5U5M

CRYSTAL STRUCTURE OF I83E MEDITOPE-ENABLED TRASTUZUMAB WITH AZIDO-MEDITOPE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure Of I83E Meditope-Enabled Trastuzumab With Azido-Meditope

Williams, J.C.Bzymek, K.P.Pucket, J.Avery, K.A.Ma, Y.Xie, J.Zer, C.Horne, D.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MEMAB TRASTUZUMAB, LIGHT CHAIN
A
214N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
MEMAB TRASTUZUMAB, HEAVY CHAIN
B
223N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein L
E
63Finegoldia magnaMutation(s): 5 
Find proteins for Q51918 (Finegoldia magna)
Go to UniProtKB:  Q51918
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Immunoglobulin G binding protein A
C
54Staphylococcus aureus (strain NCTC 8325)Mutation(s): 0 
Gene Names: spa
Find proteins for P02976 (Staphylococcus aureus (strain NCTC 8325))
Go to UniProtKB:  P02976
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
AZIDO-PEG4-MEDITOPE
D
13N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MRY
Query on MRY

Download SDF File 
Download CCD File 
B
MESO-ERYTHRITOL
C4 H10 O4
UNXHWFMMPAWVPI-ZXZARUISSA-N
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
2GX
Query on 2GX
D
L-peptide linkingC15 H15 N O2PHE
56C
Query on 56C
D
L-peptide linkingC14 H30 N7 O5

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ACE
Query on ACE
D
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.161 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 53.530α = 90.00
b = 105.470β = 90.00
c = 117.130γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
MOLREPphasing
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-03-14
    Type: Initial release
  • Version 1.1: 2018-03-28
    Type: Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary
  • Version 1.2: 2018-04-18
    Type: Data collection