1A2C

Structure of thrombin inhibited by AERUGINOSIN298-A from a BLUE-GREEN ALGA

• PDB DOI: https://doi.org/10.2210/pdb1A2C/pdb

• Classification: Hydrolase/Hydrolase Inhibitor
• Organism(s): Homo sapiens, Hirudo medicinalis, Microcystis aeruginosa
• Mutation(s): No 


• Deposited: 1997-12-26 Released: 1998-07-01 
• Deposition Author(s): Rios-Steiner, J.L., Murakami, M., Tulinsky, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.150 

Starting Model: experimental

Literature

Structure of Thrombin Inhibited by Aeruginosin 298-A from a Blue-Green Alga

Steiner, J.L.R., Murakami, M., Tulinsky, A.

(1998) J Am Chem Soc 120: 597

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 36.04 kDa 
• Atom Count: 2,629 
• Modelled Residue Count: 302 
• Deposited Residue Count: 311 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thrombin light chain	A [auth L]	36	Homo sapiens	Mutation(s): 0  EC: 3.4.21.5
UniProt & NIH Common Fund Data Resources
Find proteins for P00734 (Homo sapiens) Explore P00734  Go to UniProtKB:  P00734
PHAROS:  P00734 GTEx:  ENSG00000180210

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Thrombin heavy chain	B [auth H]	259	Homo sapiens	Mutation(s): 0  EC: 3.4.21.5
UniProt & NIH Common Fund Data Resources
Find proteins for P00734 (Homo sapiens) Explore P00734  Go to UniProtKB:  P00734
PHAROS:  P00734 GTEx:  ENSG00000180210

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Hirudin variant-2	C [auth I]	12	Hirudo medicinalis	Mutation(s): 0
UniProt
Find proteins for P09945 (Hirudo medicinalis) Explore P09945  Go to UniProtKB:  P09945

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Aeruginosin 298-A	D [auth J]	4	Microcystis aeruginosa	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	E [auth H]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  3 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TYS	C [auth I]	L-PEPTIDE LINKING	C9 H11 N O6 S		TYR
OAR	D [auth J]	PEPTIDE-LIKE	C6 H16 N4 O		ARG
PRJ	D [auth J]	L-PEPTIDE LINKING	C9 H15 N O3		PRO

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 4
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000555	D [auth J]	AERUGINOSIN 298-A	Oligopeptide / Thrombin inhibitor, Trypsin inhibitor

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.150 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.97	α = 90
b = 72.48	β = 100.93
c = 72.24	γ = 90

Software Package:

Software Name	Purpose
RIGAKU	data collection
RIGAKU	data reduction
X-PLOR	model building
PROLSQ	refinement
X-PLOR	refinement
RIGAKU	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-07-01 
Deposition Author(s): Rios-Steiner, J.L., Murakami, M., Tulinsky, A.

Revision History  

• Version 1.0: 1998-07-01
  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: 2012-12-12
  Changes: Other
• Version 1.4: 2013-06-05
  Changes: Atomic model
• Version 1.5: 2023-08-02
  Changes: Advisory, Database references, Derived calculations, Other, Refinement description
• Version 2.0: 2023-11-15
  Changes: Advisory, Atomic model, Data collection, Derived calculations