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5iz7

Cryo-EM structure of thermally stable Zika virus strain H/PF/2013

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

structural protein E

OrganismNot specified

UniProt A0A024B7W1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 360 structural protein M × 180 （A0A0U4DG08） 2-acetamido-2-deoxy-beta-D-glucopyranose × 180 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 6 structural protein M × 3 （A0A0U4DG08） 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 30 structural protein M × 15 （A0A0U4DG08） 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 36 structural protein M × 18 （A0A0U4DG08） 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 6 structural protein M × 3 （A0A0U4DG08） 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
5jmt 6ld1 6ld2 6ld3 6ld4 6ld5

6 assemblies

Homodimer
5iy3

1 assemblies

Homotetramer

None

Other homooligomers
6lnu 6lnu 6lnu 6lnu 6lnu

5 assemblies

Heteromeric or nucleic-acid complex
5gzr 5gzr 5gzr 5gzr 5gzr 5gzr 5h30 5h30 5h30 5h30 5h30 5h30

94 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name A0A024B7W1_ZIKV
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–504； UniProt 291–794 Author chain B； PDBConstruct 1–504； UniProt 291–794 Author chain C； PDBConstruct 1–504； UniProt 291–794

structural protein M

OrganismNot specified

UniProt A0A0U4DG08

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 360 structural protein E × 180 （A0A024B7W1） 2-acetamido-2-deoxy-beta-D-glucopyranose × 180 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 6 structural protein E × 3 （A0A024B7W1） 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 30 structural protein E × 15 （A0A024B7W1） 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 36 structural protein E × 18 （A0A024B7W1） 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 6 structural protein E × 3 （A0A024B7W1） 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 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
5iz7 5iz7 5iz7 5iz7 5iz7

5 assemblies

View Construct and Data Evidence
UniProt name A0A0U4DG08_ZIKV
Isoform —
PDB entities 2
Chains and sequence ranges Author chain D； PDBConstruct 1–75； UniProt 216–290 Author chain E； PDBConstruct 1–75； UniProt 216–290 Author chain F； PDBConstruct 1–75； UniProt 216–290

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_id5iz7
Deposition date deposition_date2016-03-25
Structure title titleCryo-EM structure of thermally stable Zika virus strain H/PF/2013
Keywords keywordsviral protein, flavivirus, glycoprotein, zika virus, VIRUS; VIRUS
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.

5iz7__assembly_1__model_1

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

Download this curve (.dat)

5iz7__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 1010 1011 1012 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5iz7__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)206.60 Å
Total Rg206.70 Å
Atom count796080
Residues104220
Excluded volume14191000 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5iz7__assembly_1__model_1 360-meric （360） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5iz7__assembly_2__model_1 hexameric （6） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 5iz7__assembly_3__model_1 30-meric （30） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 5iz7__assembly_4__model_1 36-meric （36） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 5iz7__assembly_5__model_1 hexameric （6） 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 (3)

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6. Fold Classification (SCOP + CATH) 18 domains

CATH v4.4 (18 domains)

Domain ID domain_id5iz7A01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology98 — Tick-borne Encephalitis virus Glycoprotein; domain 1
Homologous superfamily homologous superfamily10 — Tick-borne Encephalitis virus Glycoprotein, domain 1
Domain ID domain_id5iz7A02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology67 — Viral Envelope Glycoprotein; domain 2
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 2
Domain ID domain_id5iz7A03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology387 — Viral Envelope Glycoprotein; domain 3
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 3
Domain ID domain_id5iz7A04
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily350 —
Domain ID domain_id5iz7A05
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1280 — Monooxygenase
Homologous superfamily homologous superfamily260 —
Domain ID domain_id5iz7B01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology98 — Tick-borne Encephalitis virus Glycoprotein; domain 1
Homologous superfamily homologous superfamily10 — Tick-borne Encephalitis virus Glycoprotein, domain 1
Domain ID domain_id5iz7B02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology67 — Viral Envelope Glycoprotein; domain 2
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 2
Domain ID domain_id5iz7B03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology387 — Viral Envelope Glycoprotein; domain 3
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 3
Domain ID domain_id5iz7B04
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily350 —
Domain ID domain_id5iz7B05
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1280 — Monooxygenase
Homologous superfamily homologous superfamily260 —
Domain ID domain_id5iz7C01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology98 — Tick-borne Encephalitis virus Glycoprotein; domain 1
Homologous superfamily homologous superfamily10 — Tick-borne Encephalitis virus Glycoprotein, domain 1
Domain ID domain_id5iz7C02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology67 — Viral Envelope Glycoprotein; domain 2
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 2
Domain ID domain_id5iz7C03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology387 — Viral Envelope Glycoprotein; domain 3
Homologous superfamily homologous superfamily10 — Viral Envelope Glycoprotein, domain 3
Domain ID domain_id5iz7C04
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily350 —
Domain ID domain_id5iz7C05
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1280 — Monooxygenase
Homologous superfamily homologous superfamily260 —
Domain ID domain_id5iz7D00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily970 — Flavivirus envelope glycoprotein M-like
Domain ID domain_id5iz7E00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily970 — Flavivirus envelope glycoprotein M-like
Domain ID domain_id5iz7F00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily970 — Flavivirus envelope glycoprotein M-like
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7. Citations (1)