SAXSdb — 8wm9

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Frizzled-4

Homo sapiens

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein heterocomplex Heteromer Protein × 3 PDB declaration: trimeric（3） Consistent with protein copy count	Chain A； UniProt 1–537 Chain B； UniProt 1–537	Not recorded	Segment polarity protein dishevelled homolog DVL-2 × 1 （O14641） Y01 CHOLESTEROL HEMISUCCINATE × 10	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE	Resolution 3.53 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 8WM9	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
5BPB Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form I Deposited 2015-05-27	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 42–179（138 aa） Fragment：UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；294 K；1.6 M tri-sodium citrate, pH 6.5	Resolution 2.20 Å R-free 0.223
5BPB Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form I Deposited 2015-05-27	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 42–179（138 aa） Fragment：UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；294 K；1.6 M tri-sodium citrate, pH 6.5	Resolution 2.20 Å R-free 0.223
5BPB Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form I Deposited 2015-05-27	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain D 42–179（138 aa） Fragment：UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；294 K；1.6 M tri-sodium citrate, pH 6.5	Resolution 2.20 Å R-free 0.223
5BPB Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form I Deposited 2015-05-27	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain C 42–179（138 aa） Fragment：UNP residues 42-179	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；294 K；1.6 M tri-sodium citrate, pH 6.5	Resolution 2.20 Å R-free 0.223
5BPQ Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form II Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 42–179（138 aa） Fragment：cysteine-rich domain, UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 CL CHLORIDE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M HEPES, pH 7.5, 0.1 M NaCl, 1.6 M ammonium sulfate	Resolution 2.40 Å R-free 0.243
5BPQ Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form II Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 42–179（138 aa） Fragment：cysteine-rich domain, UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M HEPES, pH 7.5, 0.1 M NaCl, 1.6 M ammonium sulfate	Resolution 2.40 Å R-free 0.243
5BPQ Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form II Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain C 42–179（138 aa） Fragment：cysteine-rich domain, UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M HEPES, pH 7.5, 0.1 M NaCl, 1.6 M ammonium sulfate	Resolution 2.40 Å R-free 0.243
5BPQ Crystal structure of the cysteine-rich domain of human Frizzled 4 - Crystal Form II Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain D 42–179（138 aa） Fragment：cysteine-rich domain, UNP residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M HEPES, pH 7.5, 0.1 M NaCl, 1.6 M ammonium sulfate	Resolution 2.40 Å R-free 0.243
5BQC Crystal structure of Norrin in complex with the cysteine-rich domain of Frizzled 4 and sucrose octasulfate Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric	Chain B 42–179（138 aa） Fragment：residues 42-179	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M Tris, pH 8.0, 0.15 M NaCl, 8% PEG8000	Resolution 3.00 Å R-free 0.268
5BQE Crystal structure of Norrin in complex with the cysteine-rich domain of Frizzled 4 -Methylated form Deposited 2015-05-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain C 42–179（138 aa） Fragment：residues 42-179	Non-standard monomer：Yes (specific site not provided by mmCIF)	PG0 2-(2-METHOXYETHOXY)ETHANOL × 4 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CL CHLORIDE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M Bicine, pH 9.0, 10% PEG6000	Resolution 2.30 Å R-free 0.221
5CL1 Complex structure of Norrin with human Frizzled 4 Deposited 2015-07-16	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 4 PDB declaration: tetrameric	Chain C 38–160（123 aa） Fragment：UNP residues 38-160 Chain D 38–160（123 aa） Fragment：UNP residues 38-160	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；200 mM ammonium sulfate, 100 mM sodium cacodylate trihydrate (pH 6.5), 15% w/v polyethylene glycol 8,000	Resolution 3.80 Å R-free 0.310
5CM4 Crystal structure of human Frizzled 4 Cysteine-Rich Domain (CRD) Deposited 2015-07-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Monomer；Protein × 1 PDB declaration: monomeric	Chain A 40–164（125 aa） Fragment：UNP residues 40-164	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；293 K；1.8 M ammonium sulfate, 0.1 M tri-Na citrate pH 5.6 and 0.2 M Na/K tartrate	Resolution 2.40 Å R-free 0.255
5CM4 Crystal structure of human Frizzled 4 Cysteine-Rich Domain (CRD) Deposited 2015-07-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 40–164（125 aa） Fragment：UNP residues 40-164	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；293 K；1.8 M ammonium sulfate, 0.1 M tri-Na citrate pH 5.6 and 0.2 M Na/K tartrate	Resolution 2.40 Å R-free 0.255
5UWG The crystal structure of Fz4-CRD in complex with palmitoleic acid Deposited 2017-02-21	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 40–164（125 aa） Fragment：Cysteine Rich Domain (UNP residues 40-164)	Not recorded	PAM PALMITOLEIC ACID × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 3.5；293 K；0.1 M citric acid pH 3.5, 28% w/v polyethylene glycol 8,000	Resolution 2.56 Å R-free 0.267
5UWG The crystal structure of Fz4-CRD in complex with palmitoleic acid Deposited 2017-02-21	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 40–164（125 aa） Fragment：Cysteine Rich Domain (UNP residues 40-164)	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 3.5；293 K；0.1 M citric acid pH 3.5, 28% w/v polyethylene glycol 8,000	Resolution 2.56 Å R-free 0.267
6BD4 Crystal structure of human apo-Frizzled4 receptor Deposited 2017-10-21	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 178–419（242 aa） Chain A 428–517（90 aa）	Mutation：M309L, C450I, C507F, S508Y Mutation：M309L, C450I, C507F, S508Y	ZN ZINC ION × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 4 OLA OLEIC ACID × 5 SO4 SULFATE ION × 3 UNX UNKNOWN LIGAND × 4	X-RAY DIFFRACTION X-ray crystallization conditions LIPIDIC CUBIC PHASE；pH 6；293 K；100 mM sodium cacodylate trihydrate (pH 6.0), 80 mM Magnesium Sulfate, 30% PEG400, 1.5-2.5% v/v (+/-)-2-Methyl-2,4-pentanediol	Resolution 2.40 Å R-free 0.233
6NE1 Designed repeat protein in complex with Fz4 Deposited 2018-12-15	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 42–161（120 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；295 K；0.2 M ammonium chloride, pH 6.3 and 20% PEG3,350	Resolution 3.01 Å R-free 0.293
8WMA Fzd4/DEP complex (local refined) Deposited 2023-10-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 1–537（537 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.47 Å

10 other PDB entries and 18 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	FZD4_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–537； UniProt 1–537 Author chain B； PDBConstruct 1–537； UniProt 1–537

Segment polarity protein dishevelled homolog DVL-2

Homo sapiens

UniProt O14641

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein heterocomplex Heteromer Protein × 3 PDB declaration: trimeric（3） Consistent with protein copy count	Chain C； UniProt 1–736	Not recorded	Frizzled-4 × 2 （Q9ULV1） Y01 CHOLESTEROL HEMISUCCINATE × 10	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE	Resolution 3.53 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 8WM9	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
2REY Crystal structure of the PDZ domain of human dishevelled 2 (homologous to Drosophila dsh) Deposited 2007-09-27	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 260–354（95 aa） Fragment：PDZ domain: Residues 261-355	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.5；293 K；0.2M Ammonium acetate, 0.1M Bis-tris pH 5.5, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K	Resolution 1.55 Å R-free 0.240
3CBX The Dvl2 PDZ Domain in Complex with the C1 Inhibitory Peptide Deposited 2008-02-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354) Chain B 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354)	Mutation：C341S Mutation：C341S	MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 CL CHLORIDE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions pH 4.8；292 K；60% 2-Methyl-2,4-pentanediol, 0.1 M sodium acetate, pH 4.8, VAPOR DIFFUSION, SITTING DROP, temperature 292K	Resolution 1.70 Å R-free 0.227
3CBY The Dvl2 PDZ Domain in Complex with the N1 Inhibitory Peptide Deposited 2008-02-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354) Chain B 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354)	Mutation：C341S Mutation：C341S	EDO 1,2-ETHANEDIOL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；292 K；1.6 M tri-sodium citrate, VAPOR DIFFUSION, SITTING DROP, temperature 292K	Resolution 1.50 Å R-free 0.182
3CBZ The Dvl2 PDZ Domain in Complex with the N2 Inhibitory Peptide Deposited 2008-02-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354)	Mutation：C341S	PO4 PHOSPHATE ION × 1 EDO 1,2-ETHANEDIOL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；292 K；0.1 M HEPES, 0.8 M sodium phosphate, 0.8 M Potassium phosphate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 292K	Resolution 1.38 Å R-free 0.166
3CC0 The Dvl2 PDZ Domain in Complex with the N3 Inhibitory Peptide Deposited 2008-02-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354) Chain B 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354) Chain C 264–354（91 aa） Fragment：PDZ domain (UNP residues 264-354)	Mutation：C341S Mutation：C341S Mutation：C341S	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions pH 7；292 K；1.0 M Ammonium citrate tribasic, 0.1 M BIS-TRIS propane, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 292K	Resolution 1.75 Å R-free 0.238
4WIP DIX domain of human Dvl2 Deposited 2014-09-26	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 12–106（95 aa） Fragment：UNP residues 13-105 Chain B 12–106（95 aa） Fragment：UNP residues 13-105 Chain C 12–106（95 aa） Fragment：UNP residues 13-105	Mutation：Y27D Mutation：Y27D Mutation：Y27D	1PE PENTAETHYLENE GLYCOL × 3	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；292 K；grew in PEG400 (cryo condition) over night	Resolution 2.69 Å R-free 0.248
5LNP Domain-swapped dimer of human Dishevelled2 DEP domain: monoclinic crystal form crystallised from monomeric fraction Deposited 2016-08-05	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 416–510（95 aa） Fragment：DEP domain, UNP residues 416-510 Chain B 416–510（95 aa） Fragment：DEP domain, UNP residues 416-510 Chain C 416–510（95 aa） Fragment：DEP domain, UNP residues 416-510 Chain D 416–510（95 aa） Fragment：DEP domain, UNP residues 416-510	Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF)	SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.1 M MES, pH=6.5 0.1 M NaCl 0.1 M Li2SO4 23 % PEG400	Resolution 1.99 Å R-free 0.246
5SUY Domain-swapped dimer of human Dishevelled2 DEP domain: monoclinic crystal form crystallised from dimeric fraction Deposited 2016-08-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 416–510（95 aa） Fragment：UNP residues 416-510 Chain B 416–510（95 aa） Fragment：UNP residues 416-510 Chain C 416–510（95 aa） Fragment：UNP residues 416-510 Chain D 416–510（95 aa） Fragment：UNP residues 416-510	Not recorded	SO4 SULFATE ION × 3	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.1 M MES 0.1 M NaCl 0.1 M Li2SO4 22-26% PEG400	Resolution 1.88 Å R-free 0.217
5SUZ Domain-swapped dimer of human Dishevelled2 DEP domain: C-centered monoclinic crystal form crystallised from monomeric fraction Deposited 2016-08-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 416–509（94 aa） Fragment：UNP residues 416-509 Chain B 416–509（94 aa） Fragment：UNP residues 416-509	Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF)	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；298 K；0.1 M MES, pH=6.5 0.2 M CaCl2 23% PEG350 MME	Resolution 1.84 Å R-free 0.263
6IW3 High resolution structure of Dvl2-DIX Y27W/C80S mutant Deposited 2018-12-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 12–93（82 aa） Fragment：DIX-domain	Mutation：Y27W, C80S	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；277 K；20% (w/v) PEG 6000, Tris-HCl pH 8.0, 200 mM lithium chloride	Resolution 1.64 Å R-free 0.229
6JCK Complex structure of Axin-DIX and Dvl2-DIX Deposited 2019-01-29	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 12–93（82 aa）	Mutation：V67A,K68A	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；277 K；25% (w/v) PEG1500, 0.1 M Malonate-Imidazole-Borate buffer pH 7.0	Resolution 3.09 Å R-free 0.290
8WMA Fzd4/DEP complex (local refined) Deposited 2023-10-03	Different oligomeric state Different ligand/ion Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 1–736（736 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.47 Å
8WWR Crystal structure of apo human dishevelled 2 (Dvl2) PDZ domain Deposited 2023-10-26	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 261–354（94 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.1M Tri-sodium citrate, pH 5.6 20% (v/v) Isopropanol 20%(w/v) PEG4000	Resolution 1.75 Å R-free 0.253
8YR7 Crystal structure of human dishevelled 2 (Dvl2) PDZ domain fused with WGEF internal peptide motif Deposited 2024-03-20	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 261–353（93 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.5；293 K；0.1M Sodium acetate (pH 4.5), 3M Sodium chloride	Resolution 3.00 Å R-free 0.335

14 other PDB entries and 14 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	DVL2_HUMAN
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain C； PDBConstruct 1–736； UniProt 1–736

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	8wm9
Deposition date deposition_date	2023-10-03
Structure title title	Fzd4/DEP complex
Keywords keywords	GPCR complex, MEMBRANE PROTEIN; MEMBRANE PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	32.66 Å
Radius of gyration Rg (electron density) rg_electron	30.46 Å
Forward intensity I(0) i0	86163900.00
Molecular weight molecular_weight	83188.0 kDa
Excluded volume excluded_volume	108260 Å³
Envelope volume envelope_volume	144030 Å³
Hydration-shell volume shell_volume	39457 Å³
Envelope diameter envelope_diameter	111.3 Å
Shell Rg shell_rg	37.53 Å
Envelope Rg envelope_rg	30.73 Å
Shape Rg shape_rg	30.47 Å
Total Rg total_rg	31.21 Å
Total atoms total_atoms	5879
Residues n_residues	719
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	105.4 Å
Rg (real space) rg_real	32.59 Å
Rg uncertainty (real space) rg_real_error	0.82 Å
I(0) (real space) i0_real	8.6160e+07
I(0) uncertainty (real space) i0_real_error	1.3520e+06
Rg (reciprocal space) rg_reciprocal	32.62 Å
I(0) (reciprocal space) i0_reciprocal	86170000.0000
Solution quality estimate total_estimate	0.8999
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	43.9 Å
Skewness Skewness skewness	0.228
Kurtosis Kurtosis kurtosis	-0.431
Angular range angular_range	— – 0.2400 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	17860000.0000
Real-space data points n_real_points	49
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.916; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.995; Smooth: 0.952

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	Frizzled-4
Molecular weight formula_weight	60047.9 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	5879

MAWRGAGPSVPGAPGGVGLSLGLLLQLLLLLGPARGFGDEEERRCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGPGDEEVPLPHKTPIQPGEECHSVGTNSDQYIWVKRSLNCVLKCGYDAGLYSRSAKEFTDIWMAVWASLCFISTAFTVLTFLIDSSRFSYPERPIIFLSMCYNIYSIAYIVRLTVGRERISCDFEEAAEPVLIQEGLKNTGCAIIFLLLYFFGMASSIWWVILTLTWFLAAGLKWGHEAIEMHSSYFHIAAWAIPAVKTIVILIMRLVDADELTGLCYVGNQNLDALTGFVVAPLFTYLVIGTLFIAAGLVALFKIRSNLQKDGTKTDKLERLMVKIGVFSVLYTVPATIVIACYFYEISNWALFRYSADDSNMAVEMLKIFMSLLVGITSGMWIWSAKTLHTWQKFYNRLVNSGKVKREKRGNGWVKPGKGSETVV

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	human
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Spodoptera frugiperda

Entity 2 Entity 2 polymer

Description description	Segment polarity protein dishevelled homolog DVL-2
Molecular weight formula_weight	79036.0 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	C

MAGSSTGGGGVGETKVIYHLDEEETPYLVKIPVPAERITLGDFKSVLQRPAGAKYFFKSMDQDFGVVKEEISDDNARLPCFNGRVVSWLVSSDNPQPEMAPPVHEPRAELAPPAPPLPPLPPERTSGIGDSRPPSFHPNVSSSHENLEPETETESVVSLRRERPRRRDSSEHGAGGHRTGGPSRLERHLAGYESSSTLMTSELESTSLGDSDEEDTMSRFSSSTEQSSASRLLKRHRRRRKQRPPRLERTSSFSSVTDSTMSLNIITVTLNMEKYNFLGISIVGQSNERGDGGIYIGSIMKGGAVAADGRIEPGDMLLQVNDMNFENMSNDDAVRVLRDIVHKPGPIVLTVAKCWDPSPQAYFTLPRNEPIQPIDPAAWVSHSAALTGTFPAYPGSSSMSTITSGSSLPDGCEGRGLSVHTDMASVTKAMAAPESGLEVRDRMWLKITIPNAFLGSDVVDWLYHHVEGFPERREARKYASGLLKAGLIRHTVNKITFSEQCYYVFGDLSGGCESYLVNLSLNDNDGSSGASDQDTLAPLPGATPWPLLPTFSYQYPAPHPYSPQPPPYHELSSYTYGGGSASSQHSEGSRSSGSTRSDGGAGRTGRPEERAPESKSGSGSESEPSSRGGSLRRGGEASGTSDGGPPPSRGSTGGAPNLRAHPGLHPYGPPPGMALPYNPMMVVMMPPPPPPVPPAVQPPGAPPVRDLGSVPPELTASRQSFHMAMGNPSEFFVDVM

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	human
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Spodoptera frugiperda

Entity 3 Entity 3 non-polymer

Description description	CHOLESTEROL HEMISUCCINATE
Molecular weight formula_weight	486.7 kDa
Source method src_method	syn
Copy count entity_count	10

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8. Citations (1)

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Resolution resolution	3.53 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	95333

fit	/app/data/saxs_computation/wm/8wm9/8wm9.fit
pddf	/app/data/pr_computation/wm/8wm9/8wm9.pr.out
profile	/app/data/saxs_computation/wm/8wm9/8wm9.dat

Fzd4/DEP complex

1. Protein Identity and Related Structures Protein Identity & Related Structures

Frizzled-4

State in the Current Structure

Other States of the Same Protein in the Database

Segment polarity protein dishevelled homolog DVL-2

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

Entity 2 Entity 2 polymer

Polymer Polymer

来源 Source

Entity 3 Entity 3 non-polymer

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)