6YNS: CaM-P458 complex

CaM-P458 complex (crystal form 2). Determined by X-ray diffraction at 3.94 Å resolution. Released 17 Mar 2021.

Method: X-ray diffraction
Resolution: 3.94 Å
Organisms: Homo sapiens, Bordetella pertussis
Chains: 36
Atoms: 17,084
Mol. weight: 261.89 kDa
Ligands: CA
Released: 17 Mar 2021

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

Secondary structure: helices and β-sheets

6YNS contains 121 α-helices and 48 β-strands across 36 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.

Chains a, b, c, e, f, j, k, l and Y: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	460-479	20

Chain A: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	7-19	13
β-strand	26-27	2	1
α-helix	29-38	10
α-helix	45-54	10
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	138-145	8

Chain B: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	12-19	8
β-strand	26-27	2	3
α-helix	29-38	10
α-helix	45-54	10
β-strand	63-64	2	3
α-helix	65-77	13
α-helix	83-92	10
β-strand	99-101	3	4
α-helix	102-111	10
α-helix	118-128	11
β-strand	135-137	3	4
α-helix	138-145	8

Chain C: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	8-19	12
β-strand	27	1	5
α-helix	29-38	10
α-helix	45-54	10
β-strand	63	1	5
α-helix	65-73	9
α-helix	83-92	10
β-strand	99-100	2	6
α-helix	102-111	10
α-helix	118-128	11
β-strand	136-137	2	6
α-helix	138-145	8

Chains d, i and S: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	461-479	19

Chain D: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	6-19	14
β-strand	26-27	2	7
α-helix	29-38	10
α-helix	45-54	10
β-strand	63-64	2	7
α-helix	65-74	10
α-helix	82-92	11
β-strand	99-100	2	8
α-helix	102-111	10
α-helix	118-128	11
β-strand	136-137	2	8
α-helix	138-145	8

Chain E: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	6-19	14
β-strand	26-27	2	9
α-helix	29-38	10
α-helix	45-54	10
β-strand	63-64	2	9
α-helix	65-73	9
α-helix	84-92	9
β-strand	99-100	2	10
α-helix	102-111	10
α-helix	118-128	11
β-strand	136-137	2	10
α-helix	138-145	8

Chains F and K: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	6-19	14
β-strand	26-27	2	11
α-helix	29-38	10
α-helix	45-54	10
β-strand	63-64	2	11
α-helix	65-72	8
α-helix	82-92	11
β-strand	99-100	2	12
α-helix	102-111	10
α-helix	118-128	11
β-strand	136-137	2	12
α-helix	138-145	8

13 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Calmodulin-1	A, B, C, D, E, F, G, H, I, J, K, L	protein	148	Homo sapiens	P0DP23 (AlphaFold model)
Bifunctional adenylate cyclase toxin/hemolysin CyaA	N, O, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l	protein	24	Bordetella pertussis	P0DKX7 (AlphaFold model)

Sequence of entity 1 (A, B, C, D, E, F, G, H, I, J, K, L), FASTA

>6YNS_1 Calmodulin-1 (chains A, B, C, D, E, F, G, H, I, J, K, L)
ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGN
GTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEE
VDEMIREADIDGDGQVNYEEFVQMMTAK

Sequence of entity 2 (N, O, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l), FASTA

>6YNS_2 Bifunctional adenylate cyclase toxin/hemolysin CyaA (chains N, O, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l)
WGQRALQGAQAVAAAQRLVHAIAL

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	29

Primary citation

A High-Affinity Calmodulin-Binding Site in the CyaA Toxin Translocation Domain is Essential for Invasion of Eukaryotic Cells. Voegele, A., Sadi, M., O'Brien, D.P. et al. Adv Sci (Weinh) (2021) 8:2003630-2003630. DOI 10.1002/advs.202003630 · 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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