7VQX: PDB entry 7VQX

Cryo-EM structure of human vasoactive intestinal polypeptide receptor 2 (VIP2R) in complex with PACAP27 and Gs. Determined by electron microscopy at 2.74 Å resolution. Released 18 May 2022.

Method: Electron microscopy
Resolution: 2.74 Å
Organisms: Bos taurus, Rattus norvegicus, Homo sapiens
Chains: 6
Atoms: 9,049
Mol. weight: 180.39 kDa
Released: 18 May 2022

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

Secondary structure: helices and β-sheets

7VQX contains 41 α-helices and 49 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: 9 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	10-38	29
β-strand	40-47	8	1
α-helix	53-61	9
β-strand	207-214	8	1
β-strand	217-224	8	1
α-helix	235-238	4
β-strand	243-249	7	1
α-helix	265-277	13
β-strand	286-292	7	1
α-helix	294-301	8
α-helix	313-315	3
α-helix	326-327	2
α-helix	332-349	18
β-strand	359-363	5	1
α-helix	371-390	20

Chain B: 4 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	45-51	7	2
β-strand	58-63	6	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	89-94	6	3
α-helix	95	1
β-strand	100-105	6	4
β-strand	111-116	6	4
β-strand	121-125	5	4
β-strand	134-139	6	4
β-strand	146-151	6	5
β-strand	157-161	5	5
β-strand	165-170	6	5
β-strand	175-180	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	208-212	5	6
β-strand	218-222	5	6
β-strand	229-234	6	7
β-strand	240-245	6	7
β-strand	250-254	5	7
β-strand	259-264	6	7
β-strand	273-278	6	8
β-strand	284-289	6	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	336-341	6	2

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	9-23	15
α-helix	30-43	14
α-helix	53-55	3

Chain L: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-26	25

Chain N: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3-8	6	9
β-strand	10-12	3	10
β-strand	19-25	7	9
β-strand	34-39	6	10
β-strand	45-51	7	10
β-strand	58-60	3	10
β-strand	68-73	6	9
β-strand	78-83	6	9
α-helix	88-90	3
β-strand	92-98	7	10
β-strand	118	1	10
β-strand	122-126	5	10

Chain R: 23 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	27-42	16
β-strand	52	1	11
α-helix	62-64	3
β-strand	65	1	11
β-strand	70-74	5	12
α-helix	75-76	2
α-helix	77-82	6
β-strand	88-92	5	12
α-helix	105-109	5
α-helix	116-118	3
α-helix	119-150	32
α-helix	152-154	3
α-helix	157-183	27
α-helix	196-232	37
α-helix	241-245	5
α-helix	246-250	5
α-helix	251-265	15
α-helix	278-311	34
α-helix	324-337	14
α-helix	339-341	3
α-helix	342-346	5
α-helix	354-356	3
α-helix	357-363	7
α-helix	364	1
α-helix	367-372	6
α-helix	373-377	5
α-helix	380-392	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	394	Bos taurus	P04896 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	400	Rattus norvegicus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Bos taurus	P63212 (AlphaFold model)
Pituitary adenylate cyclase-activating polypeptide 27	L	protein	27	Homo sapiens	P18509 (AlphaFold model)
Nanobody-35	N	protein	140	synthetic construct
Vasoactive intestinal polypeptide receptor 2	R	protein	573	Homo sapiens	P41587

Sequence of entity 1 (A), FASTA

>7VQX_1 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKNTIVKQM
RILHVNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELA
NPENQFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLD
KIDVIKQDDYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFND
VTAIIFVVASSSYNMVIREDNQTNRLQAALKLFDSIWNNKWLRDTSVILFLNKQDLLAEK
VLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY
PHFTCSVDTENIRRVFNDCRDIIQRMHLRQYELL

Sequence of entity 2 (B), FASTA

>7VQX_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHSSGLVPRGSHMASHHHHHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACA
DATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYT
TNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYL
SCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDA
SAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSH
DNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMA
VATGSWDSFLKIWNGSSGGGGSGGGGSSGVSGWRLFKKIS

Sequence of entity 3 (G), FASTA

>7VQX_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (L), FASTA

>7VQX_4 Pituitary adenylate cyclase-activating polypeptide 27 (chains L)
HSDGIFTDSYSRYRKQMAVKKYLAAVL

Sequence of entity 5 (N), FASTA

>7VQX_5 Nanobody-35 (chains N)
MAQVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASI
SYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYR
GQGTQVTVSSHHHHHHEPEA

Sequence of entity 6 (R), FASTA

>7VQX_6 Vasoactive intestinal polypeptide receptor 2 (chains R)
ECRFHLEIQEEETKCAELLRSQTEKHKACSGVWDNITCWRPANVGETVTVPCPKVFSNFY
SKAGNISKNCTSDGWSETFPDFVDACGYSDPEDESKITFYILVKAIYTLGYSVSLMSLAT
GSIILCLFRKLHCTRNYIHLNLFLSFILRAISVLVKDDVLYSSSGTLHCPDQPSSWVGCK
LSLVFLQYCIMANFFWLLVEGLYLHTLLVAMLPPRRCFLAYLLIGWGLPTVCIGAWTAAR
LYLEDTGCWDTNDHSVPWWVIRIPILISIIVNFVLFISIIRILLQKLTSPDVGGNDQSQY
KRLAKSTLLLIPLFGVHYMVFAVFPISISSKYQILFELCLGSFQGLVVAVLYCFLNSEVQ
CELKRKWRSRCPTPSASRDYRVCGSSFSRNGSEGALQFHRGSRAQSFLQTETSVIVFTLE
DFVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVIIPYEG
LSADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAVFDGKK
ITVTGTLWNGNKIIDERLITPDGSMLFRVTINS

Primary citation

A distinctive ligand recognition mechanism by the human vasoactive intestinal polypeptide receptor 2. Xu, Y., Feng, W., Zhou, Q. et al. Nat Commun (2022) 13:2272-2272. DOI 10.1038/s41467-022-30041-z · PubMed

Other PDB entries of the same protein (UniProt P04896 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1AZS 2.3 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase
1AZT 2.3 Å, Gs-alpha complexed with GTP-gamma-S
9IJE 2.34 Å, Epinephrine-activated human beta3 adrenergic receptor
1CUL 2.4 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase: complex…
1CS4 2.5 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase: complex…
8DCS 2.5 Å, Cryo-EM structure of cyanopindolol-bound beta1-adrenergic receptor in complex with…
7JJO 2.6 Å, Structural Basis of the Activation of Heterotrimeric Gs-protein by Isoproterenol-bound…
8DCR 2.6 Å, Cryo-EM structure of dobutamine-bound beta1-adrenergic receptor in complex with…
7X8R 2.61 Å, Cryo-EM structure of the Boc5-bound hGLP-1R-Gs complex
3C14 2.68 Å, Complex of GS-Alpha with the Catalytic Domains of Mammalian Adenylyl Cyclase: Complex…
8X9T 2.75 Å, Identification, structure and agonist design of an androgen membrane receptor
9IJD 2.76 Å, Carazolol-activated human beta3 adrenergic receptor

Browse structure collections

About this viewer

MolViewer shows 7VQX 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.