Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 13-mer - A5B5C3 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 13-mer - A5B5C1D1E1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 386.38 kDa 
• Atom Count: 19665 
• Residue Count: 2476 
• Unique protein chains: 3

6D8C

Cryo-EM structure of FLNaABD E254K bound to phalloidin-stabilized F-actin

• DOI: 10.2210/pdb6D8C/pdb
• EMDataResource: EMD-7831

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens, Gallus gallus, Amanita phalloides
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2018-04-26 Released: 2018-09-19 
• Deposition Author(s): Iwamoto, D.V., Huehn, A.R., Simon, B., Huet-Calderwood, C., Baldassarre, M., Sindelar, C.V., Calderwood, D.A.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.54 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Structural basis of the filamin A actin-binding domain interaction with F-actin.

Iwamoto, D.V., Huehn, A., Simon, B., Huet-Calderwood, C., Baldassarre, M., Sindelar, C.V., Calderwood, D.A.

(2018) Nat Struct Mol Biol 25: 918-927

• PubMed: 30224736 
• DOI: 10.1038/s41594-018-0128-3
• Primary Citation of Related Structures:  
  6D8C


• PubMed Abstract: 
  

Actin-cross-linking proteins assemble actin filaments into higher-order structures essential for orchestrating cell shape, adhesion, and motility. Missense mutations in the tandem calponin homology domains of their actin-binding domains (ABDs) underlie numerous genetic diseases, but a molecular understanding of these pathologies is hampered by the lack of high-resolution structures of any actin-cross-linking protein bound to F-actin. Here, taking advantage of a high-affinity, disease-associated mutant of the human filamin A (FLNa) ABD, we combine cryo-electron microscopy and functional studies to reveal at near-atomic resolution how the first calponin homology domain (CH1) and residues immediately N-terminal to it engage actin. We further show that reorientation of CH2 relative to CH1 is required to avoid clashes with actin and to expose F-actin-binding residues on CH1. Our data explain localization of disease-associated loss-of-function mutations to FLNaCH1 and gain-of-function mutations to the regulatory FLNaCH2. Sequence conservation argues that this provides a general model for ABD-F-actin binding.

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Organizational Affiliation: 

Department of Cell Biology, Yale University, New Haven, CT, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Filamin-A	A, B, C, D, E	306	Homo sapiens	Mutation(s): 1  Gene Names: FLNA, FLN, FLN1
Find proteins for P21333 (Homo sapiens) Explore P21333  Go to UniProtKB:  P21333
NIH Common Fund Data Resources
PHAROS  P21333 GTEx  ENSG00000196924

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Actin, alpha skeletal muscle	H, J, K, L, M	375	Gallus gallus	Mutation(s): 0  Gene Names: ACTA1, ACTA
Find proteins for P68139 (Gallus gallus) Explore P68139  Go to UniProtKB:  P68139

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Phalloidin	N, O, P	7	Amanita phalloides	Mutation(s): 0
Find proteins for P0CU65 (Amanita phalloides) Explore P0CU65  Go to UniProtKB:  P0CU65

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	H, J, K, L, M	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	H, J, K, L, M	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  3 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ALO	N,O,P	L-PEPTIDE LINKING	C4 H9 N O3		THR
G5G	N,O,P	L-PEPTIDE LINKING	C6 H13 N O4		LEU
HYP	N,O,P	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002307	N, O, P	Phalloidin	Cyclic peptide /  Toxin		--

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.54 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-04-26 
• Released Date: 2018-09-19 
Deposition Author(s): Iwamoto, D.V., Huehn, A.R., Simon, B., Huet-Calderwood, C., Baldassarre, M., Sindelar, C.V., Calderwood, D.A.

Revision History 

• Version 1.0: 2018-09-19
  Type: Initial release
  
• Version 1.1: 2018-10-03
  Changes: Data collection, Database references
• Version 1.2: 2018-10-17
  Changes: Data collection, Database references