8WMA: Fzd4/DEP complex

Fzd4/DEP complex (local refined). Determined by electron microscopy at 3.47 Å resolution. Released 11 Sept 2024.

Method: Electron microscopy
Resolution: 3.47 Å
Organism: Homo sapiens
Chains: 2
Atoms: 3,172
Mol. weight: 139.08 kDa
Released: 11 Sept 2024

Explore 8WMA in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8WMA contains 17 α-helices and 10 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: 14 helices, 6 β-strands

Element	Residues	Length	Sheet
β-strand	191-194	4	1
β-strand	199-202	4	1
β-strand	203	1	2
α-helix	213-243	31
α-helix	253-275	23
α-helix	277-280	4
β-strand	291	1	2
α-helix	296-298	3
α-helix	300-331	32
α-helix	341-343	3
α-helix	344-365	22
β-strand	369-370	2	3
β-strand	377-378	2	3
α-helix	384-386	3
α-helix	387-392	6
α-helix	393-421	29
α-helix	428-460	33
α-helix	462-466	5
α-helix	471-489	19
α-helix	498-510	13

Chain C: 3 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	423-430	8
β-strand	440-444	5	4
β-strand	447-454	8	4
α-helix	455-464	10
α-helix	475-484	10
β-strand	488-489	2	4
β-strand	502-505	4	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Frizzled-4	A	protein	537	Homo sapiens	Q9ULV1 (AlphaFold model)
Segment polarity protein dishevelled homolog DVL-2	C	protein	736	Homo sapiens	O14641 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>8WMA_1 Frizzled-4 (chains A)
MAWRGAGPSVPGAPGGVGLSLGLLLQLLLLLGPARGFGDEEERRCDPIRISMCQNLGYNV
TKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGM
CLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGPGDEEVPLPHKTPIQPGEE
CHSVGTNSDQYIWVKRSLNCVLKCGYDAGLYSRSAKEFTDIWMAVWASLCFISTAFTVLT
FLIDSSRFSYPERPIIFLSMCYNIYSIAYIVRLTVGRERISCDFEEAAEPVLIQEGLKNT
GCAIIFLLLYFFGMASSIWWVILTLTWFLAAGLKWGHEAIEMHSSYFHIAAWAIPAVKTI
VILIMRLVDADELTGLCYVGNQNLDALTGFVVAPLFTYLVIGTLFIAAGLVALFKIRSNL
QKDGTKTDKLERLMVKIGVFSVLYTVPATIVIACYFYEISNWALFRYSADDSNMAVEMLK
IFMSLLVGITSGMWIWSAKTLHTWQKFYNRLVNSGKVKREKRGNGWVKPGKGSETVV

Sequence of entity 2 (C), FASTA

>8WMA_2 Segment polarity protein dishevelled homolog DVL-2 (chains C)
MAGSSTGGGGVGETKVIYHLDEEETPYLVKIPVPAERITLGDFKSVLQRPAGAKYFFKSM
DQDFGVVKEEISDDNARLPCFNGRVVSWLVSSDNPQPEMAPPVHEPRAELAPPAPPLPPL
PPERTSGIGDSRPPSFHPNVSSSHENLEPETETESVVSLRRERPRRRDSSEHGAGGHRTG
GPSRLERHLAGYESSSTLMTSELESTSLGDSDEEDTMSRFSSSTEQSSASRLLKRHRRRR
KQRPPRLERTSSFSSVTDSTMSLNIITVTLNMEKYNFLGISIVGQSNERGDGGIYIGSIM
KGGAVAADGRIEPGDMLLQVNDMNFENMSNDDAVRVLRDIVHKPGPIVLTVAKCWDPSPQ
AYFTLPRNEPIQPIDPAAWVSHSAALTGTFPAYPGSSSMSTITSGSSLPDGCEGRGLSVH
TDMASVTKAMAAPESGLEVRDRMWLKITIPNAFLGSDVVDWLYHHVEGFPERREARKYAS
GLLKAGLIRHTVNKITFSEQCYYVFGDLSGGCESYLVNLSLNDNDGSSGASDQDTLAPLP
GATPWPLLPTFSYQYPAPHPYSPQPPPYHELSSYTYGGGSASSQHSEGSRSSGSTRSDGG
AGRTGRPEERAPESKSGSGSESEPSSRGGSLRRGGEASGTSDGGPPPSRGSTGGAPNLRA
HPGLHPYGPPPGMALPYNPMMVVMMPPPPPPVPPAVQPPGAPPVRDLGSVPPELTASRQS
FHMAMGNPSEFFVDVM

Primary citation

Structural basis of Frizzled 4 in recognition of Dishevelled 2 unveils mechanism of WNT signaling activation. Qian, Y., Ma, Z., Xu, Z. et al. Nat Commun (2024) 15:7644-7644. DOI 10.1038/s41467-024-52174-z · PubMed

Other PDB entries of the same protein (UniProt Q9ULV1 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5BPB 2.2 Å, Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form I
5BQE 2.3 Å, Crystal structure of Norrin in complex with the cysteine-rich domain of Frizzled 4…
5BPQ 2.4 Å, Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form II
5CM4 2.4 Å, Crystal structure of human Frizzled 4 Cysteine-Rich Domain (CRD)
6BD4 2.4 Å, Crystal structure of human apo-Frizzled4 receptor
5UWG 2.56 Å, The crystal structure of Fz4-CRD in complex with palmitoleic acid
5BQC 3.0 Å, Crystal structure of Norrin in complex with the cysteine-rich domain of Frizzled 4 and…
6NE1 3.01 Å, Designed repeat protein in complex with Fz4
8WM9 3.53 Å, Fzd4/DEP complex
5CL1 3.8 Å, Complex structure of Norrin with human Frizzled 4

Browse structure collections

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