6Y4O: Calmodulin

Calmodulin bound to cardiac ryanodine receptor (RyR2) calmodulin binding domain. Determined by X-ray diffraction at 1.84 Å resolution. Released 29 Apr 2020.

Method: X-ray diffraction
Resolution: 1.84 Å
Organisms: Homo sapiens, Mus musculus
Chains: 2
Atoms: 1,258
Mol. weight: 20.49 kDa
Ligands: CA
Released: 29 Apr 2020

Explore 6Y4O in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6Y4O contains 9 α-helices and 4 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	6-17	12
β-strand	26-27	2	1
α-helix	29-38	10
α-helix	45-55	11
β-strand	63-64	2	1
α-helix	65-74	10
α-helix	84-92	9
β-strand	99-100	2	2
α-helix	102-111	10
α-helix	118-128	11
β-strand	136-137	2	2
α-helix	138-144	7

Chain B: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	3617-3637	21

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Calmodulin-2	A	protein	149	Homo sapiens	P0DP23 (AlphaFold model)
Ryanodine receptor 2	B	protein	30	Mus musculus	Q92736

Sequence of entity 1 (A), FASTA

>6Y4O_1 Calmodulin-2 (chains A)
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVQMMTAK

Sequence of entity 2 (B), FASTA

>6Y4O_2 Ryanodine receptor 2 (chains B)
SNARSKKAVWHKLLSKQRKRAVVACFRMAP

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	4

Primary citation

The arrhythmogenic N53I variant subtly changes the structure and dynamics in the calmodulin N-terminal domain, altering its interaction with the cardiac ryanodine receptor. Holt, C., Hamborg, L., Lau, K. et al. J Biol Chem (2020) 295:7620-7634. DOI 10.1074/jbc.RA120.013430 · PubMed

Other PDB entries of the same protein (UniProt P0DP23 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9MXD 1.17 Å, Human E104A calmodulin:MLCK RM20 complex
7BF1 1.24 Å, Ca2+-Calmodulin in complex with peptide from brain-type creatine kinase in extended 1:2…
6XXX 1.25 Å, 1.25 Angstrom crystal structure of Ca/CaM A102V:RyR2 peptide complex
4DJC 1.35 Å, 1.35 A crystal structure of the NaV1.5 DIII-IV-Ca/CaM complex
7BF2 1.43 Å, Ca2+-Calmodulin in complex with human muscle form creatine kinase peptide in extended…
2F3Y 1.45 Å, Calmodulin/IQ domain complex
2W73 1.45 Å, High-resolution structure of the complex between calmodulin and a peptide from…
4LZX 1.5 Å, Complex of IQCG and Ca2+-free CaM
5V03 1.58 Å, A positive allosteric modulator binding pocket in SK2 ion channels is shared by Riluzole…
9MVW 1.58 Å, Crystal structure of S101F calmodulin - CaM:RM20 analog complex
2F3Z 1.6 Å, Calmodulin/IQ-AA domain complex
6M7H 1.6 Å, Structure of calmodulin with KN93

Browse structure collections

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