2D1K: Actin, alpha skeletal muscle

Ternary complex of the WH2 domain of mim with actin-dnase I. Determined by X-ray diffraction at 2.5 Å resolution. Released 12 Sept 2006.

Method: X-ray diffraction
Resolution: 2.5 Å
Organisms: Oryctolagus cuniculus, Bos taurus
Chains: 3
Atoms: 5,355
Mol. weight: 75.78 kDa
Ligands: MG, ATP, CA
Released: 12 Sept 2006

Explore 2D1K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2D1K contains 38 α-helices and 41 β-strands across 3 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: 23 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	8-12	5	1
β-strand	16-21	6	1
β-strand	24	1	2
β-strand	29-32	4	1
β-strand	35-38	4	3
β-strand	42-44	3	4
β-strand	53-54	2	3
α-helix	56-60	5
α-helix	62-64	3
β-strand	65-68	4	3
β-strand	71-72	2	5
β-strand	75-76	2	5
α-helix	79-87	9
α-helix	88-94	7
α-helix	98-100	3
β-strand	103-107	5	1
α-helix	113-125	13
β-strand	132-136	5	1
α-helix	137-143	7
β-strand	150-155	6	6
β-strand	160-166	7	6
β-strand	169-170	2	6
α-helix	172-174	3
β-strand	176-178	3	6
α-helix	182-195	14
α-helix	203-216	14
α-helix	223-231	9
β-strand	238-241	4	7
β-strand	247-250	4	7
α-helix	253-259	7
α-helix	264-266	3
α-helix	274-282	9
α-helix	290-294	5
β-strand	297-300	4	6
α-helix	302-304	3
α-helix	309-320	12
β-strand	329-330	2	6
α-helix	335-337	3
α-helix	338-348	11
α-helix	352-354	3
β-strand	357	1	1
α-helix	358	1
α-helix	359-364	6
α-helix	369-373	5

Chain B: 14 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	2-11	10	4
α-helix	13-17	5
α-helix	19-29	11
β-strand	34-40	7	4
α-helix	46-55	10
β-strand	64-67	4	4
α-helix	68-70	3
β-strand	71	1	8
β-strand	78	1	8
β-strand	79-84	6	4
β-strand	89-96	8	9
α-helix	105-107	3
β-strand	114-120	7	9
β-strand	127-132	6	9
α-helix	137-139	3
α-helix	140-158	19
β-strand	163-168	6	9
α-helix	173-175	3
α-helix	178-183	6
α-helix	185-188	4
β-strand	192-194	3	9
β-strand	203	1	10
β-strand	212-217	6	9
α-helix	219-224	6
β-strand	225	1	11
β-strand	231-232	2	4
α-helix	235-239	5
α-helix	243-249	7
β-strand	252	1	10
α-helix	253-254	2
β-strand	255-258	4	4
β-strand	259	1	11

Chain C: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
α-helix	729-737	9
β-strand	742	1	2
β-strand	747-748	2	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Actin, alpha skeletal muscle	A	protein	375	Oryctolagus cuniculus	P68135 (AlphaFold model)
Deoxyribonuclease-1	B	protein	260	Bos taurus	P00639 (AlphaFold model)
Metastasis suppressor protein 1	C	protein	32		O43312 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2D1K_1 Actin, alpha skeletal muscle (chains A)
DEDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQS
KRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMT
QIMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDL
AGRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSY
ELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMS
GGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQ
EYDEAGPSIVHRKCF

Sequence of entity 2 (B), FASTA

>2D1K_2 Deoxyribonuclease-1 (chains B)
LKIAAFNIRTFGETKMSNATLASYIVRIVRRYDIVLIQEVRDSHLVAVGKLLDYLNQDDP
NTYHYVVSEPLGRNSYKERYLFLFRPNKVSVLDTYQYDDGCESCGNDSFSREPAVVKFSS
HSTKVKEFAIVALHSAPSDAVAEINSLYDVYLDVQQKWHLNDVMLMGDFNADCSYVTSSQ
WSSIRLRTSSTFQWLIPDSADTTATSTNCAYDRIVVAGSLLQSSVVPGSAAPFDFQAAYG
LSNEMALAISDHYPVEVTLT

Sequence of entity 3 (C), FASTA

>2D1K_3 Metastasis suppressor protein 1 (chains C)
DTPQGEDMLNAIRRGVKLKKTTTNDRSAPRFS

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	1
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	1
CA	Calcium ion	Ca	2

Primary citation

Structural basis for the actin-binding function of missing-in-metastasis. Lee, S.H., Kerff, F., Chereau, D. et al. Structure (2007) 15:145-155. DOI 10.1016/j.str.2006.12.005 · PubMed

Other PDB entries of the same protein (UniProt P68135 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4B1Y 1.29 Å, Structure of the Phactr1 RPEL-3 bound to G-actin
2FXU 1.35 Å, X-ray Structure of Bistramide A- Actin Complex at 1.35 A resolution.
4K41 1.4 Å, Crystal structure of actin in complex with marine macrolide kabiramide C
1QZ5 1.45 Å, Structure of rabbit actin in complex with kabiramide C
1WUA 1.45 Å, The structure of Aplyronine A-actin complex
2Q0U 1.45 Å, Structure of Pectenotoxin-2 and Latrunculin B Bound to Actin
2V52 1.45 Å, Structure of MAL-RPEL2 complexed to G-actin
3MN5 1.5 Å, Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
2PBD 1.5 Å, Ternary complex of profilin-actin with the poly-PRO-GAB domain of VASP*
5ZZA 1.53 Å, OdinProfilin/Rabbit Actin Complex
1J6Z 1.54 Å, Uncomplexed actin
1QZ6 1.6 Å, Structure of rabbit actin in complex with jaspisamide A

Browse structure collections

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