7YJ4: Insulin-like peptide INSL5 A chain

Cryo-EM structure of the INSL5-bound human relaxin family peptidereceptor 4 (RXFP4)-Gi complex. Determined by electron microscopy at 3.19 Å resolution. Released 1 Mar 2023.

Method: Electron microscopy
Resolution: 3.19 Å
Organisms: Homo sapiens, Bos taurus, synthetic construct
Chains: 7
Atoms: 8,985
Mol. weight: 158.94 kDa
Released: 1 Mar 2023

Explore 7YJ4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7YJ4 contains 42 α-helices and 68 β-strands across 7 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: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	3-6	4
α-helix	17-20	4

Chain B: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	11-20	10

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	9-23	15
α-helix	30-39	10
α-helix	42-44	3
α-helix	53-55	3

Chain I: 10 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	12-30	19
β-strand	34-39	6	1
α-helix	46-52	7
β-strand	186-192	7	1
β-strand	195-201	7	1
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-227	7	1
α-helix	228-230	3
α-helix	243-255	13
β-strand	264-270	7	1
α-helix	272-281	10
α-helix	284-286	3
α-helix	299-310	12
β-strand	320	1	1
β-strand	323-324	2	1
α-helix	332-352	21

Chain R: 17 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	36-38	3
α-helix	43-63	21
α-helix	77-102	26
α-helix	110-140	31
α-helix	141-145	5
α-helix	155-172	18
α-helix	174-179	6
β-strand	184	1	2
β-strand	189	1	2
α-helix	197-201	5
α-helix	202-209	8
α-helix	210-214	5
α-helix	215-232	18
α-helix	241-274	34
α-helix	284-287	4
α-helix	290-299	10
α-helix	301-306	6
α-helix	307-311	5
α-helix	314-323	10

Chain S: 4 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	3
β-strand	11-12	2	4
β-strand	17-23	7	3
α-helix	29-31	3
β-strand	33-39	7	5
β-strand	45-51	7	5
α-helix	53-55	3
β-strand	58-60	3	5
β-strand	69-73	5	3
β-strand	78-84	7	3
α-helix	88-90	3
β-strand	92-95	4	5
β-strand	97	1	6
β-strand	98-99	2	5
β-strand	111	1	6
β-strand	115-117	3	5
β-strand	118-119	2	4
β-strand	140-141	2	7
β-strand	147-148	2	8
β-strand	156-161	6	7
β-strand	166	1	9
β-strand	172	1	9
β-strand	174-179	6	8
β-strand	186-189	4	8
β-strand	195	1	8
β-strand	203-205	3	7
β-strand	211-216	6	7
α-helix	221-223	3
β-strand	225-231	7	8
β-strand	239	1	8
β-strand	243-246	4	8

Chain T: 4 helices, 32 β-strands

Element	Residues	Length	Sheet
α-helix	4-24	21
α-helix	30-33	4
α-helix	34-36	3
α-helix	38-39	2
β-strand	47-52	6	10
β-strand	58-63	6	11
β-strand	69-74	6	11
β-strand	78-83	6	11
β-strand	89-94	6	11
β-strand	100	1	12
β-strand	104-105	2	13
β-strand	111-114	4	13
β-strand	116	1	12
β-strand	121-125	5	13
β-strand	134-139	6	13
β-strand	146-151	6	14
β-strand	156-161	6	14
β-strand	165-170	6	14
β-strand	176-181	6	14
β-strand	187	1	15
β-strand	191-192	2	16
β-strand	198-202	5	16
β-strand	203	1	15
β-strand	207-212	6	16
β-strand	220-223	4	16
β-strand	229-234	6	17
β-strand	240-245	6	17
β-strand	249-254	6	17
β-strand	260-265	6	17
β-strand	276-278	3	18
β-strand	284-287	4	18
β-strand	295-298	4	18
β-strand	304	1	18
β-strand	315-320	6	10
β-strand	327-331	5	10
β-strand	335-339	5	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Insulin-like peptide INSL5 A chain	A	protein	21	Homo sapiens	Q9Y5Q6 (AlphaFold model)
Insulin-like peptide INSL5 B chain	B	protein	24	Homo sapiens	Q9Y5Q6 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Bos taurus	P63212 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-2	I	protein	355	Homo sapiens	P04899 (AlphaFold model)
Relaxin-3 receptor 2	R	protein	374	Homo sapiens	Q8TDU9 (AlphaFold model)
scFv16	S	protein	248	synthetic construct
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	T	protein	345	Homo sapiens	P62871

Sequence of entity 1 (A), FASTA

>7YJ4_1 Insulin-like peptide INSL5 A chain (chains A)
QDLQTLCCTDGCSMTDLSALC

Sequence of entity 2 (B), FASTA

>7YJ4_2 Insulin-like peptide INSL5 B chain (chains B)
KESVRLCGLEYIRTVIYICASSRW

Sequence of entity 3 (G), FASTA

>7YJ4_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (I), FASTA

>7YJ4_4 Guanine nucleotide-binding protein G(i) subunit alpha-2 (chains I)
MGCTVSAEDKAAAERSKMIDKNLREDGEKAAREVKLLLLGAGESGKNTIVKQMKIIHEDG
YSEEECRQYRAVVYSNTIQSIMAIVKAMGNLQIDFADPSRADDARQLFALSCTAEEQGVL
PDDLSGVIRRLWADHGVQACFGRSREYQLNDSAAYYLNDLERIAQSDYIPTQQDVLRTRV
KTTGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEE
MNRMHASMKLFDSICNNKWFTDTSIILFLNKKDLFEEKITHSPLTICFPEYTGANKYDEA
ASYIQSKFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 5 (R), FASTA

>7YJ4_5 Relaxin-3 receptor 2 (chains R)
MPTLNTSASPPTFFWANASGGSVLSADDAPMPVKFLALRLMVALAYGLVGAIGLLGNLAV
LWVLSNCARRAPGPPSDTFVFNLALADLGLALTLPFWAAESALDFHWPFGGALCKMVLTA
TVLNVYASIFLITALSVARYWVVAMAAGPGTHLSLFWARIATLAVWAAAALVTVPTAVFG
VEGEVCGVRLCLLRFPSRYWLGAYQLQRVVLAFMVPLGVITTSYLLLLAFLQRRQRRRQD
SRVVARSVRILVASFFLCWFPNHVVTLWGVLVKFDLVPWNSTFYTIQTYVFPVTTCLAHS
NSCLNPVLYCLLRREPRQALAGTFRDLRLRLWPQGGGWVQQVALKQVGRRWVASNPRESR
PSTLLTNLDRGTPG

Sequence of entity 6 (S), FASTA

>7YJ4_6 scFv16 (chains S)
MVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
AGGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQ
RPGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTF
GAGTKLEL

Sequence of entity 7 (T), FASTA

>7YJ4_7 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains T)
MGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHL
AKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACG
GLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQ
QTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFF
PNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCN
VWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Primary citation

Ligand recognition mechanism of the human relaxin family peptide receptor 4 (RXFP4). Chen, Y., Zhou, Q., Wang, J. et al. Nat Commun (2023) 14:492-492. DOI 10.1038/s41467-023-36182-z · PubMed

Other PDB entries of the same protein (UniProt Q9Y5Q6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2K1V R3/I5 relaxin chimera
2KBC Solution structure of human insulin-like peptide 5 (INSL5)

Browse structure collections

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