8XGO: A peptide receptor complex structure

a peptide receptor complex structure. Determined by electron microscopy at 2.68 Å resolution. Released 30 Oct 2024.

Method: Electron microscopy
Resolution: 2.68 Å
Organisms: Homo sapiens, synthetic construct
Chains: 6
Atoms: 9,045
Mol. weight: 160.07 kDa
Released: 30 Oct 2024

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

Secondary structure: helices and β-sheets

8XGO contains 36 α-helices and 64 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: 15 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	40-44	5
α-helix	46-69	24
α-helix	71-73	3
α-helix	76-101	26
α-helix	112-145	34
α-helix	149-152	4
α-helix	156-174	19
α-helix	175-180	6
β-strand	181-184	4	1
β-strand	190-193	4	1
α-helix	198-209	12
α-helix	210-214	5
α-helix	215-235	21
α-helix	246-287	42
α-helix	299-320	22
α-helix	321-325	5
α-helix	328-335	8

Chain B: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	9-24	16
α-helix	30-33	4
α-helix	38-39	2
β-strand	47-52	6	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	120-125	6	4
β-strand	134-140	7	4
β-strand	146-153	8	5
β-strand	156-161	6	5
β-strand	166-169	4	5
β-strand	176-180	5	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	252-254	3	7
β-strand	259-262	4	7
α-helix	272	1
β-strand	273-278	6	8
β-strand	284-289	6	8
β-strand	296-298	3	8
β-strand	303-306	4	8
β-strand	315-320	6	2
β-strand	327-331	5	2
β-strand	335-339	5	2

Chain C: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	10-23	14
α-helix	30-43	14
α-helix	53-55	3

Chain D: 2 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	20-24	5	9
β-strand	29	1	10
β-strand	35-42	8	9
α-helix	46-48	3
β-strand	50-52	3	11
β-strand	55-56	2	12
β-strand	62-63	2	12
β-strand	66-68	3	11
β-strand	75-77	3	11
β-strand	85-90	6	9
β-strand	95-100	6	9
β-strand	109-111	3	12
β-strand	114-116	3	11
β-strand	128	1	11
β-strand	132-134	3	12
β-strand	136	1	10
α-helix	154-156	3
β-strand	157-158	2	13
β-strand	163	1	14
β-strand	172-178	7	13
β-strand	183	1	15
β-strand	189	1	15
β-strand	191-196	6	14
β-strand	202-207	6	14
β-strand	211-212	2	14
β-strand	220-224	5	13
β-strand	228-233	6	13
β-strand	242-248	7	14
β-strand	256	1	14
β-strand	260-262	3	14

Chain E: 11 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	35-39	5	16
α-helix	46-56	11
β-strand	184-189	6	16
β-strand	194-199	6	16
α-helix	207-209	3
α-helix	211-214	4
β-strand	219-225	7	16
α-helix	226-228	3
α-helix	241-246	6
α-helix	249-253	5
β-strand	262-268	7	16
α-helix	270-276	7
α-helix	282-285	4
α-helix	298-308	11
β-strand	318-322	5	16
α-helix	330-349	20

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
KiSS-1 receptor	A	protein	398	Homo sapiens	Q969F8 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	357	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C	protein	71	Homo sapiens	P59768 (AlphaFold model)
scfv16	D	protein	261	Homo sapiens
Guanine nucleotide-binding protein G(q) subunit alpha	E	protein	353	Homo sapiens	P50148 (AlphaFold model)
TAK448	F	protein	11	synthetic construct

Sequence of entity 1 (A), FASTA

>8XGO_1 KiSS-1 receptor (chains A)
MHTVATSGPNASWGAPANASGCPGCGANASDGPVPSPRAVDAWLVPLFFAALMLLGLVGN
SLVIYVICRHKPMRTVTNFYIANLAATDVTFLLCCVPFTALLYPLPGWVLGDFMCKFVNY
IQQVSVQATCATLTAMSVDRWYVTVFPLRALHRRTPRLALAVSLSIWVGSAAVSAPVLAL
HRLSPGPRAYCSEAFPSRALERAFALYNLLALYLLPLLATCACYAAMLRHLGRVAVRPAP
ADSALQGQVLAERAGAVRAKVSRLVAAVVLLFAACWGPIQLFLVLQALGPAGSWHPRSYA
AYALKTWAHCMSYSNSALNPLLYAFLGSHFRQAFRRVCPCAPRRPRRPRRPGPSDPAAPH
AELLRLGSHPAPARAQKPGSSGLAARGLCVLGEDNAPL

Sequence of entity 2 (B), FASTA

>8XGO_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
HHHHHHLEVLFQGPGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRI
QMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTC
AYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGD
TTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFT
GHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGR
LLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (C), FASTA

>8XGO_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains C)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FFEKKFFCAIL

Sequence of entity 4 (D), FASTA

>8XGO_4 scfv16 (chains D)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKGSLEVLFQGPAAA

Sequence of entity 5 (E), FASTA

>8XGO_5 Guanine nucleotide-binding protein G(q) subunit alpha (chains E)
MGCTLSAEDKAAVERSKMIERQLRRDKRDARRELKLLLLGTGESGKSTFIKQMRIIHGSG
YSDEDKRGFTKLVYQNIFTAMQAMIRAMDTLKIPYKYEHNKAHAQLVREVDVEKVSAFEN
PYVDAIKSLWNDPGIQECYDRRREYQLSDSTKYYLNDLDRVADPAYLPTQQDVLRVRVPT
TGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNEN
RMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAR
EFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNLKEYNLV

Sequence of entity 6 (F), FASTA

>8XGO_6 TAK448 (chains F)
XYXNTFXLRWX

Primary citation

Structural basis for the ligand recognition and G protein subtype selectivity of kisspeptin receptor. Wu, Z., Chen, G., Qiu, C. et al. Sci Adv (2024) 10:eadn7771-eadn7771. DOI 10.1126/sciadv.adn7771 · PubMed

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

8XGS 2.95 Å, a peptide receptor complex structure
8XGU 3.0 Å, a peptide receptor complex structure
8ZJD 3.06 Å, Cryo-EM structure of kisspeptin receptor bound to KP-10
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…

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