9K6L: GPCR16-Gi2 complex

Cryo-EM structure of GPCR16-Gi2 complex. Determined by electron microscopy at 2.77 Å resolution. Released 2 Apr 2025.

Method: Electron microscopy
Resolution: 2.77 Å
Organisms: Homo sapiens, Streptococcus pneumoniae, synthetic construct
Chains: 5
Atoms: 8,914
Mol. weight: 230.96 kDa
Ligands: SA0
Released: 2 Apr 2025

Explore 9K6L in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9K6L contains 31 α-helices and 58 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: 12 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	34-40	7	1
α-helix	46-54	9
α-helix	185	1
β-strand	186-191	6	1
β-strand	196-201	6	1
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-227	7	1
α-helix	228-231	4
α-helix	233	1
β-strand	234	1	2
α-helix	235	1
β-strand	242	1	2
α-helix	243-255	13
β-strand	264-270	7	1
α-helix	272-278	7
α-helix	297-310	14
β-strand	320-324	5	1
α-helix	331-352	22

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-25	22
α-helix	30-33	4
α-helix	38-39	2
β-strand	45-52	8	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	120-125	6	5
β-strand	134-140	7	5
β-strand	146-151	6	6
β-strand	156-161	6	6
β-strand	165-170	6	6
β-strand	175-181	7	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	260-264	5	8
β-strand	275-278	4	9
β-strand	284-288	5	9
β-strand	294-298	5	9
β-strand	303-308	6	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	335-341	7	3

Chain G: 3 helices, 0 β-strands

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

Chain R: 10 helices, 0 β-strands

Element	Residues	Length
α-helix	4-39	36
α-helix	44-72	29
α-helix	82-107	26
α-helix	113-124	12
α-helix	126-154	29
α-helix	172-209	38
α-helix	216-247	32
α-helix	249-251	3
α-helix	258-278	21
α-helix	281-286	6

Chain S: 3 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	10-12	3	11
β-strand	17-25	9	10
β-strand	33-39	7	11
β-strand	45-51	7	11
α-helix	53-55	3
β-strand	58-60	3	11
β-strand	68-73	6	10
β-strand	78-84	7	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	128-129	2	12
β-strand	135-136	2	13
β-strand	143-149	7	12
β-strand	162-167	6	13
β-strand	174-178	5	13
β-strand	182-183	2	13
β-strand	191-196	6	12
β-strand	199-204	6	12
α-helix	209-211	3
β-strand	213-219	7	13
β-strand	227	1	13
β-strand	231-234	4	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(i) subunit alpha-2	A	protein	355	Homo sapiens	P04899 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	366	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Homo sapiens	P59768 (AlphaFold model)
scFv16	S	protein	266	Homo sapiens
exo-alpha-sialidase,Taste receptor type 2 member 16,LgBiT	R	protein	1011	Streptococcus pneumoniae, Homo sapiens, synthetic construct	Q9NYV7 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>9K6L_1 Guanine nucleotide-binding protein G(i) subunit alpha-2 (chains A)
MGCTVSAEDKAAAERSKMIDKNLREDGEKAAREVKLLLLGAGESGKNTIVKQMKIIHEDG
YSEEECRQYRAVVYSNTIQSIMAIVKAMGNLQIDFADPSRADDARQLFALSCTAEEQGVL
PDDLSGVIRRLWADHGVQACFGRSREYQLNDSAAYYLNDLERIAQSDYIPTQQDVLRTRV
KTTGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEE
MNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKITHSPLTICFPEYTGANKYDEA
ASYIQSKFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 2 (B), FASTA

>9K6L_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSGGGGSSGVSGWR
LFKKIS

Sequence of entity 3 (G), FASTA

>9K6L_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (S), FASTA

>9K6L_4 scFv16 (chains S)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKAAAENLYFQSHHHHHHHH

Sequence of entity 5 (R), FASTA

>9K6L_5 exo-alpha-sialidase,Taste receptor type 2 member 16,LgBiT (chains R)
MKTIIALSYIFCLVFADYKDDDDAHHHHHHHHHHENLYFQSAHHHHHHSSGLEVLFQGPP
EGAALTEKTDIFESGRNGNPNKDGIKSYRIPALLKTDKGTLIAGADERRLHSSDWGDIGM
VIRRSEDNGKTWGDRVTITNLRDNPKASDPSIGSPVNIDMVLVQDPETKRIFSIYDMFPE
GKGIFGMSSQKEEAYKKIDGKTYQILYREGEKGAYTIRENGTVYTPDGKATDYRVVVDPV
KPAYSDKGDLYKGDQLLGNIYFTTNKTSPFRIAKDSYLWMSYSDDDGKTWSAPQDITPMV
KADWMKFLGVGPGTGIVLRNGPHKGRILIPVYTTNNVSHLDGSQSSRVIYSDDHGKTWHA
GEAVNDNRQVDGQKIHSSTMNNRRAQNTESTVVQLNNGDVKLFMRGLTGDLQVATSKDGG
VTWEKDIKRYPQVKDVYVQMSAIHTMHEGKEYIILSNAGGPKRENGMVHLARVEENGELT
WLKHNPIQKGEFAYNSLQELGNGEYGILYEHTEKGQNAYTLSFRKFNWEFLSKNGSGSGI
PIQLTVFFMIIYVLESLTIIVQSSLIVAVLGREWLQVRRLMPVDMILISLGISRFCLQWA
SMLNNFCSYFNLNYVLCNLTITWEFFNILTFWLNSLLTVFYCIKVSSFTHHIFLWLRWRI
LRLFPWILLGCLMITCVTIIPSAIGNYIQIQLLTMEHLPRNSTVTDKLENFHQYQFQAHT
VALVIPFILFLASTIFLMASLTKQIQHHSTGHCNPSMKARFTALRSLAVLFIVFTSYFLT
ILITIIGTLFDKRCWLWVWEAFVYAFILMHSTSLMLSSPTLKRILKGKCGSGSGGSGSGG
SGSGGSGSGSSGGVFTLEDFVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVR
SGENALKIDIHVIIPYEGLSADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNM
LNYFGRPYEGIAVFDGKKITVTGTLWNGNKIIDERLITPDGSMLFRVTINS

Ligands and cofactors

ID	Name	Formula	Copies
SA0	2-(hydroxymethyl)phenyl beta-D-glucopyranoside	C13 H18 O7	1

Primary citation

Structural basis of beta-glucopyranoside salicin recognition by a human bitter taste GPCR. Wang, X., Zhou, C., Ao, W. et al. Cell Rep (2025) 44:115604-115604. DOI 10.1016/j.celrep.2025.115604 · PubMed

Other PDB entries of the same protein (UniProt P04899 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8ZBW 2.58 Å, Cryo-EM structure of formyl peptide receptor 2/C1R receptor in complex with Gi
8THK 2.6 Å, Cryo-EM structure of A61603-bound alpha-1A-adrenergic receptor in complex with…
7YK7 2.75 Å, Cryo-EM structure of the DC591053-bound human relaxin family peptide receptor 4…
9XDQ 2.79 Å, Cryo-EM structure of BMS986187 bound DOR-Gi complex
7WVX 2.8 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with fhumanin and Gi2
8W8A 2.8 Å, Cryo-EM structure of the RO5256390-TAAR1 complex
8ZSJ 2.8 Å, Cryo-EM structure of the apo hTAAR1-Gs complex
7WVV 2.9 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with fMLFII and Gi2
9DQJ 2.9 Å, CryoEM structure of Gq-coupled MRGPRD with a new agonist EP-3945
9KFI 2.91 Å, Cryo-EM structure of the human relaxin family peptide receptor 3 in complex with…
9KFK 2.95 Å, Cryo-EM structure of the relaxin-3-bound human relaxin family peptide receptor 4…
8ZSV 2.96 Å, Cryo-EM structure of the RO5263397-bound mTAAR1-Gs complex

Browse structure collections

About this viewer

MolViewer shows 9K6L directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.