3BLK
Role of aromatic residues in starch binding
- PDB DOI: https://doi.org/10.2210/pdb3BLK/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): Yes 
- Deposited: 2007-12-11 Released: 2008-11-25 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.215 
- R-Value Work: 0.176 
- R-Value Observed: 0.178 
This is version 3.2 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 |
Alpha-amylase 1 | 496 | Homo sapiens | Mutation(s): 1  Gene Names: AMY1A, AMY1 EC: 3.2.1.1 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P0DUB6 (Homo sapiens) Explore P0DUB6  Go to UniProtKB:  P0DUB6 | |||||
GTEx:  ENSG00000237763  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P0DUB6 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
HMC Query on HMC | F [auth A] | 5-HYDROXYMETHYL-CHONDURITOL C7 H12 O5 PJPGMULJEYSZBS-VZFHVOOUSA-N | |||
CA Query on CA | D [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N | |||
CL Query on CL | E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
PCA Query on PCA | A | L-PEPTIDE LINKING | C5 H7 N O3 | GLN |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.215 
- R-Value Work: 0.176 
- R-Value Observed: 0.178 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 52.282 | α = 90 |
b = 75.046 | β = 90 |
c = 135.013 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
ADSC | data collection |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
REFMAC | phasing |
Entry History 
Deposition Data
- Released Date: 2008-11-25  Deposition Author(s): Ramasubbu, N.
Revision History (Full details and data files)
- Version 1.0: 2008-11-25
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 2.0: 2019-12-25
Changes: Data collection, 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 - Version 3.1: 2021-10-20
Changes: Database references, Derived calculations, Structure summary - Version 3.2: 2023-08-30
Changes: Data collection, Refinement description