7DNI: MDA5 CARDs-MAVS CARD polyUb complex

MDA5 CARDs-MAVS CARD polyUb complex. Determined by electron microscopy at 3.2 Å resolution. Released 13 Oct 2021.

Method: Electron microscopy
Resolution: 3.2 Å
Organism: Homo sapiens
Chains: 16
Atoms: 14,077
Mol. weight: 209.29 kDa
Released: 13 Oct 2021

Explore 7DNI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7DNI contains 116 α-helices and 56 β-strands across 16 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: 14 helices, 0 β-strands

Element	Residues	Length
α-helix	8-17	10
α-helix	19-25	7
α-helix	28-31	4
α-helix	40-67	28
α-helix	75-85	11
α-helix	89-93	5
α-helix	103-104	2
α-helix	105-128	24
α-helix	131-141	11
α-helix	146-155	10
α-helix	160-170	11
α-helix	171-173	3
α-helix	177-186	10
α-helix	191-198	8

Chain B: 17 helices, 0 β-strands

Element	Residues	Length
α-helix	8-17	10
α-helix	19-22	4
α-helix	28-34	7
α-helix	40-53	14
α-helix	55-67	13
α-helix	75-85	11
α-helix	89-95	7
α-helix	99-101	3
α-helix	102-104	3
α-helix	105-120	16
α-helix	122-128	7
α-helix	135-141	7
α-helix	146-155	10
α-helix	160-170	11
α-helix	171-173	3
α-helix	177-187	11
α-helix	191-198	8

Chain C: 15 helices, 0 β-strands

Element	Residues	Length
α-helix	7-25	19
α-helix	28-31	4
α-helix	40-53	14
α-helix	55-68	14
α-helix	75-85	11
α-helix	89-95	7
α-helix	102-104	3
α-helix	105-120	16
α-helix	122-127	6
α-helix	131-133	3
α-helix	136-140	5
α-helix	146-155	10
α-helix	160-171	12
α-helix	177-187	11
α-helix	191-197	7

Chain D: 14 helices, 0 β-strands

Element	Residues	Length
α-helix	7-25	19
α-helix	28-34	7
α-helix	40-53	14
α-helix	55-67	13
α-helix	75-84	10
α-helix	89-95	7
α-helix	102-104	3
α-helix	105-128	24
α-helix	131-140	10
α-helix	146-155	10
α-helix	156-158	3
α-helix	160-171	12
α-helix	177-187	11
α-helix	193-198	6

Chain E: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	9
β-strand	12-16	5	9
β-strand	22	1	10
α-helix	23-33	11
β-strand	43-45	3	9
β-strand	48-49	2	9
β-strand	55	1	10
α-helix	56-59	4
β-strand	66-69	4	9

Chain F: 3 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	3
β-strand	12-16	5	3
β-strand	22	1	4
α-helix	23-33	11
α-helix	38-40	3
β-strand	41-44	4	3
β-strand	49	1	3
β-strand	55	1	4
α-helix	56-59	4
β-strand	66-71	6	3

Chain G: 3 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	11
β-strand	12-15	4	11
β-strand	22	1	12
α-helix	23-33	11
α-helix	38-40	3
β-strand	41-44	4	11
β-strand	49	1	11
β-strand	55	1	12
α-helix	56-59	4
β-strand	66-71	6	11

Chain H: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	1
β-strand	12-16	5	1
β-strand	22	1	2
α-helix	23-33	11
β-strand	41-44	4	1
β-strand	49	1	1
β-strand	55	1	2
α-helix	56-59	4
β-strand	65-71	7	1

8 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
Ubiquitin	E, F, G, H, I, J, K, L	protein	76	Homo sapiens	P0CG47 (AlphaFold model)
Interferon-induced helicase C domain-containing protein 1	A, B, C, D	protein	208	Homo sapiens	Q9BYX4 (AlphaFold model)
Mitochondrial antiviral-signaling protein	M, N, O, P	protein	97	Homo sapiens	Q7Z434 (AlphaFold model)

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

>7DNI_1 Ubiquitin (chains E, F, G, H, I, J, K, L)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Sequence of entity 2 (A, B, C, D), FASTA

>7DNI_2 Interferon-induced helicase C domain-containing protein 1 (chains A, B, C, D)
MSNGYSTDENFRYLISCFRARVKMYIQVEPVLDYLTFLPAEVKEQIQRTVATSGNMQAVE
LLLSTLEKGVWHLGWTREFVEALRRTGSPLAARYMNPELTDLPSPSFENAHDEYLQLLNL
LQPTLVDKLLVRDVLDKCMEEELLTIEDRNRIAAAENNGNESGVRELLKRIVQKENWFSA
FLNVLRQTGNNELVQELTGSDCSESNAE

Sequence of entity 3 (M, N, O, P), FASTA

>7DNI_3 Mitochondrial antiviral-signaling protein (chains M, N, O, P)
MPFAEDKTYKYICRNFSNFCNVKVVKILPYLPCLTARDQDRLRATCTLSGNRDTLWHLFN
TLQRRPGWVEYFIAALRGCKLVDLADEVASVYQSYQP

Primary citation

Ordered assembly of the cytosolic RNA-sensing MDA5-MAVS signaling complex via binding to unanchored K63-linked poly-ubiquitin chains. Song, B., Chen, Y., Liu, X. et al. Immunity (2021) 54:2218. DOI 10.1016/j.immuni.2021.09.008 · PubMed

Other PDB entries of the same protein (UniProt P0CG47 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NVG 1.07 Å, Thr12 Phosphorylated Ubiquitin
5TOG 1.08 Å, Room temperature structure of ubiquitin variant u7ub25.2540
5TOF 1.12 Å, Room temperature structure of ubiquitin variant u7ub25
4XOF 1.15 Å, Observing the overall rocking motion of a protein in a crystal - Orthorhombic Ubiquitin…
5GOD 1.15 Å, Lys27-linked di-ubiquitin
5GOB 1.15 Å, Lys6-linked di-ubiquitin
5W46 1.18 Å, Structure of S65D Phosphomimetic Ubiquitin Refined at 1.2 Angstroms Resolution
7S6O 1.25 Å, The crystal structure of Lys48-linked di-ubiquitin
8IC9 1.25 Å, Lys48-linked K48C-diubiquitin
5DK8 1.32 Å, Human ubiquitin in the P1 space group
7CAP 1.33 Å, Cyclic Lys48-linked triubiquitin
5V1Y 1.42 Å, Crystal structure of the ternary RPN13 PRU-RPN2 (940-953)-ubiquitin complex

Browse structure collections

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