4E52

Crystal structure of Haemophilus Eagan 4A polysaccharide bound human lung surfactant protein D

Structural Biology Knowledgebase: 4E52 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.192

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4E52

Classification: SUGAR BINDING PROTEIN

Total Structure Weight: 57726.81

Macromolecule Entities
Molecule Chains Length Organism Details
Pulmonary surfactant-associated protein D A, B, C 177 Homo sapiens Fragment: carbohydrate recognition domain
Gene Name(s): SFTPD Gene View COLEC7 PSPD SFTP4

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
KD5
Query on KD5

B, C 4,7-anhydro-3-deoxy-D-manno-oct-2-ulosonic acid
C8 H12 O7
HVHHMEMCULPBED-UVSCYPECSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GMH
Query on GMH

B, C L-GLYCERO-D-MANNO-HEPTOPYRANOSE
C7 H14 O7
BGWQRWREUZVRGI-QQABCQGCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.192
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 55.35 α = 90.00
b = 107.99 β = 92.14
c = 55.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-13
  • Released Date: 2013-03-27
  • Deposition author(s): Shrive, A.K., Greenhough, T.J.

Revision History

  • 2016-05-11
    Type: Citation | Details: Citation update
  • 2016-03-23
    Type: Citation | Details: Citation update