7JYD: Human Liver Receptor Homolog-1

Human Liver Receptor Homolog-1 in Complex with 10CA and a Fragment of Tif2. Determined by X-ray diffraction at 2.3 Å resolution. Released 2 Mar 2022.

Method: X-ray diffraction
Resolution: 2.3 Å
Organism: Homo sapiens
Chains: 2
Atoms: 2,109
Mol. weight: 30.35 kDa
Ligands: VQA
Released: 2 Mar 2022

Explore 7JYD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7JYD contains 13 α-helices and 2 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 12 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	303-309	7
α-helix	315-331	17
α-helix	338-340	3
α-helix	341-360	20
α-helix	364-368	5
α-helix	371-397	27
β-strand	402-404	3	1
β-strand	410-412	3	1
α-helix	413-417	5
α-helix	422-440	19
α-helix	445-456	12
α-helix	467-488	22
α-helix	495-522	28
α-helix	530-536	7

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	743-750	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Nuclear receptor subfamily 5 group A member 2	A	protein	246	Homo sapiens	O00482 (AlphaFold model)
Nuclear receptor coactivator 2	C	protein	12	Homo sapiens	Q15596 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>7JYD_1 Nuclear receptor subfamily 5 group A member 2 (chains A)
SNAASIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFS
IVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSI
IASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQE
QVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYYKHLNGDVPYNNLLIEM
LHAKRA

Sequence of entity 2 (C), FASTA

>7JYD_2 Nuclear receptor coactivator 2 (chains C)
KENALLRYLLDK

Ligands and cofactors

ID	Name	Formula	Copies
VQA	10-[(3aR,6R,6aR)-6-hydroxy-3-phenyl-3a-(1-phenylethenyl)-1,3a,4,5,6,6a-hexahydr…	C32 H40 O3	1

Primary citation

Tapping into a phospholipid-LRH-1 axis yields a powerful anti-inflammatory agent with in vivo activity against colitis. D'Agostino, E.H., Mays, S.G., Flynn, A.F. et al. To be published.

Other PDB entries of the same protein (UniProt O00482 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6VC2 1.7 Å, LRH-1 bound to SS-RJW100 and a fragment of the Tif2 Coactivator
3PLZ 1.75 Å, Human LRH1 LBD bound to GR470
4PLD 1.75 Å, Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, in its apo State Bound to a…
4PLE 1.75 Å, Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, Bound to an E. Coli…
4ONI 1.8 Å, Structure of Human Orphan Receptor LRH1 bound to two bacterial phospholipids
5L11 1.85 Å, Human Liver Receptor Homologue-1 (LRH-1) Bound to RJW100 and a Fragment of TIF-2
4RWV 1.86 Å, Crystal structure of PIP3 bound human nuclear receptor LRH-1 (Liver Receptor Homolog 1,…
1YUC 1.9 Å, Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, Bound to Phospholipid and a…
4DOR 1.9 Å, Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, in its apo State Bound to a…
5SYZ 1.93 Å, Human Liver Receptor Homologue-1 (LRH-1) Bound to a RJW100 stereoisomer and a Fragment…
5UNJ 1.96 Å, Structure of Human Liver Receptor Homolog 1 in complex with PGC1a and RJW100
4DOS 2.0 Å, Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, Bound to DLPC and a Fragment…

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