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8r8b

Wnt binding to COPalpha and COPBeta2 directs secretion on extracellular vesicles

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

;Coatomer subunit beta' ;

Saccharomyces cerevisiae

UniProt P41811

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 15 GLYCEROL × 3 water × 2 Consistent with protein count
10 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 6 GLYCEROL × 4 water × 2 Consistent with protein count
11 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 11 GLYCEROL × 2 water × 2 Consistent with protein count
12 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 11 GLYCEROL × 1 water × 2 Consistent with protein count
13 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 7 GLYCEROL × 4 water × 2 Consistent with protein count
14 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 11 GLYCEROL × 2 water × 2 Consistent with protein count
15 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 9 GLYCEROL × 1 water × 2 Consistent with protein count
16 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count
17 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count
18 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 9 GLYCEROL × 1 water × 2 Consistent with protein count
19 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 11 GLYCEROL × 3 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 7 GLYCEROL × 3 water × 2 Consistent with protein count
20 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 7 GLYCEROL × 2 water × 2 Consistent with protein count
21 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 12 GLYCEROL × 3 water × 2 Consistent with protein count
22 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 7 GLYCEROL × 1 water × 2 Consistent with protein count
23 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 4 GLYCEROL × 2 water × 2 Consistent with protein count
24 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 9 GLYCEROL × 2 water × 2 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 9 GLYCEROL × 3 water × 2 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 10 GLYCEROL × 2 water × 2 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 6 GLYCEROL × 3 water × 2 Consistent with protein count
6 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 7 GLYCEROL × 3 water × 2 Consistent with protein count
7 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 4 GLYCEROL × 2 water × 2 Consistent with protein count
8 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 10 GLYCEROL × 4 water × 2 Consistent with protein count
9 Protein heterocomplex Heteromer Protein 2 Small ribosomal subunit protein mS37 × 1 （O75012） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2yno 2yno

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2ynn 2ynn 2ynp 4j73 4j77 4j77 4j78 4j79 4j81 4j81 4j82 4j82

40 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name COPB2_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain AAA； PDBConstruct 1–304； UniProt 1–304 Author chain BBB； PDBConstruct 1–304； UniProt 1–304 Author chain CCC； PDBConstruct 1–304； UniProt 1–304 Author chain DDD； PDBConstruct 1–304； UniProt 1–304 Author chain EEE； PDBConstruct 1–304； UniProt 1–304 Author chain FFF； PDBConstruct 1–304； UniProt 1–304 Author chain GGG； PDBConstruct 1–304； UniProt 1–304 Author chain HHH； PDBConstruct 1–304； UniProt 1–304 Author chain III； PDBConstruct 1–304； UniProt 1–304 Author chain JJJ； PDBConstruct 1–304； UniProt 1–304 Author chain KKK； PDBConstruct 1–304； UniProt 1–304 Author chain LLL； PDBConstruct 1–304； UniProt 1–304 Author chain MMM； PDBConstruct 1–304； UniProt 1–304 Author chain NNN； PDBConstruct 1–304； UniProt 1–304 Author chain OOO； PDBConstruct 1–304； UniProt 1–304 Author chain PPP； PDBConstruct 1–304； UniProt 1–304 Author chain QQQ； PDBConstruct 1–304； UniProt 1–304 Author chain RRR； PDBConstruct 1–304； UniProt 1–304 Author chain SSS； PDBConstruct 1–304； UniProt 1–304 Author chain TTT； PDBConstruct 1–304； UniProt 1–304 Author chain UUU； PDBConstruct 1–304； UniProt 1–304 Author chain VVV； PDBConstruct 1–304； UniProt 1–304 Author chain WWW； PDBConstruct 1–304； UniProt 1–304 Author chain XXX； PDBConstruct 1–304； UniProt 1–304

Small ribosomal subunit protein mS37

OrganismNot specified

UniProt O75012

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 15 GLYCEROL × 3 water × 2 Consistent with protein count
10 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 6 GLYCEROL × 4 water × 2 Consistent with protein count
11 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 11 GLYCEROL × 2 water × 2 Consistent with protein count
12 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 11 GLYCEROL × 1 water × 2 Consistent with protein count
13 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 7 GLYCEROL × 4 water × 2 Consistent with protein count
14 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 11 GLYCEROL × 2 water × 2 Consistent with protein count
15 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 9 GLYCEROL × 1 water × 2 Consistent with protein count
16 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count
17 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count
18 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 9 GLYCEROL × 1 water × 2 Consistent with protein count
19 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 11 GLYCEROL × 3 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 7 GLYCEROL × 3 water × 2 Consistent with protein count
20 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 7 GLYCEROL × 2 water × 2 Consistent with protein count
21 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 12 GLYCEROL × 3 water × 2 Consistent with protein count
22 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 7 GLYCEROL × 1 water × 2 Consistent with protein count
23 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 4 GLYCEROL × 2 water × 2 Consistent with protein count
24 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 9 GLYCEROL × 2 water × 2 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 9 GLYCEROL × 3 water × 2 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 10 GLYCEROL × 2 water × 2 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 6 GLYCEROL × 3 water × 2 Consistent with protein count
6 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 7 GLYCEROL × 3 water × 2 Consistent with protein count
7 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 4 GLYCEROL × 2 water × 2 Consistent with protein count
8 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 10 GLYCEROL × 4 water × 2 Consistent with protein count
9 Protein heterocomplex Heteromer Protein 2 ;Coatomer subunit beta' ; × 1 （P41811） SULFATE ION × 8 GLYCEROL × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5mrc 5mre 5mrf 8d8k 8d8l 8om2 8om3 8om4 8r8b 8r8b 8r8b 8r8b

35 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name MRP10_YEAST
Isoform —
PDB entities 2
Chains and sequence ranges Author chain aaa； PDBConstruct 1–6； UniProt 16–21 Author chain bbb； PDBConstruct 1–6； UniProt 16–21 Author chain ccc； PDBConstruct 1–6； UniProt 16–21 Author chain ddd； PDBConstruct 1–6； UniProt 16–21 Author chain eee； PDBConstruct 1–6； UniProt 16–21 Author chain fff； PDBConstruct 1–6； UniProt 16–21 Author chain ggg； PDBConstruct 1–6； UniProt 16–21 Author chain hhh； PDBConstruct 1–6； UniProt 16–21 Author chain iii； PDBConstruct 1–6； UniProt 16–21 Author chain jjj； PDBConstruct 1–6； UniProt 16–21 Author chain kkk； PDBConstruct 1–6； UniProt 16–21 Author chain lll； PDBConstruct 1–6； UniProt 16–21 Author chain mmm； PDBConstruct 1–6； UniProt 16–21 Author chain nnn； PDBConstruct 1–6； UniProt 16–21 Author chain ooo； PDBConstruct 1–6； UniProt 16–21 Author chain ppp； PDBConstruct 1–6； UniProt 16–21 Author chain qqq； PDBConstruct 1–6； UniProt 16–21 Author chain rrr； PDBConstruct 1–6； UniProt 16–21 Author chain sss； PDBConstruct 1–6； UniProt 16–21 Author chain ttt； PDBConstruct 1–6； UniProt 16–21 Author chain uuu； PDBConstruct 1–6； UniProt 16–21 Author chain vvv； PDBConstruct 1–6； UniProt 16–21 Author chain www； PDBConstruct 1–6； UniProt 16–21 Author chain xxx； PDBConstruct 1–6； UniProt 16–21

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_id8r8b
Deposition date deposition_date2023-11-28
Structure title titleWnt binding to COPalpha and COPBeta2 directs secretion on extracellular vesicles
Keywords keywords;Wnt signalling, Coatomer complex, Wnt7a, Regenerative myogenesis, COPI vesicles, COPalpha, COPBeta2, Extracellular vesicles, Exosomes, Signal peptide., TRANSPORT PROTEIN ;; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

8r8b__assembly_10__model_1

Assembly 10 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

8r8b__assembly_10__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

8r8b__assembly_10__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）19.47 Å
Rg (electron density)18.24 Å
Total Rg19.29 Å
Atom count2534
Residues308
Excluded volume44967 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8r8b__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 8r8b__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 8r8b__assembly_3__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 8r8b__assembly_4__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 8r8b__assembly_5__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 8r8b__assembly_6__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
7 1 8r8b__assembly_7__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
8 1 8r8b__assembly_8__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
9 1 8r8b__assembly_9__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
10 1 8r8b__assembly_10__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
11 1 8r8b__assembly_11__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
12 1 8r8b__assembly_12__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
13 1 8r8b__assembly_13__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
14 1 8r8b__assembly_14__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
15 1 8r8b__assembly_15__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
16 1 8r8b__assembly_16__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
17 1 8r8b__assembly_17__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
18 1 8r8b__assembly_18__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
19 1 8r8b__assembly_19__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
20 1 8r8b__assembly_20__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
21 1 8r8b__assembly_21__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
22 1 8r8b__assembly_22__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
23 1 8r8b__assembly_23__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
24 1 8r8b__assembly_24__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (5)

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7. Citations (1)