9DMQ: Human muscle nAChR with fab3-bound

Human muscle nAChR with fab3-bound. Determined by electron microscopy at 2.06 Å resolution. Released 9 Apr 2025.

Method: Electron microscopy
Resolution: 2.06 Å
Organism: Homo sapiens
Chains: 7
Atoms: 20,637
Mol. weight: 341.66 kDa
Ligands: ACH, NAG, POV, CLR
Released: 9 Apr 2025

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

Secondary structure: helices and β-sheets

9DMQ contains 103 α-helices and 127 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: 18 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
β-strand	29-44	16	1
β-strand	49-61	13	1
α-helix	69-72	4
β-strand	77-80	4	1
α-helix	82-84	3
β-strand	90-92	3	2
β-strand	95	1	1
β-strand	101	1	2
α-helix	106-107	2
β-strand	108-111	4	1
β-strand	115-118	4	1
β-strand	121-127	7	1
β-strand	139-148	10	2
β-strand	156-160	5	1
β-strand	166	1	1
α-helix	170-173	4
β-strand	176-188	13	2
α-helix	197	1
β-strand	198-209	12	2
α-helix	212-214	3
α-helix	215-219	5
α-helix	220-229	10
α-helix	230-234	5
α-helix	237-239	3
α-helix	242-262	21
α-helix	273-299	27
α-helix	307-309	3
α-helix	310-312	3
α-helix	313-319	7
α-helix	320-323	4
α-helix	370-435	66

Chain B: 18 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	3-12	10
β-strand	29-44	16	12
β-strand	49-61	13	12
α-helix	63-65	3
α-helix	69-72	4
β-strand	77-81	5	12
α-helix	82-84	3
β-strand	90-92	3	13
β-strand	95	1	12
α-helix	106	1
β-strand	107-111	5	12
β-strand	115-118	4	12
β-strand	121-127	7	12
β-strand	139-148	10	13
β-strand	156-160	5	12
β-strand	162	1	14
β-strand	168	1	14
β-strand	171	1	15
β-strand	173	1	12
α-helix	176-178	3
β-strand	185-189	5	13
β-strand	191	1	15
β-strand	192-197	6	13
α-helix	201-203	3
β-strand	207-218	12	13
α-helix	221-223	3
α-helix	224-228	5
α-helix	229-236	8
α-helix	237-243	7
α-helix	252-271	20
α-helix	283-309	27
α-helix	320-323	4
α-helix	324-329	6
α-helix	330-333	4
α-helix	398-458	61
α-helix	468-469	2

Chain C: 17 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
α-helix	28	1
β-strand	29-44	16	3
β-strand	49-61	13	3
α-helix	69-72	4
β-strand	77-80	4	3
α-helix	82-84	3
β-strand	90-92	3	4
β-strand	95	1	3
β-strand	101	1	4
α-helix	106-107	2
β-strand	108-111	4	3
β-strand	115-118	4	3
β-strand	121-127	7	3
β-strand	139-148	10	4
β-strand	156-160	5	3
β-strand	166	1	3
α-helix	170-173	4
β-strand	176-188	13	4
β-strand	198-209	12	4
α-helix	212-214	3
α-helix	215-219	5
α-helix	220-230	11
α-helix	231-234	4
α-helix	237-239	3
α-helix	242-263	22
α-helix	273-299	27
α-helix	310-312	3
α-helix	313-319	7
α-helix	320-322	3
α-helix	370-435	66

Chain D: 17 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	2-8	7
α-helix	9-14	6
β-strand	31-46	16	8
β-strand	51-68	18	8
α-helix	71-74	4
β-strand	79-82	4	8
α-helix	84-86	3
β-strand	92-94	3	9
β-strand	97	1	8
α-helix	108-109	2
β-strand	110-113	4	8
β-strand	115-120	6	8
β-strand	123-129	7	8
β-strand	141-150	10	9
β-strand	158-162	5	8
β-strand	164-165	2	10
β-strand	172-173	2	10
β-strand	176	1	11
β-strand	178	1	8
β-strand	190-194	5	9
β-strand	196	1	11
β-strand	197-201	5	9
β-strand	213-223	11	9
α-helix	226-228	3
α-helix	229-233	5
α-helix	234-241	8
α-helix	242-248	7
α-helix	251-253	3
α-helix	256-275	20
α-helix	287-313	27
α-helix	324-328	5
α-helix	329-333	5
α-helix	334-338	5
α-helix	340-342	3
α-helix	409-472	64

Chain E: 16 helices, 17 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
β-strand	29-44	16	5
β-strand	49-66	18	5
α-helix	69-71	3
β-strand	77-81	5	5
α-helix	82-84	3
β-strand	90-92	3	6
β-strand	95	1	5
β-strand	107-111	5	5
β-strand	113-118	6	5
β-strand	121-127	7	5
β-strand	139-148	10	6
β-strand	156-160	5	5
β-strand	171	1	7
β-strand	173	1	5
β-strand	180	1	5
β-strand	185-189	5	6
β-strand	191	1	7
β-strand	192-195	4	6
α-helix	196-198	3
β-strand	211-220	10	6
α-helix	223-225	3
α-helix	226-230	5
α-helix	231-242	12
α-helix	243-245	3
α-helix	248-250	3
α-helix	253-272	20
α-helix	284-310	27
α-helix	318-320	3
α-helix	321-324	4
α-helix	325-330	6
α-helix	331-334	4
α-helix	408-468	61

Chain F: 8 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	34-38	5	16
β-strand	42-43	2	17
β-strand	49-56	8	16
α-helix	60-62	3
β-strand	63-70	8	18
β-strand	76-82	7	18
β-strand	88-90	3	18
β-strand	98-103	6	16
β-strand	108-113	6	16
α-helix	118-120	3
β-strand	122-131	10	18
β-strand	132-135	4	19
α-helix	138-140	3
β-strand	142-145	4	19
β-strand	154	1	18
β-strand	158-160	3	18
β-strand	161-162	2	17
β-strand	168	1	20
α-helix	169-170	2
β-strand	171-175	5	21
β-strand	186-196	11	21
β-strand	197	1	20
β-strand	202-205	4	22
α-helix	206-208	3
β-strand	210	1	22
β-strand	214-216	3	21
α-helix	217-219	3
β-strand	220-221	2	21
β-strand	227-236	10	21
α-helix	237-240	4
β-strand	246-251	6	22
α-helix	252-254	3
β-strand	256-261	6	22

Chain G: 9 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	23-25	3	23
β-strand	29-32	4	18
β-strand	38-44	7	23
α-helix	49-51	3
β-strand	53-58	6	18
β-strand	65-69	5	18
β-strand	73-74	2	18
α-helix	75	1
β-strand	82-87	6	23
β-strand	90-95	6	23
α-helix	100-102	3
β-strand	105-110	6	18
α-helix	117	1
β-strand	118-119	2	18
β-strand	123-127	5	18
α-helix	128	1
β-strand	132	1	24
α-helix	133-134	2
β-strand	135-139	5	25
α-helix	140-142	3
α-helix	143-147	5
β-strand	150-160	11	25
β-strand	161	1	24
β-strand	166-171	6	26
β-strand	174-175	2	26
β-strand	180-184	5	25
β-strand	194-203	10	25
α-helix	204-208	5
β-strand	212-218	7	26
β-strand	226-231	6	26

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Acetylcholine receptor subunit alpha	A, C	protein	457	Homo sapiens	P02708 (AlphaFold model)
Acetylcholine receptor subunit beta	E	protein	503	Homo sapiens	P11230 (AlphaFold model)
Acetylcholine receptor subunit delta	D	protein	517	Homo sapiens	Q07001 (AlphaFold model)
Acetylcholine receptor subunit epsilon	B	protein	493	Homo sapiens	Q04844 (AlphaFold model)
Fab3 heavy chain	F	protein	275	Homo sapiens
Fab3 light chain	G	protein	235	Homo sapiens

Sequence of entity 1 (A, C), FASTA

>9DMQ_1 Acetylcholine receptor subunit alpha (chains A, C)
MEPWPLLLLFSLCSAGLVLGSEHETRLVAKLFKDYSSVVRPVEDHRQVVEVTVGLQLIQL
INVDEVNQIVTTNVRLKQQWVDYNLKWNPDDYGGVKKIHIPSEKIWRPDLVLYNNADGDF
AIVKFTKVLLQYTGHITWTPPAIFKSYCEIIVTHFPFDEQNCSMKLGTWTYDGSVVAINP
ESDQPDLSNFMESGEWVIKESRGWKHSVTYSCCPDTPYLDITYHFVMQRLPLYFIVNVII
PCLLFSFLTGLVFYLPTDSGEKMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLF
TMVFVIASIIITVIVINTHHRSPSTHVMPNWVRKVFIDTIPNIMFFSTMKRPSREKQDKK
IFTEDIDISDISGKPGPPPMGFHSPLIKHPEVKSAIEGIKYIAETMKSDQESNNAAAEWK
YVAMVMDHILLGVFMLVCIIGTLAVFAGRLIELNQQG

Sequence of entity 2 (E), FASTA

>9DMQ_2 Acetylcholine receptor subunit beta (chains E)
MTPGALLMLLGALGAPLAPGVRGSEAEGRLREKLFSGYDSSVRPAREVGDRVRVSVGLIL
AQLISLNEKDEEMSTKVYLDLEWTDYRLSWDPAEHDGIDSLRITAESVWLPDVVLLNNND
GNFDVALDISVVVSSDGSVRWQPPGIYRSSCSIQVTYFPFDWQNCTMVFSSYSYDSSEVS
LQTGLGPDGQGHQEIHIHEGTFIENGQWEIIHKPSRLIQPPGDPRGGREGQRQEVIFYLI
IRRKPLFYLVNVIAPCILITLLAIFVFYLPPDAGEKMGLSIFALLTLTVFLLLLADKVPE
TSLSVPIIIKYLMFTMVLVTFSVILSVVVLNLHHRSPHTHQMPLWVRQIFIHKLPLYLRL
KRPKPERDLMPEPPHCSSPGSGWGRGTDEYFIRKPPSDFLFPKPNRFQPELSAPDLRRFI
DGPNRAVALLPELREVVSSISYIARQLQEQEDHDALKEDWQFVAMVVDRLFLWTFIIFTS
VGTLVIFLDATYHLPPPDPFPSR

Sequence of entity 3 (D), FASTA

>9DMQ_3 Acetylcholine receptor subunit delta (chains D)
MEGPVLTLGLLAALAVCGSWGLNEEERLIRHLFQEKGYNKELRPVAHKEESVDVALALTL
SNLISLKEVEETLTTNVWIEHGWTDNRLKWNAEEFGNISVLRLPPDMVWLPEIVLENNND
GSFQISYSCNVLVYHYGFVYWLPPAIFRSSCPISVTYFPFDWQNCSLKFSSLKYTAKEIT
LSLKQDAKENRTYPVEWIIIDPEGFTENGEWEIVHRPARVNVDPRAPLDSPSRQDITFYL
IIRRKPLFYIINILVPCVLISFMVNLVFYLPADSGEKTSVAISVLLAQSVFLLLISKRLP
ATSMAIPLIGKFLLFGMVLVTMVVVICVIVLNIHFRTPSTHVLSEGVKKLFLETLPELLH
MSRPAEDGPSPGALVRRSSSLGYISKAEEYFLLKSRSDLMFEKQSERHGLARRLTTARRP
PASSEQAQQELFNELKPAVDGANFIVNHMRDQNNYNEEKDSWNRVARTVDRLCLFVVTPV
MVVGTAWIFLQGVYNQPPPQPFPGDPYSYNVQDKRFI

Sequence of entity 4 (B), FASTA

>9DMQ_4 Acetylcholine receptor subunit epsilon (chains B)
MARAPLGVLLLLGLLGRGVGKNEELRLYHHLFNNYDPGSRPVREPEDTVTISLKVTLTNL
ISLNEKEETLTTSVWIGIDWQDYRLNYSKDDFGGIETLRVPSELVWLPEIVLENNIDGQF
GVAYDANVLVYEGGSVTWLPPAIYRSVCAVEVTYFPFDWQNCSLIFRSQTYNAEEVEFTF
AVDNDGKTINKIDIDTEAYTENGEWAIDFCPGVIRRHHGGATDGPGETDVIYSLIIRRKP
LFYVINIIVPCVLISGLVLLAYFLPAQAGGQKCTVSINVLLAQTVFLFLIAQKIPETSLS
VPLLGRFLIFVMVVATLIVMNCVIVLNVSQRTPTTHAMSPRLRHVLLELLPRLLGSPPPP
EAPRAASPPRRASSVGLLLRAEELILKKPRSELVFEGQRHRQGTWTAAFCQSLGAAAPEV
RCCVDAVNFVAESTRDQEATGEEVSDWVRMGNALDNICFWAALVLFSVGSSLIFLGAYFN
RVPDLPYAPCIQP

Sequence of entity 5 (F), FASTA

>9DMQ_5 Fab3 heavy chain (chains F)
MDSKGSSQKGSRLLLLLVVSNLLLCQGVVSAEVQLVQWGAGLLKPSETLSLTCTVFGGSL
RANYWSWIRQAPGKGLEWIGEINHNGHTNYNPSLKSRATISVDTSKNQFSLRLSSVTAAD
TALYYCARGSRFFYYGAGIYYNARRDRDNYFDPWGQGTLVTVSSASTKGPSVFPLAPSSK
STSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSL
GTQTYICNVNHKPSNTKVDKKVEPKSCGSHHHHHH

Sequence of entity 6 (G), FASTA

>9DMQ_6 Fab3 light chain (chains G)
MGWSCIILFLVATATGVHSDIVMTQSPGTLSLSPGERATLSCRASQHVTGNCLAWYQQKP
DQAPRLLIYDASTRATGVPDRFSGSGSRTDFTLTISRLEPEDFAVYHCQQYGDSPPWTFG
QGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNS
QESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Ligands and cofactors

ID	Name	Formula	Copies
ACH	Acetylcholine	C7 H16 N O2	1
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	1
POV	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl…	C42 H82 N O8 P	4
CLR	Cholesterol	C27 H46 O	6

Primary citation

Autoimmune mechanisms elucidated through muscle acetylcholine receptor structures. Li, H., Pham, M.C., Teng, J. et al. Cell (2025) 188:2390-2406.e20. DOI 10.1016/j.cell.2025.03.004 · PubMed

Other PDB entries of the same protein (UniProt P02708 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9DMS 1.92 Å, Human muscle nAChR with fab6-bound
9DMG 2.05 Å, Human muscle nAChR apo state
9DMH 2.06 Å, Human muscle nAChR ACh-bound state
9DMV 2.13 Å, Human muscle nAChR with fab9-bound
9DMT 2.18 Å, Human muscle nAChR with fab7-bound
9DMJ 2.19 Å, Human muscle nAChR with two fab1b-bound
9YER 2.19 Å, Human muscle nAChR SCCMS eT264P ACh bound
9YE8 2.22 Å, Human muscle nAChR SCCMS eL269F ACh bound
4ZJS 2.23 Å, Crystal structure of a chimeric acetylcholine binding protein from Aplysia Californica…
9DML 2.24 Å, Human muscle nAChR with fab2-bound
9YEI 2.36 Å, Human muscle nAChR SCCMS eL269F ACh, Reboxetine bound (lower 1)
9YET 2.36 Å, Human muscle nAChR SCCMS eT264P ACh, Reboxetine bound

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