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3dnl

Molecular structure for the HIV-1 gp120 trimer in the b12-bound state

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

HIV-1 envelope glycoprotein gp120

HIV-1 M:B_HXB2R

UniProt P04578

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 9 No other associated polymer Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1mzi 2me1 2mg1 2pv6

4 assemblies

Homodimer
2x7r 2x7r 2x7r

3 assemblies

Homotetramer

None

Other homooligomers
1aik 1df4 1df5 1dlb 1k33 1k34 2zzo 3dnl 3dnn 3dno 5ka5 5ka6

19 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1g9m 1gc1 1gzl 1gzl 1rzj 2cmr 2ny7 2ny7 2ny7 2ny7 2ny7 2xra

24 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ENV_HV1H2
Isoform —
PDB entities 1, 2, 3
Chains and sequence ranges Author chain A； PDBConstruct 1–35； UniProt 90–124 Author chain D； PDBConstruct 1–35； UniProt 90–124 Author chain G； PDBConstruct 1–35； UniProt 90–124 Author chain B； PDBConstruct 1–100； UniProt 198–297 Author chain B； PDBConstruct 104–170； UniProt 330–396 Author chain E； PDBConstruct 1–100； UniProt 198–297 Author chain E； PDBConstruct 104–170； UniProt 330–396 Author chain H； PDBConstruct 1–100； UniProt 198–297 Author chain H； PDBConstruct 104–170； UniProt 330–396 Author chain C； PDBConstruct 1–83； UniProt 410–492 Author chain F； PDBConstruct 1–83； UniProt 410–492 Author chain I； PDBConstruct 1–83； UniProt 410–492

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_id3dnl
Deposition date deposition_date2008-07-02
Structure title titleMolecular structure for the HIV-1 gp120 trimer in the b12-bound state
Keywords keywords;HIV-1, ENVELOPE GLYCOPROTEIN, IMMUNODEFICIENCY VIRUS, gp120, AIDS, Apoptosis, Cleavage on pair of basic residues, Coiled coil, Envelope protein, Fusion protein, Host-virus interaction, Lipoprotein, Membrane, Palmitate, Viral immunoevasion, Virion, VIRAL PROTEIN ;; VIRAL PROTEIN
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.

3dnl__assembly_1__model_1

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

Download this curve (.dat)

3dnl__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3dnl__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）47.33 Å
Rg (electron density)46.50 Å
Total Rg46.56 Å
Atom count6738
Residues864
Excluded volume119680 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3dnl__assembly_1__model_1 nonameric （9） 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 (3)

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7. Citations (1)