7EB2: Human GABA(B) receptor-Gi protein complex

Cryo-EM structure of human GABA(B) receptor-Gi protein complex. Determined by electron microscopy at 3.5 Å resolution. Released 5 May 2021.

Method: Electron microscopy
Resolution: 3.5 Å
Organisms: Homo sapiens, synthetic construct
Chains: 6
Atoms: 18,497
Mol. weight: 314.39 kDa
Ligands: FN0, 2C0
Released: 5 May 2021

Explore 7EB2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7EB2 contains 90 α-helices and 103 β-strands across 6 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: 19 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	34-39	6	1
α-helix	46-56	11
α-helix	63-87	25
α-helix	102-115	14
α-helix	121-132	12
α-helix	134-138	5
α-helix	140-143	4
α-helix	152-157	6
α-helix	159-162	4
α-helix	172-178	7
β-strand	185-191	7	1
β-strand	194-200	7	1
α-helix	212-215	4
β-strand	220-226	7	1
α-helix	227-229	3
α-helix	232	1
β-strand	233	1	2
α-helix	234	1
β-strand	241	1	2
α-helix	242-254	13
β-strand	263-269	7	1
α-helix	271-278	8
α-helix	283-285	3
α-helix	296-308	13
β-strand	319-323	5	1
α-helix	330-351	22

Chain B: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	3-23	21
α-helix	30-32	3
α-helix	38-39	2
β-strand	47-51	5	3
β-strand	58-63	6	4
β-strand	69-74	6	4
β-strand	78-83	6	4
β-strand	88-94	7	4
β-strand	100-105	6	5
β-strand	111-116	6	5
β-strand	121-125	5	5
β-strand	134-139	6	5
β-strand	149-153	5	6
β-strand	156-159	4	6
β-strand	166-170	5	6
β-strand	175-180	6	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	207-212	6	7
β-strand	218-223	6	7
β-strand	229-234	6	8
β-strand	240-245	6	8
β-strand	250-254	5	8
β-strand	259-264	6	8
α-helix	271-272	2
β-strand	273-278	6	9
β-strand	284-289	6	9
β-strand	294-298	5	9
β-strand	304-308	5	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	336-339	4	3

Chain C: 31 helices, 21 β-strands

Element	Residues	Length	Sheet
α-helix	167	1
β-strand	168-175	8	15
α-helix	185-201	17
β-strand	209-216	8	15
α-helix	222-233	12
α-helix	238	1
β-strand	239-243	5	15
α-helix	247-256	10
β-strand	263-266	4	15
α-helix	272-275	4
β-strand	283-285	3	15
α-helix	288-289	2
α-helix	290-292	3
α-helix	293-304	12
β-strand	308-314	7	16
α-helix	317-330	14
β-strand	336-343	8	16
α-helix	348-356	9
β-strand	361-365	5	16
α-helix	368-381	14
β-strand	389-393	5	16
α-helix	412-418	7
β-strand	423-427	5	16
α-helix	443-453	11
α-helix	458-460	3
α-helix	464-466	3
α-helix	467-484	18
α-helix	504-514	11
β-strand	517-520	4	17
β-strand	523-526	4	17
β-strand	536-542	7	16
β-strand	547-554	8	16
β-strand	559-560	2	16
α-helix	578-579	2
β-strand	580-581	2	18
α-helix	583	1
β-strand	584	1	19
α-helix	585	1
α-helix	589-615	27
α-helix	621-623	3
α-helix	627-642	16
α-helix	645-648	4
α-helix	659-690	32
α-helix	707-731	25
β-strand	735-740	6	19
β-strand	744	1	18
β-strand	753-754	2	18
β-strand	757-762	6	19
α-helix	769-790	22
α-helix	802-825	24
α-helix	826-828	3
α-helix	830-859	30

Chain D: 27 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	56-62	7	20
α-helix	71-91	21
β-strand	99-105	7	20
α-helix	110-122	13
β-strand	129-132	4	20
α-helix	136-145	10
α-helix	146-149	4
β-strand	152-155	4	20
α-helix	161-164	4
β-strand	172-174	3	20
α-helix	183-193	11
β-strand	197-203	7	21
α-helix	206-218	13
β-strand	220	1	22
β-strand	222	1	22
β-strand	225-232	8	21
α-helix	237-244	8
β-strand	250-254	5	21
α-helix	257-269	13
β-strand	278-280	3	21
β-strand	282	1	23
α-helix	286	1
α-helix	304-310	7
β-strand	315-319	5	23
α-helix	335-345	11
α-helix	350-352	3
α-helix	355-374	20
α-helix	393-403	11
β-strand	407-410	4	24
β-strand	413-416	4	24
β-strand	417-418	2	25
β-strand	421-422	2	25
β-strand	425-432	8	23
β-strand	435-443	9	23
β-strand	448-450	3	23
α-helix	463-465	3
β-strand	470-474	5	26
α-helix	476-478	3
α-helix	479-505	27
α-helix	510-514	5
α-helix	517-532	16
α-helix	535-538	4
α-helix	548-583	36
α-helix	595-618	24
β-strand	624-627	4	26
β-strand	640-647	8	26
α-helix	653-677	25
α-helix	679-681	3
α-helix	689-712	24
α-helix	717-746	30

Chain N: 6 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	10-12	3	11
β-strand	18-25	8	10
α-helix	29-31	3
β-strand	33-40	8	11
β-strand	44-51	8	11
β-strand	58-60	3	11
β-strand	68-73	6	10
α-helix	74-76	3
β-strand	78-83	6	10
α-helix	88-90	3
β-strand	92-99	8	11
β-strand	111	1	11
β-strand	115-119	5	11
β-strand	140-142	3	12
β-strand	155-161	7	12
β-strand	166	1	13
β-strand	172	1	13
β-strand	174-179	6	14
β-strand	186-190	5	14
β-strand	194-195	2	14
α-helix	196	1
β-strand	203-208	6	12
β-strand	211-216	6	12
α-helix	221-223	3
β-strand	226-231	6	14
α-helix	237	1
β-strand	239	1	14
β-strand	243-244	2	14

Chain Y: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	7-22	16
α-helix	30-43	14
α-helix	45-47	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(i) subunit alpha-1	A	protein	354	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	358	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	Y	protein	71	Homo sapiens	P59768 (AlphaFold model)
ScFv16	N	protein	269	synthetic construct
Gamma-aminobutyric acid type B receptor subunit 1	C	protein	937	Homo sapiens	Q9UBS5 (AlphaFold model)
Gamma-aminobutyric acid type B receptor subunit 2	D	protein	808	Homo sapiens	O75899

Sequence of entity 1 (A), FASTA

>7EB2_1 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains A)
MGCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKNTIVKQMKIIHEAG
YSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMT
AELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVK
TTGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEM
NRMHASMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAA
AYIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 2 (B), FASTA

>7EB2_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHLEVLFQGPGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGR
IQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMT
CAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSG
DTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTF
TGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSG
RLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (Y), FASTA

>7EB2_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains Y)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (N), FASTA

>7EB2_4 ScFv16 (chains N)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKGSLEVLFQGPAAAHHHHHHHH

Sequence of entity 5 (C), FASTA

>7EB2_5 Gamma-aminobutyric acid type B receptor subunit 1 (chains C)
MKTIIALSYIFCLVFAPGAGGAQTPNATSEGCQIIHPPWEGGIRYRGLTRDQVKAINFLP
VDYEIEYVCRGEREVVGPKVRKCLANGSWTDMDTPSRCVRICSKSYLTLENGKVFLTGGD
LPALDGARVDFRCDPDFHLVGSSRSICSQGQWSTPKPHCQVNRTPHSERRAVYIGALFPM
SGGWPGGQACQPAVEMALEDVNSRRDILPDYELKLIHHDSKCDPGQATKYLYELLYNDPI
KIILMPGCSSVSTLVAEAARMWNLIVLSYGSSSPALSNRQRFPTFFRTHPSATLHNPTRV
KLFEKWGWKKIATIQQTTEVFTSTLDDLEERVKEAGIEITFRQSFFSDPAVPVKNLKRQD
ARIIVGLFYETEARKVFCEVYKERLFGKKYVWFLIGWYADNWFKIYDPSINCTVDEMTEA
VEGHITTEIVMLNPANTRSISNMTSQEFVEKLTKRLKRHPEETGGFQEAPLAYDAIWALA
LALNKTSGGGGRSGVRLEDFNYNNQTITDQIYRAMNSSSFEGVSGHVVFDASGSRMAWTL
IEQLQGGSYKKIGYYDSTKDDLSWSKTDKWIGGSPPADQTLVIKTFRFLSQKLFISVSVL
SSLGIVLAVVCLSFNIYNSHVRYIQNSQPNLNNLTAVGCSLALAAVFPLGLDGYHIGRNQ
FPFVCQARLWLLGLGFSLGYGSMFTKIWWVHTVFTKKEEKKEWRKTLEPWKLYATVGLLV
GMDVLTLAIWQIVDPLHRTIETFAKEEPKEDIDVSILPQLEHCSSRKMNTWLGIFYGYKG
LLLLLGIFLAYETKSVSTEKINDHRAVGMAIYNVAVLCLITAPVTMILSSQQDAAFAFAS
LAIVFSSYITLVVLFVPKMRRLITRGEWQSEAQDTMKTGSSTNNNEEEKSRLLEKENREL
EKIIAEKEERVSELRHQLQSRLEVLFQGPHHHHHHHH

Sequence of entity 6 (D), FASTA

>7EB2_6 Gamma-aminobutyric acid type B receptor subunit 2 (chains D)
MKTIIALSYIFCLVFADYKDDDDKGSGGSGWARGAPRPPPSSPPLSIMGLMPLTKEVAKG
SIGRGVLPAVELAIEQIRNESLLRPYFLDLRLYDTECDNAKGLKAFYDAIKYGPNHLMVF
GGVCPSVTSIIAESLQGWNLVQLSFAATTPVLADKKKYPYFFRTVPSDNAVNPAILKLLK
HYQWKRVGTLTQDVQRFSEVRNDLTGVLYGEDIEISDTESFSNDPCTSVKKLKGNDVRII
LGQFDQNMAAKVFCCAYEENMYGSKYQWIIPGWYEPSWWEQVHTEANSSRCLRKNLLAAM
EGYIGVDFEPLSSKQIKTISGKTPQQYEREYNNKRSGVGPSKFHGYAYDGIWVIAKTLQR
AMETLHASSRHQRIQDFNYTDHTLGRIILNAMNETNFFGVTGQVVFRNGERMGTIKFTQF
QDSREVKVGEYNAVADTLEIINDTIRFQGSEPPKDKTIILEQLRKISLPLYSILSALTIL
GMIMASAFLFFNIKNRNQKLIKMSSPYMNNLIILGGMLSYASIFLFGLDGSFVSEKTFET
LCTVRTWILTVGYTTAFGAMFAKTWRVHAIFKNVKMKKKIIKDQKLLVIVGGMLLIDLCI
LICWQAVDPLRRTVEKYSMEPDPAGRDISIRPLLEHCENTHMTIWLGIVYAYKGLLMLFG
CFLAWETRNVSIPALNDSKYIGMSVYNVGIMCIIGAAVSFLTRDQPNVQFCIVALVIIFC
STITLCLVFVPKLITLRTNPDAATQNRRFQFTQNQKKEDSKTSTSVTSVNQASTSRLEGL
QSENHRLRMKITELDKDLEEVTMQLQDT

Ligands and cofactors

ID	Name	Formula	Copies
FN0	(3S)-5,7-ditert-butyl-3-oxidanyl-3-(trifluoromethyl)-1-benzofuran-2-one	C17 H21 F3 O3	1
2C0	baclofen	C10 H12 Cl N O2	1

Primary citation

Structural basis of GABA B receptor-G i protein coupling. Shen, C., Mao, C., Xu, C. et al. Nature (2021) 594:594-598. DOI 10.1038/s41586-021-03507-1 · PubMed

Other PDB entries of the same protein (UniProt P63096 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6CRK 2.0 Å, Heterotrimeric G-protein in complex with an antibody fragment
3UMR 2.04 Å, Crystal structure of the G202D mutant of human G-alpha-i1
9P7Z 2.1 Å, NTSR1-Gi-NTS(8-13) Complex in the Canonical, AHD Open State (C-Open-Apo)
2OM2 2.2 Å, Crystal Structure Of Human G[alpha]i1 Bound To The Goloco Motif Of Rgs14
8YN9 2.3 Å, Cryo-EM structure of histamine H4 receptor in complex with histamine and Gi
9HYI 2.3 Å, DP81-bound serotonin 5-HT1A receptor - Gi Protein Complex
9O36 2.3 Å, CryoEM structure of mu-opioid receptor - Gi protein complex bound to fluornitrazene (FNZ)
9P80 2.3 Å, NTSR1-Gi-NTS(8-13) Complex in the Non-Canonical, AHD Open State (NC-Open-Apo)
8XXV 2.33 Å, Cryo-EM Structure of the Prostaglandin D2 Receptor 2-indomethacin Coupled to G Protein
3UMS 2.34 Å, Crystal structure of the G202A mutant of human G-alpha-i1
3ONW 2.38 Å, Structure of a G-alpha-i1 mutant with enhanced affinity for the RGS14 GoLoco motif.
20ZG 2.4 Å, Cryo-EM structure of the human neurotensin receptor 1 (hNTSR1)-Gi1 complex in the…

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