4AWS
Crystal structure of the oxidized Shewanella Yellow Enzyme 1 (SYE1) M25L mutant
- PDB DOI: https://doi.org/10.2210/pdb4AWS/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Shewanella oneidensis MR-1
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes 
- Deposited: 2012-06-05 Released: 2013-06-26 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.00 Å
- R-Value Free: 0.135 
- R-Value Observed: 0.116 
This is version 1.3 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
SYE1 | 365 | Shewanella oneidensis MR-1 | Mutation(s): 1  EC: 1.6.99.1 | ||
UniProt | |||||
Find proteins for Q8EEC8 (Shewanella oneidensis (strain MR-1)) Explore Q8EEC8  Go to UniProtKB:  Q8EEC8 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q8EEC8 | ||||
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 | B [auth A] | FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N | |||
PE4 Query on PE4 | G [auth A] | 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL C16 H34 O8 PJWQOENWHPEPKI-UHFFFAOYSA-N | |||
BOG Query on BOG | D [auth A], E [auth A] | octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N | |||
SO4 Query on SO4 | C [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
01F Query on 01F | F [auth A] | ethyl hydrogen carbonate C3 H6 O3 CQDGTJPVBWZJAZ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.00 Å
- R-Value Free: 0.135 
- R-Value Observed: 0.116 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 48.56 | α = 90 |
b = 83.9 | β = 90 |
c = 87.76 | γ = 90 |
Software Name | Purpose |
---|---|
SHELXL-97 | refinement |
XDS | data reduction |
XSCALE | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2013-06-26  Deposition Author(s): Elegheert, J., Brige, A., Savvides, S.N.
Revision History (Full details and data files)
- Version 1.0: 2013-06-26
Type: Initial release - Version 1.1: 2019-05-22
Changes: Data collection, Derived calculations, Other, Refinement description - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Other, Structure summary - Version 1.3: 2023-12-20
Changes: Data collection, Database references, Refinement description, Structure summary