7EJK: PDB entry 7EJK

Structure of the alpha2A-adrenergic receptor GoA signaling complex bound to oxymetazoline. Determined by electron microscopy at 3.4 Å resolution. Released 13 Apr 2022.

Method: Electron microscopy
Resolution: 3.4 Å
Organisms: Homo sapiens, Mus musculus
Chains: 5
Atoms: 8,586
Mol. weight: 170.23 kDa
Ligands: J5C
Released: 13 Apr 2022

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

Secondary structure: helices and β-sheets

7EJK contains 30 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: 7 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	34-38	5	1
α-helix	46-52	7
β-strand	186-191	6	1
β-strand	196-201	6	1
α-helix	213-216	4
β-strand	221-226	6	1
α-helix	243-255	13
β-strand	264-269	6	1
α-helix	272-281	10
α-helix	298-309	12
β-strand	319-323	5	1
α-helix	331-350	20

Chain B: 1 helix, 28 β-strands

Element	Residues	Length	Sheet
α-helix	8-24	17
β-strand	47-51	5	2
β-strand	58-63	6	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	88-94	7	3
β-strand	102-105	4	4
β-strand	111-115	5	4
β-strand	121-125	5	4
β-strand	134-139	6	4
β-strand	146-153	8	5
β-strand	156-161	6	5
β-strand	166-170	5	5
β-strand	175-180	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	207-212	6	6
β-strand	218-222	5	6
β-strand	232-234	3	7
β-strand	240-243	4	7
β-strand	250-254	5	7
β-strand	260-264	5	7
β-strand	276-278	3	8
β-strand	284-287	4	8
β-strand	294-298	5	8
β-strand	304-308	5	8
β-strand	315-320	6	2
β-strand	327-331	5	2
β-strand	335-339	5	2

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	10-22	13
α-helix	30-44	15
α-helix	53-55	3

Chain H: 5 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	9
β-strand	11-12	2	10
β-strand	18-25	8	9
α-helix	29-31	3
β-strand	33-39	7	11
β-strand	46-51	6	11
β-strand	58-60	3	11
β-strand	69-73	5	9
α-helix	74-76	3
β-strand	78-83	6	9
α-helix	88-90	3
β-strand	93-99	7	11
β-strand	115	1	11
β-strand	118-119	2	10
β-strand	129	1	12
β-strand	134-135	2	13
β-strand	143	1	14
β-strand	147-148	2	12
β-strand	154	1	15
β-strand	160	1	15
β-strand	162-167	6	13
β-strand	174-178	5	13
β-strand	194-195	2	12
β-strand	199-201	3	12
β-strand	204	1	14
α-helix	209-211	3
β-strand	214-219	6	13
α-helix	225	1
β-strand	227	1	13
β-strand	231-233	3	13

Chain R: 14 helices, 1 β-strand

Element	Residues	Length	Sheet
α-helix	48-75	28
α-helix	85-96	12
α-helix	97-101	5
α-helix	102-107	6
β-strand	117	1	16
α-helix	118-150	33
α-helix	153-157	5
α-helix	162-180	19
α-helix	209-216	8
α-helix	217-221	5
α-helix	222-240	19
α-helix	382-409	28
α-helix	410-414	5
α-helix	423-443	21
α-helix	446-456	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(o) subunit alpha	A	protein	354	Homo sapiens	P09471 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	349	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	H	protein	307	Mus musculus
Alpha-2A adrenergic receptor	R	protein	465	Homo sapiens	P08913 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>7EJK_1 Guanine nucleotide-binding protein G(o) subunit alpha (chains A)
MGCTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGAGESGKSTIVKQMKIIHEDG
FSGEDVKQYKPVVYSNTIQSLAAIVRAMDTLGIEYGDKERKADAKMVCDVVSRMEDTEPF
SAELLSAMMRLWGDSGIQECFNRSREYQLNDSAKYYLDSLDRIGAADYQPTEQDILRTRV
KTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIFCVALSGYDQVLHEDET
TNRMHESLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPNTYEDA
AAYIQAQFESKNRSPNKEIYCHMTCATDTNNIQVVFDAVTDIIIANNLRGCGLY

Sequence of entity 2 (B), FASTA

>7EJK_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
HHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTL
RGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNY
VACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDI
ETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINA
ICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDD
FNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (G), FASTA

>7EJK_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (H), FASTA

>7EJK_4 scFv16 (chains H)
MLLVNQSHQGFNKEHTSKMVSAIVLYVLLAAAAHSAFADVQLVESGGGLVQPGGSRKLSC
SASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYADTVKGRFTISRDDPKNTLFLQ
MTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSSGGGGSGGGGSGGGGSDIVMTQ
ATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQRPGQSPQLLIYRMSNLASGVPDR
FSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFGAGTKLELKGSLEVLFQGPAAAH
HHHHHHH

Sequence of entity 5 (R), FASTA

>7EJK_5 Alpha-2A adrenergic receptor (chains R)
MFRQEQPLAEGSFAPMGSLQPDAGNASWNGTEAPGGGARATPYSLQVTLTLVCLAGLLML
LTVFGNVLVIIAVFTSRALKAPQNLFLVSLASADILVATLVIPFSLANEVMGYWYFGKAW
CEIYLALDVLFCTSSIVHLCAISLDRYWSITQAIEYNLKRTPRRIKAIIITVWVISAVIS
FPPLISIEKKGGGGGPQPAEPRCEINDQKWYVISSCIGSFFAPCLIMILVYVRIYQIAKR
RTRVPPSRRGPDAVAAPPGGTERRPNGLGPERSAGPGGAEAEPLPTQLNGAPGEPAPAGP
RDTDALDLEESSSSDHAERPPGPRRPERGPRGKGKARASQVKPGDSLPRRGPGATGIGTP
AAGPGEERVGAAKASRWRGRQNREKRFTFVLAVVIGVFVVCWFPFFFTYTLTAVGCSVPR
TLFKFFFWFGYCNSSLNPVIYTIFNHDFRRAFKKILCRGDRKRIV

Ligands and cofactors

ID	Name	Formula	Copies
J5C	Oxymetazoline	C16 H24 N2 O	1

Primary citation

Structural insights into ligand recognition, activation, and signaling of the alpha 2A adrenergic receptor. Xu, J., Cao, S., Hubner, H. et al. Sci Adv (2022) 8:eabj5347-eabj5347. DOI 10.1126/sciadv.abj5347 · PubMed

Other PDB entries of the same protein (UniProt P09471 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9BSB 2.32 Å, Global reconstruction of DRD2 bound to LSD in complex with a mini-GoA and scFv16…
9VJE 2.47 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with buspirone
9K20 2.65 Å, Cryo-EM structure of ATP-bound P2Y purinoceptor 2-miniGo-scFv16 complex
9VJ5 2.69 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with gepirone
8E9X 2.7 Å, CryoEM structure of miniGo-coupled hM4Di in complex with DCZ
9T88 2.74 Å, Cryo-EM structure of ESG-2-37-bound D3 dopamine receptor with mini-Go
9VNF 2.74 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with (S)-pindolol
8YN7 2.77 Å, Cryo-EM structure of histamine H3 receptor in complex with immethridine and miniGo
8YN8 2.77 Å, Cryo-EM structure of histamine H3 receptor in complex with proxyfan and miniGo
9KVP 2.79 Å, Structure of SB290157 bound to human C3aR in complex with Go (Full map)
7W2Z 2.8 Å, Cryo-EM structure of the ghrelin-bound human ghrelin receptor-Go complex
8XXH 2.8 Å, Structure of CXCR2 bound to CXCL2 (CXCR2-CXCL2-Go Full map)

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