5MKT | pdb_00005mkt

Crystal structure of mouse prorenin

• PDB DOI: https://doi.org/10.2210/pdb5MKT/pdb

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


• Deposited: 2016-12-05 Released: 2017-12-20 
• Deposition Author(s): Yan, Y., Read, R.
• Funding Organization(s): Wellcome Trust, British Heart Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.297 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.263 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.265 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of mouse prorenin

Yan, Y., Zhou, A., Read, R.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 43 kDa 
• Atom Count: 2,449 
• Modeled Residue Count: 329 
• Deposited Residue Count: 389 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Renin-1	A	389	Mus musculus	Mutation(s): 0  Gene Names: Ren1, Ren, Ren-1 EC: 3.4.23.15
UniProt
Find proteins for P06281 (Mus musculus) Explore P06281  Go to UniProtKB:  P06281
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: P06281-1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.297 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.263 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.265 (Depositor) 

Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.232	α = 90
b = 141.232	β = 90
c = 82.961	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-12-20 
Deposition Author(s): Yan, Y., Read, R.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	082961/Z/07/Z
British Heart Foundation	United Kingdom	PG/12/41/29679

Revision History  

• Version 1.0: 2017-12-20
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.2: 2024-01-17
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 1.3: 2024-10-23
  Changes: Structure summary