6AG2 | pdb_00006ag2

uPA-HMA

• PDB DOI: https://doi.org/10.2210/pdb6AG2/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Komagataella phaffii GS115
• Mutation(s): Yes 


• Deposited: 2018-08-09 Released: 2019-09-18 
• Deposition Author(s): Buckley, B., Jiang, L.G., Huang, M.D., Kelso, M., Ranson, M.
• Funding Organization(s): National Health and Medical Research Council (Australia)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free: 
  0.252 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Literature

uPA-HMA

Buckley, B., Jiang, L.G., Huang, M.D., Kelso, M., Ranson, M.

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 28.84 kDa 
• Atom Count: 2,062 
• Modeled Residue Count: 245 
• Deposited Residue Count: 253 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Urokinase-type plasminogen activator	A [auth U]	253	Homo sapiens	Mutation(s): 2  Gene Names: PLAU EC: 3.4.21.73
UniProt & NIH Common Fund Data Resources
Find proteins for P00749 (Homo sapiens) Explore P00749  Go to UniProtKB:  P00749
PHAROS:  P00749 GTEx:  ENSG00000122861

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
9X9	B [auth U]	3,5-bis(azanyl)-N-carbamimidoyl-6-(2-methoxypyrimidin-5-yl)pyrazine-2-carboxamide C11 H13 N9 O2 XFGYFQDKMRBURI-UHFFFAOYSA-N
SO4	C [auth U]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Binding Affinity Annotations
ID	Source	Binding Affinity
9X9	BindingDB:  6AG2	Ki: 204 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free:  0.252 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.407	α = 90
b = 120.407	β = 90
c = 42.017	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-09-18 
Deposition Author(s): Buckley, B., Jiang, L.G., Huang, M.D., Kelso, M., Ranson, M.

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Funding Organization	Location	Grant Number
National Health and Medical Research Council (Australia)	Australia	APP1100432

Revision History  

• Version 1.0: 2019-09-18
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Data collection, Database references, Structure summary