1WDQ

The role of an inner loop in the catalytic mechanism of soybean beta-amylase

Structural Biology Knowledgebase: 1WDQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.28 Å
  • R-Value Observed: 0.135

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1WDQ

Classification: Hydrolase

Total Structure Weight: 57128.69

Macromolecule Entities
Molecule Chains Length Organism Details
Beta-amylase A 495 Glycine max EC#: 3.2.1.2 IUBMB
Mutation: F76L, R202G, T342V, K399R
Gene Name(s): BMY1

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

A MALTOSE
C12 H22 O11
GUBGYTABKSRVRQ-ASMJPISFSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MAL N/A in BindingDB
Kd: 10450000 nM  BindingMOAD
Kd: 10450000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.28 Å
  • R-Value Observed: 0.135
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 84.99 α = 90.00
b = 84.99 β = 90.00
c = 144.02 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-05-17
  • Released Date: 2005-04-05
  • Deposition author(s): Kang, Y.N., Adachi, M., Utsumi, S., Mikami, B.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4