6NU8
Structure of sucrose-6-phosphate hydrolase from Lactobacillus gasseri in complex with fructose
- PDB DOI: https://doi.org/10.2210/pdb6NU8/pdb
- Classification: HYDROLASE
- Organism(s): Lactobacillus gasseri 224-1
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2019-01-31 Released: 2020-02-05 
- Funding Organization(s): Sao Paulo Research Foundation (FAPESP), Brazilian National Council for Scientific and Technological Development (CNPq)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.165 
- R-Value Work: 0.134 
- R-Value Observed: 0.136 
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 |
Sucrose-6-phosphate hydrolase | 489 | Lactobacillus gasseri 224-1 | Mutation(s): 0  Gene Names: HMPREF9209_2365 EC: 3.2.1.26 | ||
UniProt | |||||
Find proteins for D1YK18 (Lactobacillus gasseri 224-1) Explore D1YK18  Go to UniProtKB:  D1YK18 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | D1YK18 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
FRU Query on FRU | B [auth A] | beta-D-fructofuranose C6 H12 O6 RFSUNEUAIZKAJO-ARQDHWQXSA-N | |||
EDO Query on EDO | C [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.165 
- R-Value Work: 0.134 
- R-Value Observed: 0.136 
- Space Group: P 4 21 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 103.86 | α = 90 |
b = 103.86 | β = 90 |
c = 102 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
TRUNCATE | data reduction |
Aimless | data scaling |
PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-02-05  Deposition Author(s): Lima, M.Z.T., Muniz, J.R.C.
Funding Organization | Location | Grant Number |
---|---|---|
Sao Paulo Research Foundation (FAPESP) | Brazil | 2017/16291-5 |
Brazilian National Council for Scientific and Technological Development (CNPq) | Brazil | 309767/2015-6 |
Brazilian National Council for Scientific and Technological Development (CNPq) | Brazil | 486546/2013-6 |
Brazilian National Council for Scientific and Technological Development (CNPq) | Brazil | 308865/2018-9 |
Revision History (Full details and data files)
- Version 1.0: 2020-02-05
Type: Initial release - Version 1.1: 2020-02-12
Changes: Structure summary - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2024-03-13
Changes: Data collection, Database references, Structure summary