1A0H

THE X-RAY CRYSTAL STRUCTURE OF PPACK-MEIZOTHROMBIN DESF1: KRINGLE/THROMBIN AND CARBOHYDRATE/KRINGLE/THROMBIN INTERACTIONS AND LOCATION OF THE LINKER CHAIN

• PDB DOI: https://doi.org/10.2210/pdb1A0H/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1997-11-30 Released: 1998-06-17 
• Deposition Author(s): Martin, P.D., Malkowski, M.G., Box, J., Esmon, C.T., Edwards, B.F.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.242 
• R-Value Work: 0.205 
• R-Value Observed: 0.205 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Macromolecule Content

• Total Structure Weight: 97.04 kDa 
• Atom Count: 6,901 
• Modelled Residue Count: 836 
• Deposited Residue Count: 836 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MEIZOTHROMBIN	A, C [auth D]	159	Bos taurus	Mutation(s): 0  EC: 3.4.21.5
UniProt
Find proteins for P00735 (Bos taurus) Explore P00735  Go to UniProtKB:  P00735

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MEIZOTHROMBIN	B, D [auth E]	259	Bos taurus	Mutation(s): 0  EC: 3.4.21.5
UniProt
Find proteins for P00735 (Bos taurus) Explore P00735  Go to UniProtKB:  P00735

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E [auth C], F	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
0G6	G [auth B], H [auth E]	D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide C21 H34 Cl N6 O3 DVFLYEYCMMLBTQ-VSZNYVQBSA-O

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 4
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000020 (0G6)	G [auth B], H [auth E]	D-Phe-Pro-Arg-CH2Cl	Peptide-like / Inhibitor

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.242 
• R-Value Work: 0.205 
• R-Value Observed: 0.205 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 186.15	α = 90
b = 186.15	β = 90
c = 120.29	γ = 90

Software Package:

Software Name	Purpose
XENGEN	data collection
SCALEK	data reduction
X-PLOR	model building
X-PLOR	refinement
XENGEN	data reduction
SCALEK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-06-17 
Deposition Author(s): Martin, P.D., Malkowski, M.G., Box, J., Esmon, C.T., Edwards, B.F.P.

Revision History  

• Version 1.0: 1998-06-17
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model
• Version 1.4: 2013-02-27
  Changes: Other
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other, Structure summary
• Version 2.1: 2024-04-03
  Changes: Data collection, Database references, Refinement description, Structure summary