2AAI
Crystallographic refinement of ricin to 2.5 Angstroms
- PDB DOI: https://doi.org/10.2210/pdb2AAI/pdb
- Classification: HYDROLASE
- Organism(s): Ricinus communis
- Mutation(s): No 
- Deposited: 1993-09-07 Released: 1994-01-31 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Work: 0.212 
- R-Value Observed: 0.212 
wwPDB Validation   3D Report Full Report
This is version 2.0 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 |
RICIN (A CHAIN) | 267 | Ricinus communis | Mutation(s): 0  EC: 3.2.2.22 | ||
UniProt | |||||
Find proteins for P02879 (Ricinus communis) Explore P02879  Go to UniProtKB:  P02879 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P02879 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
RICIN (B CHAIN) | 262 | Ricinus communis | Mutation(s): 0  EC: 3.2.2.22 | ||
UniProt | |||||
Find proteins for P02879 (Ricinus communis) Explore P02879  Go to UniProtKB:  P02879 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P02879 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | C, D | 2 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G84224TW GlyCosmos:  G84224TW GlyGen:  G84224TW |
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | E, F | 5 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G22768VO GlyCosmos:  G22768VO GlyGen:  G22768VO |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 3 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900004 Query on PRD_900004 | C, D | beta-lactose | Oligosaccharide / Nutrient |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Work: 0.212 
- R-Value Observed: 0.212 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 72.74 | α = 90 |
b = 78.49 | β = 90 |
c = 114.34 | γ = 90 |
Software Name | Purpose |
---|---|
X-PLOR | model building |
X-PLOR | refinement |
X-PLOR | phasing |
Entry History 
Deposition Data
- Released Date: 1994-01-31  Deposition Author(s): Rutenber, E., Katzin, B.J., Montfort, W., Villafranca, J.E., Ernst, S.R., Collins, E.J., Mlsna, D., Monzingo, A.F., Ready, M.P., Robertus, J.D.
Revision History (Full details and data files)
- Version 1.0: 1994-01-31
Type: Initial release - Version 1.1: 2008-03-24
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.3: 2013-08-14
Changes: Derived calculations - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Structure summary