Download MendeleyCrystal structure of N33D mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
Takagi, R., Nakanishi, T., Kitamura, M.To be published.
3VY2
N33D mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
- PDB DOI: https://doi.org/10.2210/pdb3VY2/pdb
- Classification: ELECTRON TRANSPORT
- Organism(s): Nitratidesulfovibrio vulgaris str. 'Miyazaki F
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2012-09-21 Released: 2013-09-25
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.192
- R-Value Work: 0.170
- R-Value Observed: 0.171
This is version 1.1 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 |
| FMN-binding protein | 122 | Nitratidesulfovibrio vulgaris str. 'Miyazaki F | Mutation(s): 1 Gene Names: DvMF_2023 |  | |
UniProt | |||||
Find proteins for Q46604 (Desulfovibrio vulgaris (strain DSM 19637 / Miyazaki F)) Explore Q46604 Go to UniProtKB: Q46604 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q46604 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FMN Query on FMN | C [auth A], D [auth B] | FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.192
- R-Value Work: 0.170
- R-Value Observed: 0.171
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 36.868 | α = 90 |
| b = 83.038 | β = 94.38 |
| c = 40.239 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| MOLREP | phasing |
| REFMAC | refinement |
| DENZO | data reduction |
| SCALEPACK | data scaling |
Entry History
Deposition Data
- Released Date: 2013-09-25 Deposition Author(s): Takagi, R., Nakanishi, T., Kitamura, M.
Revision History (Full details and data files)
- Version 1.0: 2013-09-25
Type: Initial release - Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description
