7DTY: PDB entry 7DTY

Structural basis of ligand selectivity conferred by the human glucose-dependent insulinotropic polypeptide receptor. Determined by electron microscopy at 2.98 Å resolution. Released 4 Aug 2021.

Method: Electron microscopy
Resolution: 2.98 Å
Organisms: Homo sapiens, Bos taurus, Rattus norvegicus
Chains: 6
Atoms: 9,407
Mol. weight: 181.42 kDa
Ligands: CLR
Released: 4 Aug 2021

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

Secondary structure: helices and β-sheets

7DTY contains 36 α-helices and 53 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: 11 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	10-39	30
β-strand	41-46	6	4
α-helix	53-59	7
β-strand	207-213	7	4
β-strand	218-224	7	4
α-helix	234-238	5
β-strand	243-249	7	4
α-helix	266-278	13
α-helix	281-283	3
β-strand	286-292	7	4
α-helix	294-302	9
α-helix	308-311	4
α-helix	313-315	3
α-helix	326-327	2
α-helix	332-352	21
β-strand	359-363	5	4
α-helix	371-390	20

Chain B: 3 helices, 29 β-strands

Element	Residues	Length	Sheet
α-helix	5-25	21
α-helix	30-33	4
β-strand	43	1	5
β-strand	45-51	7	6
β-strand	58-63	6	7
β-strand	69-74	6	7
β-strand	78-83	6	7
β-strand	88-94	7	7
β-strand	100-105	6	8
β-strand	111-116	6	8
β-strand	121-125	5	8
β-strand	134-139	6	8
α-helix	145	1
β-strand	146-151	6	9
β-strand	156-161	6	9
β-strand	165-170	6	9
β-strand	176-181	6	9
β-strand	187-192	6	10
β-strand	198-203	6	10
β-strand	208-212	5	10
β-strand	218-222	5	10
β-strand	229-234	6	11
β-strand	240-245	6	11
β-strand	250-254	5	11
β-strand	259-264	6	11
β-strand	273-278	6	5
β-strand	284-289	6	5
β-strand	294-298	5	5
β-strand	304-308	5	5
β-strand	315-320	6	6
β-strand	327-331	5	6
β-strand	336-341	6	6

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 N: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	12
β-strand	10-11	2	13
β-strand	17-25	9	12
α-helix	29-31	3
β-strand	34-39	6	13
β-strand	45-51	7	13
β-strand	58-60	3	13
α-helix	62-64	3
β-strand	68-73	6	12
β-strand	78-84	7	12
α-helix	88-90	3
β-strand	92-98	7	13
β-strand	118	1	13
β-strand	122-125	4	13

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-28	27

Chain R: 15 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	32-48	17
β-strand	61	1	1
α-helix	62-63	2
β-strand	65	1	2
β-strand	70	1	2
β-strand	74	1	1
β-strand	79-83	5	3
α-helix	84-85	2
β-strand	98-102	5	3
β-strand	113-114	2	3
α-helix	116-118	3
α-helix	125-161	37
α-helix	168-193	26
α-helix	197-200	4
α-helix	212-245	34
α-helix	256-280	25
α-helix	293-327	35
α-helix	332-350	19
α-helix	353-356	4
α-helix	368-389	22
α-helix	390-394	5
α-helix	397-414	18

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
human glucose-dependent insulinotropic polypeptide receptor	R	protein	573	Homo sapiens	P48546 (AlphaFold model)
Gastric inhibitory polypeptide	P	protein	42	Homo sapiens	P09681 (AlphaFold model)
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	371	Rattus norvegicus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Bos taurus	P63212
Nanobody-35	N	protein	140	synthetic construct

Sequence of entity 1 (R), FASTA

>7DTY_1 human glucose-dependent insulinotropic polypeptide receptor (chains R)
RAETGSKGQTAGELYQRWERYRRECQETLAAAEPPSGLACNGSFDMYVCWDYAAPNATAR
ASCPWYLPWHHHVAAGFVLRQCGSDGQWGLWRDHTQCENPEKNEAFLDQRLILERLQVMY
TVGYSLSLATLLLALLILSLFRRLHCTRNYIHINLFTSFMLRAAAILSRDRLLPRPGPYL
GDQALALWNQALAACRTAQIVTQYCVGANYTWLLVEGVYLHSLLVLVGGSEEGHFRYYLL
LGWGAPALFVIPWVIVRYLYENTQCWERNEVKAIWWIIRTPILMTILINFLIFIRILGIL
LSKLRTRQMRCRDYRLRLARSTLFLVPLLGVHEVVFAPVTEEQARGALRFAKLGFEIFLS
SFQGFLVSVLYCFINKEVQSEIRRGWHHCRLRRSLGEEQRGSSGGGGSGGGGSSGVFTLE
DFVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVIIPYEG
LSADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAVFDGKK
ITVTGTLWNGNKIIDERLITPDGSMLFRVTINS

Sequence of entity 2 (P), FASTA

>7DTY_2 Gastric inhibitory polypeptide (chains P)
YAEGTFISDYSIAMDKIHQQDFVNWLLAQKGKKNDWKHNITQ

Sequence of entity 3 (A), FASTA

>7DTY_3 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKNTIVKQM
RILHVNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELA
NPENQFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLD
KIDVIKQDDYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFND
VTAIIFVVASSSYNMVIREDNQTNRLQAALKLFDSIWNNKWLRDTSVILFLNKQDLLAEK
VLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY
PHFTCAVDTENIRRVFNDCRDIIQRMHLRQYELL

Sequence of entity 4 (B), FASTA

>7DTY_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHL
AKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACG
GLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQ
QTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFF
PNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCN
VWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSGGGGSSG
VSGWRLFKKIS

Sequence of entity 5 (G), FASTA

>7DTY_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 6 (N), FASTA

>7DTY_6 Nanobody-35 (chains N)
MAQVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASI
SYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYR
GQGTQVTVSSHHHHHHEPEA

Ligands and cofactors

ID	Name	Formula	Copies
CLR	Cholesterol	C27 H46 O	6

Primary citation

Structural insights into hormone recognition by the human glucose-dependent insulinotropic polypeptide receptor. Zhao, F., Zhang, C., Zhou, Q. et al. Elife (2021) 10. DOI 10.7554/eLife.68719 · PubMed

Other PDB entries of the same protein (UniProt P48546 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2QKH 1.9 Å, Crystal structure of the extracellular domain of human GIP receptor in complex with the…
6DKJ 1.95 Å, human GIPR ECD and Fab complex
9XN3 2.74 Å, Glucose-dependent insulinotropic polypeptide receptor-Gs complex activated by the small…
8WA3 2.86 Å, Cryo-EM structure of peptide free and Gs-coupled GIPR
4HJ0 3.0 Å, Crystal structure of the human GIPr ECD in complex with Gipg013 Fab at 3-A resolution
7RBT 3.08 Å, cryo-EM structure of human Gastric inhibitory polypeptide receptor GIPR bound to…
7FIN 3.1 Å, Cryo-EM structure of the GIPR/GLP-1R/GCGR triagonist peptide 20-bound human GIPR-Gs…
8ITM 3.13 Å, Cryo-EM structure of GIPR splice variant 2 (SV2) in complex with Gs protein
7VAB 3.2 Å, Cryo-EM structure of the non-acylated tirzepatide (LY3298176)-bound human GIPR-Gs complex
8ITL 3.23 Å, Cryo-EM structure of GIPR splice variant 1 (SV1) in complex with Gs protein
7RA3 3.24 Å, cryo-EM of human Gastric inhibitory polypeptide receptor GIPR bound to GIP
8YW4 3.26 Å, Cryo-EM structure of the retatrutide-bound human GIPR-Gs complex

Browse structure collections

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