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7xd9

Crystal Structure of Dengue Virus serotype 2 (DENV2) Polymerase Elongation Complex (CTP Form)

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

NS5

Dengue virus 2

UniProt Q91H74

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 GLYCEROL × 2 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 3 Consistent with all polymers
2 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 GLYCEROL × 6 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 3 Consistent with all polymers
3 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 GLYCEROL × 1 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 3 Consistent with all polymers
4 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 GLYCEROL × 2 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 3 Consistent with all polymers
5 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 GLYCEROL × 1 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 3 Consistent with all polymers
6 Protein–RNA Monomer Protein 1 RNA 2 RNA (30-mer) × 1 RNA (9-mer) × 1 MAGNESIUM ION × 2 ZINC ION × 2 CYTIDINE-5'-TRIPHOSPHATE × 1 water × 2 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2bhr 2bhr 2bmf 2bmf 4m9f 4m9i 4m9k 4m9m 4m9t 6kr2 6kr2 6kr3

74 assemblies; showing the first 12

Homodimer
2fom

1 assemblies

Homotetramer
2fom

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
6mo0 6mo0 6mo1 6mo1 6mo2 6mo2 7xd8 7xd8 7xd8 7xd8 7xd8 7xd8

20 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name Q91H74_9FLAV
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–637； UniProt 2755–3391 Author chain D； PDBConstruct 1–637； UniProt 2755–3391 Author chain G； PDBConstruct 1–637； UniProt 2755–3391 Author chain J； PDBConstruct 1–637； UniProt 2755–3391 Author chain M； PDBConstruct 1–637； UniProt 2755–3391 Author chain P； PDBConstruct 1–637； UniProt 2755–3391

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_id7xd9
Deposition date deposition_date2022-03-26
Structure title titleCrystal Structure of Dengue Virus serotype 2 (DENV2) Polymerase Elongation Complex (CTP Form)
Keywords keywordsRNA-dependent RNA polymerase, de novo synthesis, elongation complex, priming element, TRANSFERASE, TRANSFERASE-RNA complex; TRANSFERASE/RNA
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.

7xd9__assembly_1__model_1

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

Download this curve (.dat)

7xd9__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.

7xd9__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）25.89 Å
Rg (electron density)25.52 Å
Total Rg26.16 Å
Atom count5404
Residues642
Excluded volume93707 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 7xd9__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 7xd9__assembly_2__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 7xd9__assembly_3__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 7xd9__assembly_4__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 7xd9__assembly_5__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 7xd9__assembly_6__model_1 trimeric （3） 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 (8)

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7. Citations (1)