5DK3 Immune System date Sep 02, 2015
title Crystal Structure Of Pembrolizumab, A Full Length Igg4 Antib
authors G.Scapin, W.Prosise, P.Reichert
compound source
Molecule: Light Chain
Chain: A, F
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Mammalia
Expression_system_taxid: 40674

Molecule: Heavy Chain
Chain: B, G
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Mammalia
Expression_system_taxid: 40674
symmetry Space Group: P 21 21 21
R_factor 0.184 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.830 110.830 264.960 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.28 Å
ligand BMA, FUC, MAN, NAG, SO4, SUC enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (449 Kb) [Save to disk]
  • Biological Unit Coordinates (5dk3.pdb1.gz) 440 Kb
  • LPC: Ligand-Protein Contacts for 5DK3
  • CSU: Contacts of Structural Units for 5DK3
  • Structure Factors (2148 Kb)
  • Retrieve 5DK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DK3 from S2C, [Save to disk]
  • Re-refined 5dk3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DK3 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5DK3
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5dk3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dk3] [5dk3_B] [5dk3_G] [5dk3_A] [5dk3_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5DK3: [IG_like] [IGv ] by SMART
  • Other resources with information on 5DK3
  • Community annotation for 5DK3 at PDBWiki (http://pdbwiki.org)

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