6T4X: ROR(gamma)t ligand binding domain

ROR(gamma)t ligand binding domain in complex with 25-hydroxycholesterol and allosteric ligand FM26. Determined by X-ray diffraction at 1.48 Å resolution. Released 18 Nov 2020.

Method: X-ray diffraction
Resolution: 1.48 Å
Organism: Homo sapiens
Chains: 1
Atoms: 2,383
Mol. weight: 31.47 kDa
Ligands: HC3, L3E
Released: 18 Nov 2020

Explore 6T4X in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6T4X contains 16 α-helices and 4 β-strands across 1 chain. 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: 16 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	269-284	16
α-helix	289-294	6
α-helix	295-297	3
β-strand	299	1	1
α-helix	302-310	9
α-helix	313-337	25
α-helix	346-364	19
α-helix	365-368	4
β-strand	369-370	2	1
β-strand	375-378	4	1
β-strand	381-383	3	1
α-helix	385-391	7
α-helix	394-408	15
α-helix	414-425	12
α-helix	436-456	21
α-helix	460-465	6
α-helix	467-468	2
α-helix	469-489	21
α-helix	491-494	4
α-helix	499-505	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Nuclear receptor ROR-gamma	A	protein	263	Homo sapiens	P51449 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6T4X_1 Nuclear receptor ROR-gamma (chains A)
GSSHHHHHHSSGLVPRGSHMASLTEIEHLVQSVCKSYRETCQLRLEDLLRQRSNIFSREE
VTGYQRKSMWEMWERCAHHLTEAIQYVVEFAKRLSGFMELCQNDQIVLLKAGAMEVVLVR
MCRAYNADNRTVFFEGKYGGMELFRALGCSELISSIFDFSHSLSALHFSEDEIALYTALV
LINAHRPGLQEKRKVEQLQYNLELAFHHHLHKTHRQSILAKLPPKGKLRSLCSQHVERLQ
IFQHLHPIVVQAAFPPLYKELFS

Ligands and cofactors

ID	Name	Formula	Copies
HC3	25-hydroxycholesterol	C27 H46 O2	1
L3E	4-[(~{E})-[3-[2-chloranyl-6-(trifluoromethyl)phenyl]-5-(1~{H}-pyrrol-3-yl)-1,2-…	C22 H13 Cl F3 N3 O3	1

Water and common crystallization additives (GOL) are not listed.

Primary citation

Cooperativity between the orthosteric and allosteric ligand binding sites of ROR gamma t. de Vries, R.M.J.M., Meijer, F.A., Doveston, R.G. et al. Proc Natl Acad Sci U S A (2021) 118. DOI 10.1073/pnas.2021287118 · PubMed

Other PDB entries of the same protein (UniProt P51449 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7NPC 1.47 Å, ROR(gamma)t ligand binding domain in complex with allosteric ligand FM156
5APH 1.54 Å, Ligand complex of RORg LBD
6R7K 1.54 Å, Ligand complex of RORg LBD
7NP5 1.55 Å, ROR(gamma)t ligand binding domain in complex with allosteric ligand FM216
6W9I 1.61 Å, Substituted benzyloxytricyclic compounds as retinoic acid-related orphan receptor gamma…
6SAL 1.61 Å, ROR(gamma)t ligand binding domain in complex with allosteric ligand FM26
7OFK 1.61 Å, Ligand complex of RORg LBD
6T4T 1.62 Å, ROR(gamma)t ligand binding domain in complex with 20-alpha-hydroxycholesterol and…
7KXD 1.62 Å, Crystal structure of rar-related orphan receptor C (nhis-RORGT(244-487)-L6-SRC1(678-692))…
9N9L 1.64 Å, An RORgt Inverse agonist for treatment of Psoriasis
5NTW 1.64 Å, Structural states of RORgt: X-ray elucidation of molecular mechanisms and binding…
6G07 1.66 Å, Rorgt (264-518;C455S) in complex with inverse agonist "cpd-9" and RIP140 peptide at 1.66A

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