4H42

Synthesis of a Weak Basic uPA Inhibitor and Crystal Structure of Complex with uPA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 

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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Synthesis of a Weak Basic uPA Inhibitor and Crystal Structure of Complex with uPA

Yu, H.-Y.Gao, D.Xu, Z.Jiang, L.-G.Hong, Z.-B.Fan, X.Yuan, C.Wang, J.-D.Huang, M.

(2013) Chin J Struct Chem 32: 961-968


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Urokinase-type plasminogen activatorA [auth U]248Homo sapiensMutation(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
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PG6
Query on PG6

Download Ideal Coordinates CCD File 
C [auth U]1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE
C12 H26 O6
DMDPGPKXQDIQQG-UHFFFAOYSA-N
 Ligand Interaction
11E (Subject of Investigation/LOI)
Query on 11E

Download Ideal Coordinates CCD File 
B [auth U]N-[(2-amino-1,3-benzothiazol-6-yl)carbonyl]glycine
C10 H9 N3 O3 S
JTXHRLUPQXMVPR-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
11E PDBBind:  4H42 Ki: 3.41e+5 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.916α = 90
b = 120.916β = 90
c = 42.875γ = 120
Software Package:
Software NamePurpose
PROTEUM PLUSdata collection
REFMACrefinement

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-10-30
    Type: Initial release