4ETO | pdb_00004eto

Structure of S100A4 in complex with non-muscle myosin-IIA peptide

• PDB DOI: https://doi.org/10.2210/pdb4ETO/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-04-24 Released: 2012-07-11 
• Deposition Author(s): Ramagopal, U.A., Dulyaninova, N.G., Kumar, P.R., Almo, S.C., Bresnick, A.R., New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 
  0.251 (Depositor), 0.246 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.211 (Depositor) 

Starting Model: experimental

Literature

Structure of S100A4 with bound peptide P

Ramagopal, U.A., Dulyaninova, N.G., Kumar, P.R., Almo, S.C., Bresnick, A.R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 23.61 kDa 
• Atom Count: 1,692 
• Modeled Residue Count: 193 
• Deposited Residue Count: 202 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein S100-A4	A, B	93	Homo sapiens	Mutation(s): 0  Gene Names: CAPL, MTS1, S100A4
UniProt & NIH Common Fund Data Resources
Find proteins for P26447 (Homo sapiens) Explore P26447  Go to UniProtKB:  P26447
PHAROS:  P26447 GTEx:  ENSG00000196154

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Myosin-9	C [auth P]	16	Homo sapiens	Mutation(s): 0  Gene Names: MYH9
UniProt & NIH Common Fund Data Resources
Find proteins for P35579 (Homo sapiens) Explore P35579  Go to UniProtKB:  P35579
PHAROS:  P35579 GTEx:  ENSG00000100345

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	D [auth A], E [auth A], F [auth B], G [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free:  0.251 (Depositor), 0.246 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.211 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 30.279	α = 90
b = 91.989	β = 112.6
c = 32.864	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-11 
Deposition Author(s): Ramagopal, U.A., Dulyaninova, N.G., Kumar, P.R., Almo, S.C., Bresnick, A.R., New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)

Revision History  

• Version 1.0: 2012-07-11
  Type: Initial release
  
• Version 1.1: 2012-07-18
  Changes: Database references, Structure summary
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description