Download MendeleyCrystal structure of putative NAD(P)H:FMN oxidoreductase (NP_765521.1) from Staphylococcus epidermidis ATCC 12228 at 2.00 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3GBH
CRYSTAL STRUCTURE OF A PUTATIVE NAD(P)H:FMN OXIDOREDUCTASE (SE1966) FROM STAPHYLOCOCCUS EPIDERMIDIS ATCC 12228 AT 2.00 A RESOLUTION
- PDB DOI: https://doi.org/10.2210/pdb3GBH/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Staphylococcus epidermidis ATCC 12228
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-02-19 Released: 2009-03-03
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.185
- R-Value Work: 0.146
- R-Value Observed: 0.148
This is version 1.4 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 |
| NAD(P)H-flavin oxidoreductase | 213 | Staphylococcus epidermidis ATCC 12228 | Mutation(s): 0 Gene Names: NP_765521.1, SE_1966 |  | |
UniProt | |||||
Find proteins for A0A0H2VHN8 (Staphylococcus epidermidis (strain ATCC 12228 / FDA PCI 1200)) Explore A0A0H2VHN8 Go to UniProtKB: A0A0H2VHN8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0H2VHN8 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 5 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FMN Query on FMN | E [auth A], H [auth B], O [auth C], S [auth D] | FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N |  | ||
| PGE Query on PGE | L [auth B], V [auth D] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N |  | ||
| GOL Query on GOL | G [auth A] J [auth B] K [auth B] Q [auth C] R [auth C] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| CA Query on CA | M [auth B], N [auth B], W [auth D], X [auth D], Y [auth D] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| UNL Query on UNL | F [auth A], I [auth B], P [auth C], T [auth D] | Unknown ligand BHPQYMZQTOCNFJ-UHFFFAOYSA-N | |||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.185
- R-Value Work: 0.146
- R-Value Observed: 0.148
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/M33GBH
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 61.85 | α = 90 |
| b = 86.15 | β = 90 |
| c = 160.9 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| XDS | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2009-03-03 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2009-03-03
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Refinement description, Version format compliance - Version 1.2: 2017-10-25
Changes: Author supporting evidence, 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
