1POY

SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (DIMER FORM)

Structural Biology Knowledgebase: 1POY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.199

Literature

Macromolecules
Sequence Display for 1POY

Classification: TRANSPORT PROTEIN

Total Structure Weight: 145773.86

Macromolecule Entities
Molecule Chains Length Organism Details
SPERMIDINE/PUTRESCINE-BINDING PROTEIN 1, 2, 3, 4 323 Escherichia coli Details: DIMER FORM
Gene Name(s): potD b1123 JW1109
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SPD
Query on SPD

1, 2, 3, 4 SPERMIDINE
N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34) (Synonym)
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
SPD N/A in BindingDB
Kd: 3200 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.199
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 145.30 α = 90.00
b = 69.10 β = 107.60
c = 72.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1996-02-02
  • Released Date: 1996-07-11
  • Deposition author(s): Sugiyama, S., Vassylyev, D.G., Matsushima, M., Morikawa, K.

Revision History

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