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1upn

COMPLEX OF ECHOVIRUS TYPE 12 WITH DOMAINS 3 AND 4 OF ITS RECEPTOR DECAY ACCELERATING FACTOR (CD55) BY CRYO ELECTRON MICROSCOPY AT 16 A

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

ECHOVIRUS 11 COAT PROTEIN VP1

OrganismNot specified

UniProt Q8JKE8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 300 COMPLEMENT DECAY-ACCELERATING FACTOR × 60 （P08174） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 COMPLEMENT DECAY-ACCELERATING FACTOR × 1 （P08174） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 25 COMPLEMENT DECAY-ACCELERATING FACTOR × 5 （P08174） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 30 COMPLEMENT DECAY-ACCELERATING FACTOR × 6 （P08174） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 5 COMPLEMENT DECAY-ACCELERATING FACTOR × 1 （P08174） 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
1upn 1upn 1upn 1upn 1upn

5 assemblies

View Construct and Data Evidence
UniProt name Q8JKE8_9ENTO
Isoform —
PDB entities 1, 2, 3, 4
Chains and sequence ranges Author chain A； PDBConstruct 1–292； UniProt 570–861 Author chain B； PDBConstruct 1–262； UniProt 70–331 Author chain C； PDBConstruct 1–238； UniProt 332–569 Author chain D； PDBConstruct 1–69； UniProt 1–69

COMPLEMENT DECAY-ACCELERATING FACTOR

HOMO SAPIENS

UniProt P08174

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 300 ECHOVIRUS 11 COAT PROTEIN VP1 × 60 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP2 × 60 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP3 × 60 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP4 × 60 （Q8JKE8） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 ECHOVIRUS 11 COAT PROTEIN VP1 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP2 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP3 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP4 × 1 （Q8JKE8） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 25 ECHOVIRUS 11 COAT PROTEIN VP1 × 5 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP2 × 5 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP3 × 5 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP4 × 5 （Q8JKE8） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 30 ECHOVIRUS 11 COAT PROTEIN VP1 × 6 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP2 × 6 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP3 × 6 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP4 × 6 （Q8JKE8） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 5 ECHOVIRUS 11 COAT PROTEIN VP1 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP2 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP3 × 1 （Q8JKE8） ECHOVIRUS 11 COAT PROTEIN VP4 × 1 （Q8JKE8） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1h03 1h03 1h04 1h2p 1h2q 1nwv 1uot 2qzd 2qzf 2qzh 3j24 3j24

12 assemblies

Homodimer
1ojv 1ojw 1ojy 1ojy 1ok1 1ok2 1ok3 1ok9

8 assemblies

Homotetramer

None

Other homooligomers
3j24 3j24 3j24

3 assemblies

Heteromeric or nucleic-acid complex
1m11 1m11 1m11 1m11 1m11 1upn 1upn 1upn 1upn 1upn 2c8i 2c8i

57 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DAF_HUMAN
Isoform —
PDB entities 5
Chains and sequence ranges Author chain E； PDBConstruct 1–129； UniProt 157–285

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_id1upn
Deposition date deposition_date2003-10-08
Structure title titleCOMPLEX OF ECHOVIRUS TYPE 12 WITH DOMAINS 3 AND 4 OF ITS RECEPTOR DECAY ACCELERATING FACTOR (CD55) BY CRYO ELECTRON MICROSCOPY AT 16 A
Keywords keywordsVIRUS/RECEPTOR, COMPLEX (VIRUS COAT-IMMUNE PROTEIN), ECHOVIRUS, PICORNAVIRUS, CD55, DAF, VIRUS-RECEPTOR COMPLEX, ICOSAHEDRAL VIRUS; VIRUS/RECEPTOR
Experimental Method methodELECTRON MICROSCOPY
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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.

1upn__assembly_1__model_1

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

Download this curve (.dat)

1upn__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 1010 1011 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1upn__assembly_1__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）0.00 Å
Rg (electron density)137.60 Å
Total Rg137.70 Å
Atom count447780
Residues57840
Excluded volume7908100 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1upn__assembly_1__model_1 300-MERIC （300） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1upn__assembly_2__model_1 pentameric （5） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 1upn__assembly_3__model_1 25-meric （25） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 1upn__assembly_4__model_1 30-meric （30） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 1upn__assembly_5__model_1 pentameric （5） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
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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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6. Fold Classification (SCOP + CATH) 5 domains

SCOP 2.08 (5 domains)

Domain ID domain_idd1upn.1
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
Domain ID domain_idd1upna_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
Domain ID domain_idd1upnc_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
Domain ID domain_idd1upne1
Class classg — Small proteins
Fold Fold foldg.18 — Complement control module/SCR domain
Superfamily Superfamily superfamilyg.18.1 — Complement control module/SCR domain
Family Family familyg.18.1.1 — Complement control module/SCR domain
Domain ID domain_idd1upne2
Class classg — Small proteins
Fold Fold foldg.18 — Complement control module/SCR domain
Superfamily Superfamily superfamilyg.18.1 — Complement control module/SCR domain
Family Family familyg.18.1.1 — Complement control module/SCR domain
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7. Citations (1)