBY7 (Streptomyces antibioticus) Explore I0CBY7 Go to UniProtKB: I0CBY7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | I0CBY7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| RQJ Query on RQJ | D [auth A] | deoxyproclavaminic acid C8 H14 N2 O3 WVWZICZAWWGULB-LURJTMIESA-N |  | ||
| SIN Query on SIN | C [auth A] | SUCCINIC ACID C4 H6 O4 KDYFGRWQOYBRFD-UHFFFAOYSA-N |  | ||
| VVO Query on VVO | B [auth A] | oxovanadium(2+) O V MHHDXUNFNAZUGB-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.207
- R-Value Work: 0.177
- R-Value Observed: 0.179
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 79.213 | α = 90 |
| b = 79.213 | β = 90 |
| c = 105.45 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data scaling |
| HKL-3000 | data reduction |
| PHASER | phasing |
Structure Validation
Currently 6VWQ does not have a validation slider image.
Entry History & Funding Information
Deposition Data
- Released Date: 2021-02-24 Deposition Author(s): Boal, A.K., Vavra, J.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | -- |
Revision History (Full details and data files)
- Version 1.0: 2021-02-24
Type: Initial release - Version 1.1: 2022-03-16
Changes: Author supporting evidence, Database references - Version 1.2: 2023-10-11
Changes: Data collection, Refinement description
