8ZJD: Kisspeptin receptor

Cryo-EM structure of kisspeptin receptor bound to KP-10. Determined by electron microscopy at 3.06 Å resolution. Released 3 Jul 2024.

Method: Electron microscopy
Resolution: 3.06 Å
Organisms: Homo sapiens, synthetic construct, Mus sp.
Chains: 6
Atoms: 8,820
Mol. weight: 171.53 kDa
Released: 3 Jul 2024

Explore 8ZJD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8ZJD contains 42 α-helices and 65 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: 10 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	33-40	8	15
α-helix	46-56	11
β-strand	192-197	6	15
β-strand	202-207	6	15
α-helix	215-217	3
α-helix	219-222	4
β-strand	227-233	7	15
α-helix	234-236	3
β-strand	240	1	16
β-strand	248	1	16
α-helix	249-261	13
β-strand	270-276	7	15
α-helix	278-284	7
α-helix	290-292	3
α-helix	304-316	13
β-strand	326-330	5	15
α-helix	338-357	20

Chain B: 4 helices, 30 β-strands

Element	Residues	Length	Sheet
α-helix	11-30	20
α-helix	35-38	4
α-helix	43-44	2
β-strand	52-57	6	2
β-strand	63-68	6	3
β-strand	74-79	6	3
β-strand	83-88	6	3
β-strand	93-99	7	3
β-strand	105-110	6	4
β-strand	116-121	6	4
β-strand	126-130	5	4
β-strand	139-144	6	4
β-strand	151-156	6	5
β-strand	161-166	6	5
β-strand	170-175	6	5
β-strand	180-186	7	5
β-strand	192-197	6	6
β-strand	203-208	6	6
β-strand	212-217	6	6
β-strand	222-228	7	6
β-strand	234-239	6	7
β-strand	245-250	6	7
β-strand	255-259	5	7
β-strand	264-269	6	7
α-helix	272-274	3
β-strand	278	1	8
β-strand	282-283	2	9
β-strand	289-292	4	9
β-strand	294	1	8
β-strand	299-303	5	9
β-strand	309-313	5	9
β-strand	320-325	6	2
β-strand	332-336	5	2
β-strand	340-344	5	2

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	6-22	17
α-helix	29-42	14
α-helix	44-46	3
α-helix	52-54	3

Chain L: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	213-215	3

Chain R: 16 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	44-68	25
α-helix	76-93	18
α-helix	96-102	7
α-helix	112-145	34
α-helix	149-151	3
α-helix	156-173	18
α-helix	176-179	4
β-strand	181-184	4	1
β-strand	190-193	4	1
α-helix	198-208	11
α-helix	209-214	6
α-helix	215-233	19
α-helix	244-250	7
α-helix	251-255	5
α-helix	256-288	33
α-helix	299-320	22
α-helix	321-325	5
α-helix	328-336	9

Chain S: 7 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	2-5	4	10
α-helix	6-7	2
β-strand	9-11	3	11
β-strand	15-24	10	10
α-helix	28-30	3
β-strand	32-38	7	11
β-strand	44-50	7	11
α-helix	52-54	3
β-strand	57-59	3	11
α-helix	61-63	3
β-strand	64	1	10
β-strand	67-72	6	10
α-helix	73-75	3
β-strand	77-85	9	10
α-helix	87-89	3
β-strand	91-98	8	11
β-strand	110	1	11
β-strand	114-118	5	11
β-strand	140-141	2	12
β-strand	146-148	3	13
β-strand	155-161	7	12
β-strand	166	1	14
β-strand	172	1	14
β-strand	174-179	6	13
β-strand	186-190	5	13
β-strand	195	1	13
β-strand	203-207	5	12
β-strand	211-216	6	12
α-helix	221-223	3
β-strand	226-231	6	13
β-strand	239	1	13
β-strand	243-246	4	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor, G-protein coupled…	R	protein	512	Homo sapiens	Q969F8 (AlphaFold model)
kisspeptin-10	L	protein	11	synthetic construct	Q15726 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	351	Homo sapiens	P62873 (AlphaFold model)
scFv16	S	protein	247	Mus sp.
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Homo sapiens	P59768 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1,Guanine nucleotide-binding protein G(q)…	A	protein	353	Homo sapiens	P50148, P63096

Sequence of entity 1 (R), FASTA

>8ZJD_1 KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor,KiSS-1 receptor, G-protein coupled receptor 54, GPR54, KISS1R (chains R)
HTVATSGPNASWGAPANASGCPGCGANASDGPVPSPRAVDAWLVPLFFAALMLLGLVGNS
LVIYVICRHKPMRTVTNFYIANLAATDVTFLLCCVPFTALLYPLPGWVLGDFMCKFVNYI
QQVSVQATCWTLTAMSVDRWYVTVFPLRALHRRTPRLALAVSLSIWVGSAAVSAPVLALH
RLSPGPRAYCSEAFPSRALERAFALYNLLALYLLPLLATCACYAAMLRHLGRVAVRPAPA
DSALQGQVLAERAGAVRAKVSRLVAAVVLLFAACWGPIQLFLVLQALGPAGSWHPRSYAA
YALKTWAHCMSYSNSALNPLLYAFLGSHFRQAFRRVCPCAPRRPRRPRRPGPSDVFTLED
FVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVIIPYEGL
SADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAVFDGKKI
TVTGTLWNGNKIIDERLITPDGSMLFRVTINS

Sequence of entity 2 (L), FASTA

>8ZJD_2 kisspeptin-10 (chains L)
YNWNSFGLRFA

Sequence of entity 3 (B), FASTA

>8ZJD_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRR
TLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSG
NYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALW
DIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDI
NAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGY
DDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (S), FASTA

>8ZJD_4 scFv16 (chains S)
VQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYA
DTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSA
GGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLEL

Sequence of entity 5 (G), FASTA

>8ZJD_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 6 (A), FASTA

>8ZJD_6 Guanine nucleotide-binding protein G(i) subunit alpha-1,Guanine nucleotide-binding protein G(q) subunit alpha (chains A)
MGCTLSAEDKAAVERSKMIDRNLREDGERSRRELKLLLLGTGESGKSTFIKQMRIIHGSG
YSDEDKRGFTKLVYQNIFTAMQAMIRAMDTLKIPYKYEHNKAHAQLVREVDVEKVSAFEN
PYVDAIKSLWNDPGIQECYDRRREYQLSDSTKYYLNDLDRVADPAYLPTQQDVLRVRVPT
TGIIEYPFDLQSVIFRMVDVGAQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNEN
RMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAR
EFILKMFVDLNPDSDKIIYSHFTCSTDTENIRFVFAAVKDTILQLNLKEYNLV

Primary citation

Structural basis for hormone recognition and distinctive Gq protein coupling by the kisspeptin receptor. Shen, S., Wang, D., Liu, H. et al. Cell Rep (2024) 43:114389-114389. DOI 10.1016/j.celrep.2024.114389 · PubMed

Other PDB entries of the same protein (UniProt Q969F8 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8XGO 2.68 Å, a peptide receptor complex structure
8XGS 2.95 Å, a peptide receptor complex structure
8XGU 3.0 Å, a peptide receptor complex structure
8ZJE 3.07 Å, Cryo-EM structure of kisspeptin receptor bound to TAK-448
7YQE 3.5 Å, Structure of human SRC regulatory domains in complex with the C-terminal PRRP motifs of…

Browse structure collections

About this viewer

MolViewer shows 8ZJD 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.