1U33

In situ extension as an approach for identifying novel alpha-amylase inhibitors

Structural Biology Knowledgebase: 1U33 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.183

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1U33

Classification: HYDROLASE

Total Structure Weight: 56759.12

Macromolecule Entities
Molecule Chains Length Organism Details
Alpha-amylase, pancreatic A 496 Homo sapiens EC#: 3.2.1.1 IUBMB
Mutation: Q1X
Gene Name(s): AMY2A Gene View

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LM2
Query on LM2

A 4'-O-METHYL-MALTOSYL-ALPHA (1,4)-(Z, 3S,4S,5R,6R)- 3,4,5-TRIHYDROXY-6-HYDROXYMETHYL-PIPERIDIN- 2-ONE
5-LACTAM,,4)-D-GLUCONHYDROXIMO- 1 (Synonym)
C19 H34 N2 O15
INFXBQXKGPGIEV-PXPLVWFRSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
LM2 N/A in BindingDB
Ki: 25000 nM  BindingMOAD
Ki: 25000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
PCA
Query on PCA
A L-PEPTIDE LINKING C5 H7 N O3 GLU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.183
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 52.20 α = 90.00
b = 67.40 β = 90.00
c = 130.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-07-20
  • Released Date: 2004-09-07
  • Deposition author(s): Numao, S., Li, C., Damager, I., Wrodnigg, T.M., Begum, A., Overall, C.M., Brayer, G.D., Withers, S.G.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4