4GQQ

Human pancreatic alpha-amylase with bound ethyl caffeate

Structural Biology Knowledgebase: 4GQQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 4GQQ

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 56853.27

Macromolecule Entities
Molecule Chains Length Organism Details
Pancreatic alpha-amylase A 496 Homo sapiens EC#: 3.2.1.1 IUBMB
Fragment: UNP residues 16-511
Gene Name(s): AMY2A Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
0XR
Query on 0XR

A ethyl (2E)-3-(3,4-dihydroxyphenyl)prop-2- enoate
ethyl caffeate (Synonym)
C11 H12 O4
WDKYDMULARNCIS-GQCTYLIASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

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

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0XR N/A in BindingDB
N/A in BindingMoad
Ki: 1300000 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: 1.35 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.197
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 52.06 α = 90.00
b = 68.12 β = 90.00
c = 125.91 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-08-23
  • Released Date: 2012-10-24
  • Deposition author(s): Williams, L.K., Brayer, G.D.

Revision History

  • 2012-12-12
    Type: Citation | Details: Citation update