1YVN | pdb_00001yvn

THE YEAST ACTIN VAL 159 ASN MUTANT COMPLEX WITH HUMAN GELSOLIN SEGMENT 1.

• PDB DOI: https://doi.org/10.2210/pdb1YVN/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Saccharomyces cerevisiae, Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 1999-03-23 Released: 2000-03-23 
• Deposition Author(s): Vorobiev, S.M., Belmont, L.D., Drubin, D.G., Almo, S.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.235 (Depositor) 
• R-Value Work: 
  0.187 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of yeast actin V159N mutant

Vorobiev, S.M., Belmont, L.D., Drubin, D.D., Almos, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 56.49 kDa 
• Atom Count: 4,190 
• Modeled Residue Count: 497 
• Deposited Residue Count: 500 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (ACTIN)	A	375	Saccharomyces cerevisiae	Mutation(s): 1  EC: 3.6.4
UniProt
Find proteins for P60010 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P60010  Go to UniProtKB:  P60010

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (GELSOLIN)	B [auth G]	125	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P06396 (Homo sapiens) Explore P06396  Go to UniProtKB:  P06396
PHAROS:  P06396 GTEx:  ENSG00000148180

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP	E [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CA	F [auth G]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.235 (Depositor) 
• R-Value Work:  0.187 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 176.098	α = 90
b = 68.077	β = 102.24
c = 54.691	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-03-23 
Deposition Author(s): Vorobiev, S.M., Belmont, L.D., Drubin, D.G., Almo, S.C.

Revision History  

• Version 1.0: 2000-03-23
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-11-13
  Changes: Database references
• Version 1.4: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description