9VIF: NPFFR1

Cryo-EM Structure of NPFFR1 in complex with peptide NPFF. Determined by electron microscopy at 3.19 Å resolution. Released 3 Dec 2025.

Method: Electron microscopy
Resolution: 3.19 Å
Organism: Homo sapiens
Chains: 6
Atoms: 9,038
Mol. weight: 145.87 kDa
Released: 3 Dec 2025

Explore 9VIF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9VIF contains 37 α-helices and 66 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, 3 β-strands

Element	Residues	Length	Sheet
β-strand	31-33	3	1
α-helix	40-70	31
α-helix	72-74	3
α-helix	77-103	27
α-helix	113-145	33
α-helix	151-153	3
α-helix	155-179	25
β-strand	181-191	11	1
β-strand	197-204	8	1
α-helix	213-221	9
α-helix	222-226	5
α-helix	227-244	18
α-helix	260-291	32
α-helix	292-296	5
α-helix	300-305	6
α-helix	306-310	5
α-helix	311-331	21
α-helix	335-337	3

Chain B: 12 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	34-40	7	2
α-helix	46-53	8
β-strand	185-190	6	2
β-strand	195-200	6	2
α-helix	208-211	4
α-helix	213-215	3
β-strand	220-225	6	2
α-helix	227-230	4
β-strand	233	1	3
β-strand	241	1	3
α-helix	242-254	13
β-strand	263-268	6	2
α-helix	274-280	7
α-helix	283-285	3
α-helix	296-307	12
α-helix	308-310	3
β-strand	319-323	5	2
α-helix	324-325	2
α-helix	331-351	21

Chain C: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-22	19
α-helix	23-25	3
α-helix	30-32	3
α-helix	38-39	2
β-strand	47-51	5	4
β-strand	58-63	6	5
β-strand	69-74	6	5
β-strand	78-83	6	5
β-strand	88-94	7	5
β-strand	100-105	6	6
β-strand	111-116	6	6
β-strand	121-125	5	6
β-strand	134-139	6	6
β-strand	146-151	6	7
β-strand	156-161	6	7
β-strand	165-170	6	7
β-strand	176-181	6	7
β-strand	187-192	6	8
β-strand	198-203	6	8
β-strand	207-212	6	8
β-strand	218-223	6	8
β-strand	229-232	4	9
β-strand	240-245	6	9
β-strand	250-254	5	9
β-strand	260-264	5	9
β-strand	273-278	6	10
α-helix	280-282	3
β-strand	284-289	6	10
β-strand	294-298	5	10
β-strand	304-308	5	10
β-strand	315-320	6	4
β-strand	327-331	5	4
β-strand	336-339	4	4

Chain D: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	40-51	12
α-helix	53-55	3
α-helix	61-69	9

Chain S: 2 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	11
β-strand	11	1	12
β-strand	18-24	7	11
α-helix	29-31	3
β-strand	33-39	7	13
β-strand	45-51	7	13
β-strand	58-60	3	13
β-strand	68-73	6	11
β-strand	78-83	6	11
α-helix	88-90	3
β-strand	92-99	8	13
β-strand	111	1	13
β-strand	115-117	3	13
β-strand	118	1	12
β-strand	140	1	14
β-strand	146-147	2	15
β-strand	155-160	6	16
β-strand	161	1	14
β-strand	166	1	17
β-strand	172	1	17
β-strand	174-179	6	15
β-strand	186-189	4	15
β-strand	195	1	15
β-strand	204	1	16
β-strand	208	1	16
β-strand	211-216	6	16
β-strand	226-231	6	15
β-strand	238	1	13
β-strand	243-245	3	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Neuropeptide FF receptor 1	A	protein	310	Homo sapiens	Q9GZQ6 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	B	protein	349	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C	protein	338	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	D	protein	54	Homo sapiens	P59768 (AlphaFold model)
scFv16	S	protein	248	Homo sapiens
Npff	L	protein	9	Homo sapiens

Sequence of entity 1 (A), FASTA

>9VIF_1 Neuropeptide FF receptor 1 (chains A)
NLTFSSYYQHTSPVAAMFIVAYALIFLLCMVGNTLVCFIVLKNRHMHTVTNMFILNLAVS
DLLVGIFCMPTTLVDNLITGWPFDNATCKMSGLVQGMSVSASVWTLVAIAVERFRCIVHP
FREKLTLRKALVTIAVIWALALLIMCPSAVTLTVTREEHHFMVDARNRSYPLYSCWEAWP
EKGMRRVYTTVLFSHIYLAPLALIVVMYARIARKLCQAPGPAPGGEEAADPRASRRRARV
VHMLVMVALFFTLSWLPLWALLLLIDYGQLSAPQLHLVTVYAFPFAHWLAFFNSSANPII
YGYFNENFRR

Sequence of entity 2 (B), FASTA

>9VIF_2 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains B)
SAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKNTIVKQMKIIHEAGYSEEE
CKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTAELAG
VIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTGIV
ETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHE
SMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQC
QFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 3 (C), FASTA

>9VIF_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains C)
ELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMH
WGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICS
IYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTG
HTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFA
TGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKA
DRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (D), FASTA

>9VIF_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains D)
SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF

Sequence of entity 5 (S), FASTA

>9VIF_5 scFv16 (chains S)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELK

Sequence of entity 6 (L), FASTA

>9VIF_6 NPFF (chains L)
FLFQPQRFA

Primary citation

Molecular recognition at the opioid-modulating neuropeptide FF receptor 1. Na, M., Yue, Y., Xu, K. et al. Protein Cell (2026) 17:372-377. DOI 10.1093/procel/pwaf090 · PubMed

Other PDB entries of the same protein (UniProt Q9GZQ6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9M0R 2.47 Å, Structure of neuropeptide FF receptor 1 complex with NPVF
9M2F 2.93 Å, Structure of neuropeptide FF receptor 1 complex with NPFF
9VI9 3.02 Å, Cryo-EM Structure of NPFFR1 in complex with peptide RFRP-3

Browse structure collections

About this viewer

MolViewer shows 9VIF 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.