5SWA
Crystal structure of N-glycan transport solute binding protein (NgtS) from Streptococcus pneumoniae in complex with Man1GlcNAc
- PDB DOI: https://doi.org/10.2210/pdb5SWA/pdb
- Classification: HYDROLASE
- Organism(s): Streptococcus pneumoniae
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No 
- Deposited: 2016-08-08 Released: 2016-12-14 
- Funding Organization(s): Canadian Institutes of Health Research (CIHR)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.00 Å
- R-Value Free: 0.281 
- R-Value Work: 0.227 
- R-Value Observed: 0.229 
wwPDB Validation   3D Report Full Report
This is version 2.1 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 |
Extracellular solute-binding protein | 476 | Streptococcus pneumoniae | Mutation(s): 0  Gene Names: ERS020541_01426, ERS558328_01721 | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
BR Query on BR | E [auth A], F [auth B] | BROMIDE ION Br CPELXLSAUQHCOX-UHFFFAOYSA-M |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.00 Å
- R-Value Free: 0.281 
- R-Value Work: 0.227 
- R-Value Observed: 0.229 
- Space Group: P 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 39.99 | α = 89.17 |
b = 50.47 | β = 89.02 |
c = 107.89 | γ = 88.9 |
Software Name | Purpose |
---|---|
MOSFLM | data reduction |
SCALA | data scaling |
PHASER | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
Aimless | data scaling |
Entry History & Funding Information
Deposition Data
- Released Date: 2016-12-14  Deposition Author(s): Robb, M., Boraston, A.B.
Funding Organization | Location | Grant Number |
---|---|---|
Canadian Institutes of Health Research (CIHR) | Canada | MOP 130305 |
Revision History (Full details and data files)
- Version 1.0: 2016-12-14
Type: Initial release - Version 1.1: 2017-01-18
Changes: Database references - Version 1.2: 2017-09-20
Changes: Author supporting evidence, Refinement description - Version 1.3: 2020-01-08
Changes: Author supporting evidence - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-10-04
Changes: Data collection, Database references, Refinement description, Structure summary