6D8C: FLNaABD E254K

Cryo-EM structure of FLNaABD E254K bound to phalloidin-stabilized F-actin. Determined by electron microscopy at 3.54 Å resolution. Released 19 Sept 2018.

Method: Electron microscopy
Resolution: 3.54 Å
Organisms: Homo sapiens, Gallus gallus, Amanita phalloides
Chains: 13
Atoms: 19,665
Mol. weight: 386.38 kDa
Ligands: MG, ADP
Released: 19 Sept 2018

Explore 6D8C in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6D8C contains 140 α-helices and 103 β-strands across 10 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, D and E: 7 helices, 0 β-strands

Element	Residues	Length
α-helix	30-32	3
α-helix	40-56	17
α-helix	67-70	4
α-helix	75-85	11
α-helix	100-116	17
α-helix	126-131	6
α-helix	134-147	14

Chains H, J and L: 21 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	8-10	3	1
β-strand	16-21	6	1
β-strand	29-32	4	1
β-strand	35-38	4	2
β-strand	42	1	3
β-strand	53-54	2	2
α-helix	56-60	5
α-helix	62-64	3
β-strand	65-68	4	2
β-strand	71-72	2	4
β-strand	75-76	2	4
α-helix	79-87	9
α-helix	88-94	7
β-strand	103-107	5	1
α-helix	113-122	10
α-helix	123-127	5
β-strand	131-136	6	1
α-helix	139-145	7
β-strand	150-152	3	5
β-strand	160	1	6
β-strand	163-166	4	5
β-strand	169-170	2	5
β-strand	178	1	6
α-helix	182-196	15
α-helix	203-216	14
α-helix	223-232	10
β-strand	238-240	3	7
β-strand	248-250	3	7
α-helix	252-254	3
α-helix	259-262	4
α-helix	274-284	11
α-helix	290-295	6
β-strand	297-298	2	5
α-helix	309-320	12
α-helix	322	1
β-strand	329-330	2	5
α-helix	338-348	11
α-helix	351-355	5
β-strand	357-358	2	1
α-helix	359-365	7
α-helix	366-368	3
α-helix	369-373	5

Chains K and M: 21 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	8-10	3	14
β-strand	16-21	6	14
β-strand	29-32	4	14
β-strand	35-38	4	15
β-strand	53-54	2	15
α-helix	56-60	5
α-helix	62-64	3
β-strand	65-68	4	15
β-strand	71-72	2	16
β-strand	75-76	2	16
α-helix	79-87	9
α-helix	88-94	7
β-strand	103-107	5	14
α-helix	113-122	10
α-helix	123-127	5
β-strand	131-136	6	14
α-helix	139-145	7
β-strand	150-152	3	17
β-strand	160	1	18
β-strand	163-166	4	17
β-strand	169-170	2	17
β-strand	178	1	18
α-helix	182-196	15
α-helix	203-216	14
α-helix	223-232	10
β-strand	238-240	3	19
β-strand	248-250	3	19
α-helix	252-254	3
α-helix	259-262	4
α-helix	274-284	11
α-helix	290-295	6
β-strand	297-298	2	17
α-helix	309-320	12
α-helix	322	1
β-strand	329-330	2	17
α-helix	338-348	11
α-helix	351-355	5
β-strand	357-358	2	14
α-helix	359-365	7
α-helix	366-368	3
α-helix	369-373	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Filamin-A	A, B, C, D, E	protein	306	Homo sapiens	P21333 (AlphaFold model)
Actin, alpha skeletal muscle	H, J, K, L, M	protein	375	Gallus gallus	P68139 (AlphaFold model)
Phalloidin	N, O, P	protein	7	Amanita phalloides	P0CU65 (AlphaFold model)

Sequence of entity 1 (A, B, C, D, E), FASTA

>6D8C_1 Filamin-A (chains A, B, C, D, E)
MHHHHHHGSLVPRSENLYFQGSDILQGTMSSSHSRAGQSAAGAAPGGGVDTRDAEMPATE
KDLAEDAPWKKIQQNTFTRWCNEHLKCVSKRIANLQTDLSDGLRLIALLEVLSQKKMHRK
HNQRPTFRQMQLENVSVALEFLDRESIKLVSIDSKAIVDGNLKLILGLIWTLILHYSISM
PMWDEEEDEEAKKQTPKQRLLGWIQNKLPQLPITNFSRDWQSGRALGALVDSCAPGLCPD
WDSWDASKPVTNAREAMQQADDWLGIPQVITPEEIVDPNVDKHSVMTYLSQFPKAKLKPG
APLRPK

Sequence of entity 2 (H, J, K, L, M), FASTA

>6D8C_2 Actin, alpha skeletal muscle (chains H, J, K, L, M)
DEDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQS
KRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMT
QIMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDL
AGRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSY
ELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMS
GGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQ
EYDEAGPSIVHRKCF

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

>6D8C_3 Phalloidin (chains N, O, P)
PAWXATC

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	5
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	5

Primary citation

Structural basis of the filamin A actin-binding domain interaction with F-actin. Iwamoto, D.V., Huehn, A., Simon, B. et al. Nat Struct Mol Biol (2018) 25:918-927. DOI 10.1038/s41594-018-0128-3 · PubMed

Other PDB entries of the same protein (UniProt P21333 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3CNK 1.65 Å, Crystal Structure of the dimerization domain of human filamin A
4M9P 1.72 Å, Crystal structure of the human filamin A Ig-like domains 3-5
7SC4 1.85 Å, filamin complex-1
2W0P 1.9 Å, Crystal structure of the filamin A repeat 21 complexed with the migfilin peptide
4P3W 2.0 Å, Crystal structure of the human filamin A Ig-like domains 20-21 in complex with migfilin…
2BRQ 2.1 Å, Crystal structure of the filamin A repeat 21 complexed with the integrin beta7…
2JF1 2.2 Å, Crystal structure of the filamin a repeat 21 complexed with the integrin BETA2…
9LWX 2.29 Å, Crystal structure of the Filamin A repeat 21
3HOC 2.3 Å, Structure of the actin-binding domain of human filamin A mutant E254K
3HOP 2.3 Å, Structure of the actin-binding domain of human filamin A
6EW1 2.31 Å, Crystal structure of the Filamin A Ig-like domains 3-5 mutant P637Q
2BP3 2.32 Å, Crystal structure of Filamin A domain 17 and GPIb alpha cytoplasmic domain complex

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