7VVJ: PTHrP-bound human PTH1R

PTHrP-bound human PTH1R in complex with Gs. Determined by electron microscopy at 3.2 Å resolution. Released 3 Aug 2022.

Method: Electron microscopy
Resolution: 3.2 Å
Organisms: Homo sapiens, Rattus norvegicus, Bos taurus
Chains: 6
Atoms: 8,872
Mol. weight: 165.03 kDa
Released: 3 Aug 2022

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

Secondary structure: helices and β-sheets

7VVJ contains 39 α-helices and 58 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, 7 β-strands

Element	Residues	Length	Sheet
α-helix	12-39	28
β-strand	41-46	6	1
α-helix	53-58	6
β-strand	208-214	7	1
β-strand	217-223	7	1
α-helix	235-238	4
β-strand	243-249	7	1
α-helix	256-267	12
α-helix	270-272	3
β-strand	276-282	7	1
α-helix	284-293	10
α-helix	298-301	4
α-helix	303-305	3
α-helix	316-317	2
α-helix	322-340	19
β-strand	349	1	1
β-strand	352-353	2	1
α-helix	361-380	20

Chain B: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	3-24	22
α-helix	30-33	4
α-helix	34-36	3
α-helix	38-39	2
β-strand	49-51	3	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
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	149-151	3	5
β-strand	156-159	4	5
β-strand	165-170	6	5
β-strand	176-181	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	207-212	6	6
β-strand	217-223	7	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	304-307	4	8
β-strand	318-320	3	2
β-strand	327-329	3	2
β-strand	336-339	4	2

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: 2 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	9
β-strand	11-12	2	10
β-strand	17-25	9	9
α-helix	29-31	3
β-strand	34-39	6	11
β-strand	45-51	7	11
β-strand	59-60	2	11
β-strand	68-73	6	9
β-strand	78-84	7	9
α-helix	88-90	3
β-strand	92-98	7	11
β-strand	118	1	11
β-strand	122-124	3	11
β-strand	125-126	2	10

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	3-31	29

Chain R: 17 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	34-51	18
α-helix	107	1
β-strand	108	1	12
α-helix	109-110	2
β-strand	111-112	2	13
β-strand	117-118	2	13
β-strand	121	1	12
β-strand	126-130	5	14
β-strand	143-147	5	14
β-strand	148	1	15
β-strand	154	1	15
α-helix	155	1
β-strand	156	1	16
α-helix	157	1
β-strand	163	1	16
α-helix	164	1
β-strand	165-166	2	14
α-helix	183-211	29
α-helix	213-215	3
α-helix	220-244	25
α-helix	278-311	34
α-helix	321-328	8
α-helix	330-345	16
α-helix	361-390	30
α-helix	403-416	14
α-helix	435-456	22
α-helix	457-461	5
α-helix	464-479	16

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	380	Homo sapiens	P63092 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	351	Rattus norvegicus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	68	Bos taurus	P63212 (AlphaFold model)
nanobody Nb35	N	protein	137	unidentified
PTHrP[1-36]	P	protein	36	Homo sapiens	P12272 (AlphaFold model)
Parathyroid hormone/parathyroid hormone-related peptide receptor	R	protein	482	Homo sapiens	Q03431

Sequence of entity 1 (A), FASTA

>7VVJ_1 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
GNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQMRIYH
VNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELANPEN
QFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLDKIDV
IKQADYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAI
IFVVDSSDYNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPE
FARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENARR
IFNDCRDIIQRMHLRQYELL

Sequence of entity 2 (B), FASTA

>7VVJ_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRR
TLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSG
NYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALW
DIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDI
NAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGY
DDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (G), FASTA

>7VVJ_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFS

Sequence of entity 4 (N), FASTA

>7VVJ_4 nanobody Nb35 (chains N)
MGQVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASI
SYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYR
GQGTQVTVSSLHHHHHH

Sequence of entity 5 (P), FASTA

>7VVJ_5 PTHrP[1-36] (chains P)
AVSEHQLLHDKGKSIQDLRRRFFLHHLIAEIHTAEI

Sequence of entity 6 (R), FASTA

>7VVJ_6 Parathyroid hormone/parathyroid hormone-related peptide receptor (chains R)
DYKDDDDDADDVMTKEEQIFLLHRAQAQCEKRLKEVLQRPASIMESDKGWTSASTSGKPR
KDKASGKLYPESEEDKEAPTGSRYRGRPCLPEWDHILCWPLGAPGEVVAVPCPDYIYDFN
HKGHAYRRCDRNGSWELVPGHNRTWANYSECVKFLTNETREREVFDRLGMIYTVGYSVSL
ASLTVAVLILAYFRRLHCTRNYIHMHLFLSFMLRAVSIFVKDAVLYSGATLDEAERLTEE
ELRAIAQAPPPPATAAAGYAGCRVAVTFFLYFLATNYYWILVEGLYLHSLIFMAFFSEKK
YLWGFTVFGWGLPAVFVAVWVSVRATLANTGCWDLSSGNKKWIIQVPILASIVLNFILFI
NIVRVLATKLRETNAGRCDTRQQYRKLLKSTLVLMPLFGVHYIVFMATPYTEVSGTLWQV
QMHYEMLFNSFQGFFVAIIYCFCNGEVQAEIKKSWSRWTLALDFKRKARSGSSSYSYGPM
VS

Primary citation

Endogenous ligand recognition and structural transition of a human PTH receptor. Kobayashi, K., Kawakami, K., Kusakizako, T. et al. Mol Cell (2022) 82:3468-3483.e5. DOI 10.1016/j.molcel.2022.07.003 · PubMed

Other PDB entries of the same protein (UniProt P63092 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7BPH 1.57 Å, Crystal structure of GppNHp-bound GNAS in complex with the cyclic peptide inhibitor GN13
6AU6 1.7 Å, Crystal structure of GDP-bound human GNAS R201C mutant
8F0K 1.9 Å, Human Amylin3 Receptor in complex with Gs and Pramlintide analogue peptide San385
7E5E 1.95 Å, Crystal structure of GDP-bound GNAS in complex with the cyclic peptide inhibitor GD20
7MBX 1.95 Å, Human Cholecystokinin 1 receptor (CCK1R) Gs complex
8F0J 2.0 Å, Calcitonin Receptor in complex with Gs and Pramlintide analogue peptide San45
8F2B 2.0 Å, Amylin 3 Receptor in complex with Gs and Pramlintide analogue peptide San45
9XXT 2.0 Å, Cryo-EM structure of lysophosphatidylserine (18:0)-bound GPR174-Gs complex
6X18 2.1 Å, GLP-1 peptide hormone bound to Glucagon-Like peptide-1 (GLP-1) Receptor
6X19 2.1 Å, Non peptide agonist CHU-128, bound to Glucagon-Like peptide-1 (GLP-1) Receptor
9NTU 2.1 Å, Cryo-EM structure of BETP-GLP-1(9-36)-GLP-1R-Gs complex
7RTB 2.14 Å, Peptide-19 bound to the Glucagon-Like Peptide-1 Receptor (GLP-1R)

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