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9rmx

CryoEM reconstruction of integrase filament at the lumen of native HIV-1 cores (box size 34.2 nm)

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

Integrase

Human immunodeficiency virus 1

UniProt P12497

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 44 Gag polyprotein × 32 （Q72497） ZINC ION × 12 INOSITOL HEXAKISPHOSPHATE × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1b92 1b9d 1b9f 2gol 2gon 2gon 2gon 2gon 2h3f 2h3i 2h3q 2h3v

39 assemblies; showing the first 12

Homodimer
1a43 1a8o 1aum 1b92 1b9d 1b9f 1baj 1bhl 1bis 1biu 1biu 1itg

67 assemblies; showing the first 12

Homotetramer
4ipy 8a1p 8a1q 8buv 8cbr 8cbs 8cbt 8cbu 8cbv 8t5b 8v9c

11 assemblies

Other homooligomers
1bi4 1bl3 3h47 3h4e 3h4e 3mge 4qnb 8f22 8f22 8vc0 8vc0 8vxv

22 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1afv 1ak4 1ak4 2b4j 2b4j 2xv6 2xv6 2xxm 3av9 3ava 3avb 3avc

73 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name POL_HV1N5
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–288； UniProt 1148–1435 Author chain B； PDBConstruct 1–288； UniProt 1148–1435 Author chain C； PDBConstruct 1–288； UniProt 1148–1435 Author chain D； PDBConstruct 1–288； UniProt 1148–1435 Author chain E； PDBConstruct 1–288； UniProt 1148–1435 Author chain F； PDBConstruct 1–288； UniProt 1148–1435 Author chain G； PDBConstruct 1–288； UniProt 1148–1435 Author chain H； PDBConstruct 1–288； UniProt 1148–1435 Author chain I； PDBConstruct 1–288； UniProt 1148–1435 Author chain J； PDBConstruct 1–288； UniProt 1148–1435 Author chain K； PDBConstruct 1–288； UniProt 1148–1435 Author chain L； PDBConstruct 1–288； UniProt 1148–1435

Gag polyprotein

Human immunodeficiency virus 1

UniProt Q72497

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 44 Integrase × 12 （P12497） ZINC ION × 12 INOSITOL HEXAKISPHOSPHATE × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1l6n 2jmg 2lf4 2nv3

4 assemblies

Homodimer
3dph 3ds2 3ds5 3ds5 3dtj 3dtj

6 assemblies

Homotetramer

None

Other homooligomers
3p05 3p0a 3p0a 3p0a 3p0a 7r7p 7r7q

7 assemblies

Heteromeric or nucleic-acid complex
1m9c 1m9c 1m9d 1m9d 1m9e 1m9e 1m9f 1m9f 1m9x 1m9x 1m9x 1m9x

30 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name Q72497_HV1
Isoform —
PDB entities 2
Chains and sequence ranges Author chain U； PDBConstruct 1–231； UniProt 133–363 Author chain V； PDBConstruct 1–231； UniProt 133–363 Author chain W； PDBConstruct 1–231； UniProt 133–363 Author chain X； PDBConstruct 1–231； UniProt 133–363 Author chain Y； PDBConstruct 1–231； UniProt 133–363 Author chain Z； PDBConstruct 1–231； UniProt 133–363 Author chain a； PDBConstruct 1–231； UniProt 133–363 Author chain b； PDBConstruct 1–231； UniProt 133–363 Author chain c； PDBConstruct 1–231； UniProt 133–363 Author chain d； PDBConstruct 1–231； UniProt 133–363 Author chain e； PDBConstruct 1–231； UniProt 133–363 Author chain f； PDBConstruct 1–231； UniProt 133–363 Author chain g； PDBConstruct 1–231； UniProt 133–363 Author chain h； PDBConstruct 1–231； UniProt 133–363 Author chain i； PDBConstruct 1–231； UniProt 133–363 Author chain j； PDBConstruct 1–231； UniProt 133–363 Author chain k； PDBConstruct 1–231； UniProt 133–363 Author chain l； PDBConstruct 1–231； UniProt 133–363 Author chain m； PDBConstruct 1–231； UniProt 133–363 Author chain n； PDBConstruct 1–231； UniProt 133–363 Author chain o； PDBConstruct 1–231； UniProt 133–363 Author chain p； PDBConstruct 1–231； UniProt 133–363 Author chain q； PDBConstruct 1–231； UniProt 133–363 Author chain r； PDBConstruct 1–231； UniProt 133–363 Author chain s； PDBConstruct 1–231； UniProt 133–363 Author chain t； PDBConstruct 1–231； UniProt 133–363 Author chain u； PDBConstruct 1–231； UniProt 133–363 Author chain v； PDBConstruct 1–231； UniProt 133–363 Author chain w； PDBConstruct 1–231； UniProt 133–363 Author chain x； PDBConstruct 1–231； UniProt 133–363 Author chain y； PDBConstruct 1–231； UniProt 133–363 Author chain z； PDBConstruct 1–231； UniProt 133–363

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_id9rmx
Deposition date deposition_date2025-06-19
Structure title titleCryoEM reconstruction of integrase filament at the lumen of native HIV-1 cores (box size 34.2 nm)
Keywords keywordsintegrase, capsid, HIV-1, RNA, 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.

9rmx__assembly_1__model_1

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

Download this curve (.dat)

9rmx__assembly_1__model_1 | I(q)

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

9rmx__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）81.68 Å
Rg (electron density)81.43 Å
Total Rg81.39 Å
Atom count72751
Residues9257
Excluded volume1295500 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 9rmx__assembly_1__model_1 44-meric （44） 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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7. Citations (1)