1BDA

CATALYTIC DOMAIN OF HUMAN SINGLE CHAIN TISSUE PLASMINOGEN ACTIVATOR IN COMPLEX WITH DANSYL-EGR-CMK (DANSYL-GLU-GLY-ARG CHLOROMETHYL KETONE)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Lysine 156 promotes the anomalous proenzyme activity of tPA: X-ray crystal structure of single-chain human tPA.

Renatus, M.Engh, R.A.Stubbs, M.T.Huber, R.Fischer, S.Kohnert, U.Bode, W.

(1997) EMBO J. 16: 4797-4805

  • DOI: 10.1093/emboj/16.16.4797

  • PubMed Abstract: 
  • Tissue type plasminogen activator (tPA) is the physiological initiator of fibrinolysis, activating plasminogen via highly specific proteolysis; plasmin then degrades fibrin with relatively broad specificity. Unlike other chymotrypsin family serine pr ...

    Tissue type plasminogen activator (tPA) is the physiological initiator of fibrinolysis, activating plasminogen via highly specific proteolysis; plasmin then degrades fibrin with relatively broad specificity. Unlike other chymotrypsin family serine proteinases, tPA is proteolytically active in a single-chain form. This form is also preferred for therapeutic administration of tPA in cases of acute myocardial infarction. The proteolytic cleavage which activates most other chymotrypsin family serine proteinases increases the catalytic efficiency of tPA only 5- to 10-fold. The X-ray crystal structure of the catalytic domain of recombinant human single-chain tPA shows that Lys156 forms a salt bridge with Asp194, promoting an active conformation in the single-chain form. Comparisons with the structures of other serine proteinases that also possess Lys156, such as trypsin, factor Xa and human urokinase plasminogen activator (uPA), identify a set of secondary interactions which are required for Lys156 to fulfil this activating role. These findings help explain the anomalous single-chain activity of tPA and may suggest strategies for design of new therapeutic plasminogen activators.


    Related Citations: 
    • The 2.3 A Crystal Structure of the Catalytic Domain of Recombinant Two-Chain Human Tissue-Type Plasminogen Activator
      Lamba, D.,Bauer, M.,Huber, R.,Fischer, S.,Rudolph, R.,Kohnert, U.,Bode, W.
      (1996) J.Mol.Biol. 258: 117
    • Catalytic Domain Structure of Vampire Bat Plasminogen Activator: A Molecular Paradigm for Proteolysis without Activation Cleavage
      Renatus, M.,Stubbs, M.T.,Huber, R.,Bringmann, P.,Donner, P.,Schleuning, W.D.,Bode, W.
      (1997) Biochemistry 36: 13483


    Organizational Affiliation

    Max-Planck-Institute of Biochemistry, Department of Structural Research, Martinsried, Germany. renatus@biochem.mpg.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SINGLE CHAIN TISSUE TYPE PLASMINOGEN ACTIVATOR
A, B
265Homo sapiensGene Names: PLAT
EC: 3.4.21.68
Find proteins for P00750 (Homo sapiens)
Go to Gene View: PLAT
Go to UniProtKB:  P00750
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2Z0
Query on 2Z0

Download SDF File 
Download CCD File 
A, B
N-{[5-(dimethylamino)naphthalen-2-yl]sulfonyl}-L-alpha-glutamyl-N-[(1S)-4-{[amino(iminio)methyl]amino}-1-(chloroacetyl)butyl]glycinamide
dansyl-Glu-Gly-Arg-chloromethyl-ketone
C26 H37 Cl N7 O7 S
VKQAIOBCWDJDIP-PMACEKPBSA-O
 Ligand Interaction
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000413 (2Z0)
Query on PRD_000413
A,Bdansylglutamyl-glycyl-arginine chloromethyl ketonePeptide-like / Inhibitor

--

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 43.990α = 90.00
b = 80.780β = 90.00
c = 159.160γ = 90.00
Software Package:
Software NamePurpose
ROTAGRdata scaling
X-PLORmodel building
MOSFLMdata reduction
X-PLORphasing
ROTAGRdata reduction
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-05-11
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • Version 1.3: 2012-12-12
    Type: Other