6SHG | pdb_00006shg

Diffraction data for RoAb13 crystal co-crystallised with PIYDIN and its RoAb13 structure

• PDB DOI: https://doi.org/10.2210/pdb6SHG/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 2019-08-06 Released: 2020-07-15 
• Deposition Author(s): Saridakis, E., Helliwell, J.R., Govada, L., Chain, B., Morgan, M., Kassen, S.C., Chayen, N.E.
• Funding Organization(s): Engineering and Physical Sciences Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.35 Å
• R-Value Free: 
  0.312 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.261 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.263 (Depositor) 

Starting Model: experimental

Literature

X-ray crystallography based model of the antibody RoAb13 bound to peptidomimetics of the HIV receptor chemokine receptor CCR5

Govada, L., Saridakis, E., Kassen, S.C., Bin-Ramzi, A., Morgan, M., Chain, B., Helliwell, J.R., Chayen, N.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 48.52 kDa 
• Atom Count: 3,280 
• Modeled Residue Count: 432 
• Deposited Residue Count: 444 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody RoAb13 Heavy Chain	A [auth H]	224	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody RoAb13 Light Chain	B [auth L]	220	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.35 Å
• R-Value Free:  0.312 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.261 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.263 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.607	α = 90
b = 76.607	β = 90
c = 270.06	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-07-15 
Deposition Author(s): Saridakis, E., Helliwell, J.R., Govada, L., Chain, B., Morgan, M., Kassen, S.C., Chayen, N.E.

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Funding Organization	Location	Grant Number
Engineering and Physical Sciences Research Council	United Kingdom	EP/K503733/1

Revision History  

• Version 1.0: 2020-07-15
  Type: Initial release
  
• Version 2.0: 2021-03-03
  Type: Coordinate replacement
  Reason: Model completeness
  Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
• Version 2.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description
• Version 2.2: 2024-11-13
  Changes: Structure summary