← Back to search
4nqa

Crystal structure of liganded hRXR-alpha/hLXR-beta heterodimer on DNA

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

Retinoic acid receptor RXR-alpha

Homo sapiens

UniProt P19793

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 Liver X nuclear receptor beta × 1 （F1D8P7） Nuclear receptor coactivator 2 × 2 （Q15596） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 4 DNA 2 Liver X nuclear receptor beta × 1 （F1D8P7） Nuclear receptor coactivator 2 × 2 （Q15596） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1rxr

1 assemblies

Homodimer
1fby 5tbp 5tbp 6hn6

4 assemblies

Homotetramer
1g1u 1g5y 4n5g 4n8r 5tbp 5zqu 6jno 7cfo

8 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
1by4 1by4 1dsz 1fm6 1fm6 1fm9 1k74 1mv9 1mvc 1mzn 1mzn 1r0n

126 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RXRA_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–365； UniProt 98–462 Author chain H； PDBConstruct 1–365； UniProt 98–462

Liver X nuclear receptor beta

Homo sapiens

UniProt F1D8P7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 Retinoic acid receptor RXR-alpha × 1 （P19793） Nuclear receptor coactivator 2 × 2 （Q15596） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 4 DNA 2 Retinoic acid receptor RXR-alpha × 1 （P19793） Nuclear receptor coactivator 2 × 2 （Q15596） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
4nqa 4nqa

2 assemblies

View Construct and Data Evidence
UniProt name F1D8P7_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 2–391； UniProt 72–461 Author chain I； PDBConstruct 2–391； UniProt 72–461

Nuclear receptor coactivator 2

Homo sapiens

UniProt Q15596

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 Retinoic acid receptor RXR-alpha × 1 （P19793） Liver X nuclear receptor beta × 1 （F1D8P7） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 4 DNA 2 Retinoic acid receptor RXR-alpha × 1 （P19793） Liver X nuclear receptor beta × 1 （F1D8P7） 5'-D(*TP*AP*AP*GP*GP*TP*CP*AP*CP*TP*TP*CP*AP*GP*GP*TP*CP*A)-3' × 1 5'-D(*TP*AP*TP*GP*AP*CP*CP*TP*GP*AP*AP*GP*TP*GP*AP*CP*CP*T)-3' × 1 (9cis)-retinoic acid × 1 ZINC ION × 4 [3-(3-{[2-chloro-3-(trifluoromethyl)benzyl](2,2-diphenylethyl)amino}propoxy)phenyl]acetic acid × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
4wg0

1 assemblies

Heteromeric or nucleic-acid complex
1gwq 1gwr 1gwr 1m2z 1mv9 1mvc 1mzn 1mzn 1p93 1p93 1p93 1p93

334 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name NCOA2_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–13； UniProt 686–698 Author chain D； PDBConstruct 1–13； UniProt 686–698 Author chain J； PDBConstruct 1–13； UniProt 686–698 Author chain K； PDBConstruct 1–13； UniProt 686–698

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id4nqa
Deposition date deposition_date2013-11-24
Structure title titleCrystal structure of liganded hRXR-alpha/hLXR-beta heterodimer on DNA
Keywords keywordsmulti-domain, RXR, LXR, DBD, LBD, ligand, zinc finger, TRANSCRIPTION REGULATOR-DNA complex; TRANSCRIPTION REGULATOR/DNA
Experimental Method methodX-RAY DIFFRACTION
▼

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.

4nqa__assembly_1__model_1

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

Download this curve (.dat)

4nqa__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.

4nqa__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）33.47 Å
Rg (electron density)32.36 Å
Total Rg32.91 Å
Atom count6436
Residues744
Excluded volume112420 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4nqa__assembly_1__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4nqa__assembly_2__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (8)

▼

6. Fold Classification (SCOP + CATH) 8 domains

CATH v4.4 (8 domains)

Domain ID domain_id4nqaA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology50 — Erythroid Transcription Factor GATA-1; Chain A
Homologous superfamily homologous superfamily10 — Erythroid Transcription Factor GATA-1, subunit A
Domain ID domain_id4nqaA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology565 — Retinoid X Receptor
Homologous superfamily homologous superfamily10 — Retinoid X Receptor
Domain ID domain_id4nqaB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology50 — Erythroid Transcription Factor GATA-1; Chain A
Homologous superfamily homologous superfamily10 — Erythroid Transcription Factor GATA-1, subunit A
Domain ID domain_id4nqaB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology565 — Retinoid X Receptor
Homologous superfamily homologous superfamily10 — Retinoid X Receptor
Domain ID domain_id4nqaH01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology50 — Erythroid Transcription Factor GATA-1; Chain A
Homologous superfamily homologous superfamily10 — Erythroid Transcription Factor GATA-1, subunit A
Domain ID domain_id4nqaH02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology565 — Retinoid X Receptor
Homologous superfamily homologous superfamily10 — Retinoid X Receptor
Domain ID domain_id4nqaI01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology50 — Erythroid Transcription Factor GATA-1; Chain A
Homologous superfamily homologous superfamily10 — Erythroid Transcription Factor GATA-1, subunit A
Domain ID domain_id4nqaI02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology565 — Retinoid X Receptor
Homologous superfamily homologous superfamily10 — Retinoid X Receptor
▶

7. Citations (1)