1RP9
Crystal structure of barley alpha-amylase isozyme 1 (amy1) inactive mutant d180a in complex with acarbose
- PDB DOI: https://doi.org/10.2210/pdb1RP9/pdb
- Classification: HYDROLASE
- Organism(s): Hordeum vulgare
- Expression System: Komagataella pastoris
- Mutation(s): Yes 
- Deposited: 2003-12-03 Released: 2005-06-07 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.226 
- R-Value Work: 0.166 
- R-Value Observed: 0.166 
wwPDB Validation   3D Report Full Report
This is version 2.2 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Alpha-amylase type 1 isozyme | 405 | Hordeum vulgare | Mutation(s): 1  Gene Names: AMY1.1 EC: 3.2.1.1 | ||
UniProt | |||||
Find proteins for P00693 (Hordeum vulgare) Explore P00693  Go to UniProtKB:  P00693 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P00693 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
4,6-dideoxy-4-{[(1S,5R,6S)-3-formyl-5,6-dihydroxy-4-oxocyclohex-2-en-1-yl]amino}-alpha-D-xylo-hex-5-enopyranose-(1-4)-beta-D-glucopyranose-(1-4)-alpha-D-glucopyranose | B | 3 | N/A | N/A |
Entity ID: 3 | |||||
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Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
4,6-dideoxy-4-{[(1S,5R,6S)-3-formyl-5,6-dihydroxy-4-oxocyclohex-2-en-1-yl]amino}-alpha-D-xylo-hex-5-enopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose | C, D | 3 | N/A | N/A |
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
CA Query on CA | E [auth A], F [auth A], G [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.226 
- R-Value Work: 0.166 
- R-Value Observed: 0.166 
- Space Group: P 21 21 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 93.73 | α = 90 |
b = 73.54 | β = 90 |
c = 61.06 | γ = 90 |
Software Name | Purpose |
---|---|
CNS | refinement |
MOSFLM | data reduction |
CCP4 | data scaling |
CNS | phasing |
Entry History 
Deposition Data
- Released Date: 2005-06-07  Deposition Author(s): Robert, X., Haser, R., Aghajari, N.
Revision History (Full details and data files)
- Version 1.0: 2005-06-07
Type: Initial release - Version 1.1: 2008-04-29
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2021-10-27
Changes: Database references, Structure summary - Version 2.2: 2023-08-23
Changes: Data collection, Refinement description