9ETL | pdb_00009etl

Mouse CNPase catalytic domain with nanobody 8D

• PDB DOI: https://doi.org/10.2210/pdb9ETL/pdb

• Classification: PROTEIN BINDING
• Organism(s): Vicugna pacos, Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-03-26 Released: 2024-12-11 
• Deposition Author(s): Schroder, M., Markusson, S., Raasakka, A., Opazo, F., Kursula, P.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.229 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.178 (Depositor), 0.179 (DCC) 
• R-Value Observed: 
  0.180 (Depositor) 

Starting Models: experimental, in silico

Literature

Mouse CNPase catalytic domain with nanobody 8D

Schroder, M., Markusson, S., Raasakka, A., Opazo, F., Kursula, P.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: isothermal titration calorimetry

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 75.09 kDa 
• Atom Count: 5,442 
• Modeled Residue Count: 656 
• Deposited Residue Count: 684 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chains: D,C	A [auth D], D [auth C]	122	Vicugna pacos	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
2',3'-cyclic-nucleotide 3'-phosphodiesterase	B [auth A], C [auth B]	220	Mus musculus	Mutation(s): 0  Gene Names: Cnp, Cnp1 EC: 3.1.4.37
UniProt & NIH Common Fund Data Resources
Find proteins for P16330 (Mus musculus) Explore P16330  Go to UniProtKB:  P16330
IMPC:  MGI:88437

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.229 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.178 (Depositor), 0.179 (DCC) 
• R-Value Observed: 0.180 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.3	α = 95.657
b = 46.541	β = 100.112
c = 91.976	γ = 90.077

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-12-11 
Deposition Author(s): Schroder, M., Markusson, S., Raasakka, A., Opazo, F., Kursula, P.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-12-11
  Type: Initial release