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1h2d

Ebola virus matrix protein VP40 N-terminal domain in complex with RNA (Low-resolution VP40[31-212] variant).

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

MATRIX PROTEIN VP40

EBOLA VIRUS

UniProt Q05128

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Homooligomer Protein 8 RNA 8 5'-R(*UP*GP*AP)-3' × 8 CHLORIDE ION × 8 water × 16 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
4ldb 4ldb 4ldi 7jzj 7jzj 7jzt 7jzt

7 assemblies

Homotetramer

None

Other homooligomers
4ldd 4ldm

2 assemblies

Heteromeric or nucleic-acid complex
1h2c 1h2d 2kq0 4eje 4eje 7k5d 7k5l

7 assemblies

View Construct and Data Evidence
UniProt name VP40_EBOZM
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–182； UniProt 31–212 Author chain B； PDBConstruct 1–182； UniProt 31–212

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_id1h2d
Deposition date deposition_date2002-08-06
Structure title titleEbola virus matrix protein VP40 N-terminal domain in complex with RNA (Low-resolution VP40[31-212] variant).
Keywords keywordsVIRUS/VIRAL PROTEIN, FILOVIRUS, EBOLA VIRUS, MATRIX PROTEIN VP40, ASSEMBLY, BUDDING, VIRUS-VIRAL PROTEIN complex; VIRUS/VIRAL 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.

1h2d__assembly_1__model_1

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

Download this curve (.dat)

1h2d__assembly_1__model_1 | I(q)

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

1h2d__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）31.75 Å
Rg (electron density)31.64 Å
Total Rg32.51 Å
Atom count8160
Residues1012
Excluded volume147090 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1h2d__assembly_1__model_1 hexadecameric （16） 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 (4)

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6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1h2da_
Class classb — All beta proteins
Fold Fold foldb.31 — EV matrix protein
Superfamily Superfamily superfamilyb.31.1 — EV matrix protein
Family Family familyb.31.1.1 — EV matrix protein
Domain ID domain_idd1h2db_
Class classb — All beta proteins
Fold Fold foldb.31 — EV matrix protein
Superfamily Superfamily superfamilyb.31.1 — EV matrix protein
Family Family familyb.31.1.1 — EV matrix protein

CATH v4.4 (2 domains)

Domain ID domain_id1h2dA00
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology20 — Topoisomerase I; domain 3
Homologous superfamily homologous superfamily20 — Matrix protein VP40, N-terminal domain
Domain ID domain_id1h2dB00
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology20 — Topoisomerase I; domain 3
Homologous superfamily homologous superfamily20 — Matrix protein VP40, N-terminal domain
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7. Citations (2)