8TZQ: D2 dopamine receptor

CryoEM structure of D2 dopamine receptor in complex with GoA KE Mutant, scFv16, and dopamine. Determined by electron microscopy at 3.2 Å resolution. Released 21 Aug 2024.

Method: Electron microscopy
Resolution: 3.2 Å
Organisms: Escherichia coli, Homo sapiens
Chains: 5
Atoms: 8,618
Mol. weight: 166.89 kDa
Ligands: LDP
Released: 21 Aug 2024

Explore 8TZQ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8TZQ contains 34 α-helices and 60 β-strands across 5 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: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	3-25	23
α-helix	30-33	4
α-helix	34-36	3
β-strand	47-51	5	6
β-strand	58-63	6	7
β-strand	69-74	6	7
β-strand	78-83	6	7
β-strand	89-94	6	7
β-strand	100-105	6	8
β-strand	111-116	6	8
β-strand	120-125	6	8
β-strand	134-140	7	8
β-strand	146-151	6	9
β-strand	156-161	6	9
β-strand	165-170	6	9
β-strand	175-181	7	9
β-strand	187-192	6	10
β-strand	198-203	6	10
β-strand	207-212	6	10
β-strand	217-223	7	10
β-strand	229-234	6	11
β-strand	240-245	6	11
β-strand	249-254	6	11
β-strand	259-265	7	11
β-strand	273-278	6	12
β-strand	284-289	6	12
β-strand	294-298	5	12
β-strand	304-308	5	12
β-strand	315-320	6	6
β-strand	327-331	5	6
β-strand	336-339	4	6

Chain B: 9 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	34-40	7	14
α-helix	46-53	8
β-strand	186-192	7	14
β-strand	195-201	7	14
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-227	7	14
α-helix	228-231	4
α-helix	247-255	9
β-strand	264-270	7	14
α-helix	272-278	7
α-helix	297-309	13
β-strand	319-323	5	14
α-helix	332-351	20

Chain C: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	7-23	17
α-helix	30-43	14
α-helix	45-47	3
α-helix	53-55	3

Chain E: 4 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	1
β-strand	10-11	2	2
β-strand	17-25	9	1
α-helix	29-31	3
β-strand	33-40	8	2
β-strand	44-51	8	2
β-strand	58-60	3	2
β-strand	68-73	6	1
β-strand	78-84	7	1
α-helix	88-90	3
β-strand	92-99	8	2
β-strand	111	1	2
β-strand	115-118	4	2
β-strand	140-142	3	3
β-strand	146-148	3	4
β-strand	155-161	7	3
β-strand	166	1	5
β-strand	172	1	5
β-strand	174-179	6	4
β-strand	186-190	5	4
β-strand	194-195	2	4
β-strand	203-208	6	3
β-strand	211-216	6	3
α-helix	221-223	3
β-strand	225-231	7	4
α-helix	237	1
β-strand	239	1	4
β-strand	243-246	4	4

Chain R: 14 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	38-41	4
α-helix	42-60	19
α-helix	68-86	19
α-helix	88-96	9
α-helix	104-137	34
α-helix	139-142	4
α-helix	147-167	21
α-helix	168-171	4
β-strand	178	1	13
β-strand	181	1	13
α-helix	187-194	8
α-helix	195-199	5
α-helix	200-223	24
α-helix	363-398	36
α-helix	405-427	23
α-helix	431-440	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
scFv16	E	protein	267	Escherichia coli
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	A	protein	358	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C	protein	71	Homo sapiens	P59768 (AlphaFold model)
D(2) dopamine receptor	R	protein	443	Homo sapiens	P14416 (AlphaFold model)
Guanine nucleotide-binding protein G(o) subunit alpha	B	protein	354	Homo sapiens	P09471 (AlphaFold model)

Sequence of entity 1 (E), FASTA

>8TZQ_1 scFv16 (chains E)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKAAALEVLFQGPHHHHHHHH

Sequence of entity 2 (A), FASTA

>8TZQ_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains A)
MHHHHHHLEVLFQGPGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGR
IQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMT
CAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSG
DTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTF
TGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSG
RLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (C), FASTA

>8TZQ_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains C)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (R), FASTA

>8TZQ_4 D(2) dopamine receptor (chains R)
MDPLNLSWYDDDLERQNWSRPFNGSDGKADRPHYNYYATLLTLLIAVIVFGNVLVCMAVS
REKALQTTTNYLIVSLAVADLLVATLVMPWVVYLEVVGEWKFSRIHCDIFVTLDVMMCTA
SILNLCAISIDRYTAVAMPMLYNTRYSSKRRVTVMISIVWVLSFTISCPLLFGLNNADQN
ECIIANPAFVVYSSIVSFYVPFIVTLLVYIKIYIVLRRRRKRVNTKRSSRAFRAHLRAPL
KGNCTHPEDMKLCTVIMKSNGSFPVNRRRVEAARRAQELEMEMLSSTSPPERTRYSPIPP
SHHQLTLPDPSHHGLHSTPDSPAKPEKNGHAKDHPKIAKIFEIQTMPNGKTRTSLKTMSR
RKLSQQKEKKATQMLAIVLGVFIICWLPFFITHILNIHCDCNIPPVLYSAFTWLGYVNSA
VNPIIYTTFNIEFRKAFLKILHC

Sequence of entity 5 (B), FASTA

>8TZQ_5 Guanine nucleotide-binding protein G(o) subunit alpha (chains B)
MGCTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGAGESGESTIVKQMKIIHEDG
FSGEDVKQYKPVVYSNTIQSLAAIVRAMDTLGIEYGDKERKADAKMVCDVVSRMEDTEPF
SAELLSAMMRLWGDSGIQECFNRSREYQLNDSAKYYLDSLDRIGAADYQPTEQDILRTRV
KTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIFCVALSGYDQVLHEDET
TNRMHESLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPNTYEDA
AAYIQAQFESKNRSPNKEIYCHMTCATDTNNIQVVFDAVTDIIIANNLRGCGLY

Ligands and cofactors

ID	Name	Formula	Copies
LDP	L-dopamine	C8 H11 N O2	1

Primary citation

A neurodevelopmental disorder mutation locks G proteins in the transitory pre-activated state. Knight, K.M., Krumm, B.E., Kapolka, N.J. et al. Nat Commun (2024) 15:6643-6643. DOI 10.1038/s41467-024-50964-z · PubMed

Other PDB entries of the same protein (UniProt P62873 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8QEH 1.43 Å, Crystal structure of the G11 protein heterotrimer bound to FR900359 inhibitor
8QEG 1.7 Å, Crystal structure of the G11 protein heterotrimer bound to YM-254890 inhibitor
8F0K 1.9 Å, Human Amylin3 Receptor in complex with Gs and Pramlintide analogue peptide San385
9YDQ 1.94 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE and allosteric…
9YDP 1.95 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE
6CRK 2.0 Å, Heterotrimeric G-protein in complex with an antibody fragment
8F0J 2.0 Å, Calcitonin Receptor in complex with Gs and Pramlintide analogue peptide San45
8F2B 2.0 Å, Amylin 3 Receptor in complex with Gs and Pramlintide analogue peptide San45
9XXT 2.0 Å, Cryo-EM structure of lysophosphatidylserine (18:0)-bound GPR174-Gs complex
6X18 2.1 Å, GLP-1 peptide hormone bound to Glucagon-Like peptide-1 (GLP-1) Receptor
6X19 2.1 Å, Non peptide agonist CHU-128, bound to Glucagon-Like peptide-1 (GLP-1) Receptor
9NTU 2.1 Å, Cryo-EM structure of BETP-GLP-1(9-36)-GLP-1R-Gs complex

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