7T6V: Human FPR2-Gi complex with fMLFII

Structure of the human FPR2-Gi complex with fMLFII. Determined by electron microscopy at 3.1 Å resolution. Released 30 Mar 2022.

Method: Electron microscopy
Resolution: 3.1 Å
Organisms: Homo sapiens, Rattus, Bos taurus
Chains: 6
Atoms: 8,949
Mol. weight: 157.26 kDa
Ligands: PLM
Released: 30 Mar 2022

Explore 7T6V in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7T6V contains 41 α-helices and 62 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: 10 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	9-32	24
β-strand	34-40	7	2
α-helix	43-52	10
β-strand	185-191	7	2
β-strand	194-200	7	2
α-helix	208-210	3
α-helix	212-215	4
β-strand	220-226	7	2
α-helix	227-229	3
α-helix	242-254	13
β-strand	263-269	7	2
α-helix	271-280	10
α-helix	283-285	3
α-helix	296-308	13
β-strand	319-323	5	2
α-helix	328-350	23

Chain B: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	6-23	18
α-helix	30-33	4
α-helix	38-39	2
β-strand	47-52	6	3
β-strand	58-63	6	4
β-strand	69-74	6	4
β-strand	78-83	6	4
β-strand	89-94	6	4
α-helix	95	1
β-strand	100-105	6	5
β-strand	111-116	6	5
β-strand	121-125	5	5
β-strand	134-139	6	5
β-strand	146-151	6	6
β-strand	156-161	6	6
β-strand	166-170	5	6
β-strand	176-180	5	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	207-212	6	7
β-strand	218-223	6	7
β-strand	229-234	6	8
β-strand	240-245	6	8
β-strand	250-254	5	8
β-strand	260-264	5	8
β-strand	276-278	3	9
β-strand	284-287	4	9
β-strand	294-298	5	9
β-strand	304-308	5	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	335-339	5	3

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 E: 6 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	11-12	2	11
β-strand	17-25	9	10
α-helix	29-31	3
β-strand	33-39	7	12
β-strand	45-51	7	12
α-helix	53-55	3
β-strand	58-60	3	12
β-strand	68-73	6	10
β-strand	78-84	7	10
α-helix	88-90	3
β-strand	92-99	8	12
β-strand	110-111	2	12
β-strand	115-117	3	12
β-strand	118-119	2	11
β-strand	128-129	2	13
β-strand	134-136	3	14
β-strand	143-147	5	15
β-strand	148-149	2	13
β-strand	154	1	16
β-strand	160	1	16
β-strand	162-167	6	14
β-strand	173-178	6	14
β-strand	182-183	2	14
α-helix	184	1
β-strand	191-196	6	15
β-strand	199-204	6	15
α-helix	209-211	3
β-strand	213-219	7	14
α-helix	225	1
β-strand	227	1	14
β-strand	231-234	4	14

Chain R: 18 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	23-47	25
α-helix	48-54	7
α-helix	56-57	2
α-helix	59-76	18
α-helix	78-86	9
α-helix	95-128	34
α-helix	130-136	7
α-helix	139-145	7
α-helix	147-156	10
α-helix	158-163	6
β-strand	165-168	4	1
β-strand	174-177	4	1
α-helix	187-206	20
α-helix	207-211	5
α-helix	212-230	19
α-helix	238-266	29
α-helix	268-274	7
α-helix	279-299	21
α-helix	300-304	5
α-helix	307-316	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
N-formyl peptide receptor 2	R	protein	390	Homo sapiens	P25090 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	A	protein	353	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	353	Rattus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C	protein	67	Bos taurus	P63212 (AlphaFold model)
scFv16	E	protein	247	Rattus
Synthetic peptide	L	protein	5	Homo

Sequence of entity 1 (R), FASTA

>7T6V_1 N-formyl peptide receptor 2 (chains R)
DYKDDDDVDMGQPGNGSAFLLAPNGSHAPDHDVTQQRDEENLYFQGASMETNFSTPLNEY
EEVSYESAGYTVLRILPLVVLGVTFVLGVLGNGLVIWVAGFRMTRTVTTICYLNLALADF
SFTATLPFLIVSMAMGEKWPFGWFLCKLIHIVVDINLFGSVFLIGFIALDRCICVLHPVW
AQNHRTVSLAMKVIVGPWILALVLTLPVFLFLTTVTIPNGDTYCTFNFASWGGTPEERLK
VAITMLTARGIIRFVIGFSLPMSIVAICYGLIAAKIHKKGMIKSSRPLRVLTAVVASFFI
CWFPFQLVALLGTVWLKEMLFYGKYKIIDILVNPTSSLAFFNSCLNPMLYVFVGQDFRER
LIHSLPTSLERALSEDSAPTNDTAANSASP

Sequence of entity 2 (A), FASTA

>7T6V_2 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains A)
GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAGY
SEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTA
ELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKT
TGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMN
RMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAA
YIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 3 (B), FASTA

>7T6V_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
HHHHHHHHMGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRT
RRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAP
SGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCA
LWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHES
DINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLA
GYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (C), FASTA

>7T6V_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains C)
ASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF
REKKFFC

Sequence of entity 5 (E), FASTA

>7T6V_5 scFv16 (chains E)
VQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYA
DTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSS
GGGGSGGGGSGGGGSSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPERFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLEL

Sequence of entity 6 (L), FASTA

>7T6V_6 Synthetic peptide (chains L)
MLFII

Ligands and cofactors

ID	Name	Formula	Copies
PLM	Palmitic acid	C16 H32 O2	1

Primary citation

Molecular recognition of formylpeptides and diverse agonists by the formylpeptide receptors FPR1 and FPR2. Zhuang, Y., Wang, L., Guo, J. et al. Nat Commun (2022) 13:1054-1054. DOI 10.1038/s41467-022-28586-0 · PubMed

Other PDB entries of the same protein (UniProt P25090 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8ZBW 2.58 Å, Cryo-EM structure of formyl peptide receptor 2/C1R receptor in complex with Gi
6LW5 2.8 Å, Crystal structure of the human formyl peptide receptor 2 in complex with WKYMVm
7WVX 2.8 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with fhumanin and Gi2
7T6U 2.9 Å, Structure of the human FPR2-Gi complex with CGEN-855A
7WVV 2.9 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with fMLFII and Gi2
7T6S 3.0 Å, Structure of the human FPR2-Gi complex with compound C43
7WVY 3.0 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with Abeta42 and Gi2
7WVW 3.1 Å, Cryo-EM structure of the human formyl peptide receptor 2 in complex with fMYFINILTL and…
6OMM 3.17 Å, Cryo-EM structure of formyl peptide receptor 2/lipoxin A4 receptor in complex with Gi
8Y62 3.2 Å, Cryo-EM structure of the C16:0 ceramide-bound FPR2-Gi complex
8Y63 3.2 Å, Cryo-EM structure of the C20:0 ceramide-bound FPR2-Gi complex
9JHJ 3.2 Å, Cryo-EM structure of the C18:0 ceramide-bound FPR2-Gi complex

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