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Human thyrotropin analog TR1402 bound to human thyrotropin receptor in complex with MINIGS399 (composite structure)

Analyse Human thyrotropin analog TR1402 bound to human thyrotropin receptor in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7UTZ
Type: protein
Length: 1,536 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycoprotein hormones alpha chain analog TR1402; Thyrotropin subunit beta; Nanobody 35…
UniProt: P01215, P01222, A0A0A0MTJ0, P63092, P62873, P59768
Ligands: Z41, NAG
Pockets: 12 · best druggability 0.83

Structure

electron microscopy · 7 distinct chains · 29% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycoprotein hormones alpha chain analog TR1402	protein	86	8% helix, 55% strand	P01215
B	Thyrotropin subunit beta	protein	109	4% helix, 49% strand	P01222
N	Nanobody 35	protein	126	7% helix, 43% strand	—
R	Thyrotropin receptor	protein	600	43% helix, 14% strand	A0A0A0MTJ0
X	Guanine nucleotide-binding protein G(S) subunit alpha isoforms short	protein	221	47% helix, 17% strand	P63092
Y	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	protein	338	7% helix, 44% strand	P62873
Z	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein	56	66% helix, 0% strand	P59768

Ligands and binding sites

Z41 · (2S)-3-hydroxypropane-1,2-diyl dihexadecanoate · ligand · chains R
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 7 copies · chains A, B, R

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

12 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	467	0.83	0.89	50	Z41
2	700	0.82	0.86	53	empty
3	784	0.77	0.81	64	empty
4	846	0.77	0.80	103	empty
5	844	0.76	0.79	72	empty

Interfaces

10 interfaces between chains.

A–B · 2300 Å² buried · 42 hydrogen bonds · protein-protein
Y–Z · 2174 Å² buried · 15 hydrogen bonds · protein-protein
X–Y · 1522 Å² buried · 30 hydrogen bonds · protein-protein
B–R · 1288 Å² buried · 7 hydrogen bonds · protein-protein
A–R · 1283 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 17 disulfide, 7 glycan (disulfide, N-glycosylation).

Compared structures

7UTZ · Human thyrotropin analog TR1402 bound to human Thyrotropin receptor in complex with… · the same entry in another collection · chain Z against Z, TM-score 1.00
P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain Y against A, TM-score 0.99
P01215 · AlphaFold monomer V2.0 prediction for glycoprotein hormones alpha chain (P01215) · a predicted model of the same protein · chain A against A, TM-score 0.96
P01222 · AlphaFold monomer V2.0 prediction for thyrotropin subunit beta (P01222) · a predicted model of the same protein · chain B against A, TM-score 0.92
P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain Z against A, TM-score 0.92

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P01215
Every structure of UniProt P01222
Every structure of UniProt A0A0A0MTJ0
Every structure of UniProt P63092
Every structure of UniProt P62873
Every structure of UniProt P59768
Elsewhere: RCSB PDB 7UTZ · PDBe 7UTZ · UniProt P01215 · UniProt P01222 · UniProt A0A0A0MTJ0 · UniProt P63092 · UniProt P62873 · UniProt P59768

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