8SIP

Structure of a mouse IgG antibody fragment that binds Inosine, an RNA modification

• PDB DOI: https://doi.org/10.2210/pdb8SIP/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2023-04-16 Released: 2024-02-07 
• Deposition Author(s): Aoki, S.T.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.245 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 

Literature

Structure of a mouse IgG antibody fragment that binds Inosine, an RNA modification

Aoki, S.T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 48.51 kDa 
• Atom Count: 3,531 
• Modelled Residue Count: 426 
• Deposited Residue Count: 441 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Inosine binding IgG Fab, heavy chain	A [auth H]	222	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Inosine binding IgG Fab, kappa chain	B [auth L]	219	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NOS (Subject of Investigation/LOI)	C [auth H]	INOSINE C10 H12 N4 O5 UGQMRVRMYYASKQ-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.245 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.817	α = 83.84
b = 49.09	β = 88.82
c = 57.385	γ = 89.68

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data processing
Aimless	data scaling
PHASER	phasing
Coot	model building
autoPROC	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-07 
Deposition Author(s): Aoki, S.T.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-02-07
  Type: Initial release