2GMP
Metal-free (apo) P. angolensis seed lectin in complex with GlcNAC-beta(1-2)Man
- PDB DOI: https://doi.org/10.2210/pdb2GMP/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Pterocarpus angolensis
- Mutation(s): No 
- Deposited: 2006-04-07 Released: 2006-07-25 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.255 
- R-Value Work: 0.198 
- R-Value Observed: 0.203 
wwPDB Validation   3D Report Full Report
This is version 3.0 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 |
lectin | 252 | Pterocarpus angolensis | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q8GSD2 (Pterocarpus angolensis) Explore Q8GSD2  Go to UniProtKB:  Q8GSD2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q8GSD2 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SO4 Query on SO4 | E [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
PCA Query on PCA | A, B | L-PEPTIDE LINKING | C5 H7 N O3 | GLN |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.255 
- R-Value Work: 0.198 
- R-Value Observed: 0.203 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 58.112 | α = 90 |
b = 61 | β = 90 |
c = 128.519 | γ = 90 |
Software Name | Purpose |
---|---|
MAR345 | data collection |
SCALEPACK | data scaling |
PHASER | phasing |
CNS | refinement |
Entry History 
Deposition Data
- Released Date: 2006-07-25  Deposition Author(s): Garcia-Pino, A., Buts, L., Wyns, L., Loris, R.
Revision History (Full details and data files)
- Version 1.0: 2006-07-25
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 2.0: 2019-12-25
Changes: Database references, Derived calculations, Polymer sequence - Version 3.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary