9DMT: Human muscle nAChR with fab7-bound

Human muscle nAChR with fab7-bound. Determined by electron microscopy at 2.18 Å resolution. Released 9 Apr 2025.

Method: Electron microscopy
Resolution: 2.18 Å
Organism: Homo sapiens
Chains: 7
Atoms: 20,464
Mol. weight: 342.28 kDa
Ligands: POV, NAG, CLR
Released: 9 Apr 2025

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

Secondary structure: helices and β-sheets

9DMT contains 96 α-helices and 123 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: 16 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	176-190	15	2
β-strand	193-209	17	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	242-263	22
α-helix	273-299	27
α-helix	310-312	3
α-helix	313-319	7
α-helix	320-323	4
α-helix	370-435	66

Chain B: 17 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	77-80	4	12
α-helix	82-84	3
β-strand	90-92	3	13
β-strand	95	1	12
α-helix	106-107	2
β-strand	108-111	4	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
β-strand	185-189	5	13
β-strand	191	1	15
β-strand	192-197	6	13
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	248-250	3
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	461-463	3

Chain C: 15 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
β-strand	29-44	16	3
β-strand	49-61	13	3
α-helix	69-72	4
β-strand	77-81	5	3
α-helix	82-84	3
β-strand	90-92	3	4
β-strand	95	1	3
β-strand	101	1	4
β-strand	107-111	5	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	310-313	4
α-helix	314-319	6
α-helix	320-322	3
α-helix	370-434	65

Chain D: 17 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	2-9	8
α-helix	10-14	5
β-strand	31-46	16	8
β-strand	51-68	18	8
α-helix	71-73	3
β-strand	79-82	4	8
β-strand	93-94	2	9
β-strand	97	1	8
α-helix	109	1
β-strand	110-113	4	8
β-strand	115-120	6	8
β-strand	123-129	7	8
β-strand	141-149	9	9
β-strand	158-162	5	8
β-strand	164-167	4	10
β-strand	170-173	4	10
β-strand	176	1	11
β-strand	178	1	8
α-helix	184-187	4
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	324-327	4
α-helix	328-333	6
α-helix	334-337	4
α-helix	340-343	4
α-helix	409-472	64

Chain E: 18 helices, 17 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
α-helix	20-21	2
α-helix	27-28	2
β-strand	29-44	16	5
β-strand	49-66	18	5
α-helix	69-72	4
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	321-324	4
α-helix	325-330	6
α-helix	331-334	4
α-helix	408-468	61
α-helix	471-473	3

Chain F: 8 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	34-38	5	16
β-strand	41-43	3	17
β-strand	48-56	9	16
α-helix	60-62	3
β-strand	64-70	7	17
β-strand	76-82	7	17
β-strand	89-91	3	17
α-helix	93-95	3
β-strand	99-104	6	16
β-strand	109-115	7	16
α-helix	119-121	3
β-strand	123-130	8	17
α-helix	131-133	3
β-strand	147-150	4	17
β-strand	154-158	5	17
β-strand	164	1	18
β-strand	167-171	5	19
β-strand	183-192	10	19
β-strand	193	1	18
β-strand	198-200	3	20
α-helix	202-204	3
β-strand	211-212	2	19
α-helix	213-215	3
β-strand	216-217	2	19
β-strand	223-231	9	19
α-helix	233-235	3
β-strand	242-247	6	20
β-strand	252-257	6	20
α-helix	258	1

Chain G: 5 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	23-26	4	21
β-strand	29-32	4	22
β-strand	38-44	7	21
β-strand	52-57	6	22
β-strand	64-68	5	22
β-strand	72-73	2	22
β-strand	81-86	6	21
β-strand	89-94	6	21
α-helix	99-101	3
β-strand	104-110	7	22
β-strand	114-116	3	22
α-helix	117-119	3
β-strand	120-124	5	22
β-strand	129	1	23
β-strand	132-136	5	24
α-helix	137-139	3
α-helix	140-144	5
β-strand	147-157	11	24
β-strand	158	1	23
β-strand	164-168	5	25
β-strand	172	1	25
β-strand	177-181	5	24
β-strand	191-200	10	24
α-helix	201-206	6
β-strand	209-214	6	25
β-strand	223-228	6	25

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)
Fab7 heavy chain	F	protein	295	Homo sapiens
Fab7 light chain	G	protein	232	Homo sapiens

Sequence of entity 1 (A, C), FASTA

>9DMT_1 Acetylcholine receptor subunit alpha (chains A, C)
MEPWPLLLLFSLCSAGLVLGSEHETRLVAKLFKDYSSVVRPVEDHRQVVEVTVGLQLIQL
INVDEVNQIVTTNVRLKQQWVDYNLKWNPDDYGGVKKIHIPSEKIWRPDLVLYNNADGDF
AIVKFTKVLLQYTGHITWTPPAIFKSYCEIIVTHFPFDEQNCSMKLGTWTYDGSVVAINP
ESDQPDLSNFMESGEWVIKESRGWKHSVTYSCCPDTPYLDITYHFVMQRLPLYFIVNVII
PCLLFSFLTGLVFYLPTDSGEKMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLF
TMVFVIASIIITVIVINTHHRSPSTHVMPNWVRKVFIDTIPNIMFFSTMKRPSREKQDKK
IFTEDIDISDISGKPGPPPMGFHSPLIKHPEVKSAIEGIKYIAETMKSDQESNNAAAEWK
YVAMVMDHILLGVFMLVCIIGTLAVFAGRLIELNQQG

Sequence of entity 2 (E), FASTA

>9DMT_2 Acetylcholine receptor subunit beta (chains E)
MTPGALLMLLGALGAPLAPGVRGSEAEGRLREKLFSGYDSSVRPAREVGDRVRVSVGLIL
AQLISLNEKDEEMSTKVYLDLEWTDYRLSWDPAEHDGIDSLRITAESVWLPDVVLLNNND
GNFDVALDISVVVSSDGSVRWQPPGIYRSSCSIQVTYFPFDWQNCTMVFSSYSYDSSEVS
LQTGLGPDGQGHQEIHIHEGTFIENGQWEIIHKPSRLIQPPGDPRGGREGQRQEVIFYLI
IRRKPLFYLVNVIAPCILITLLAIFVFYLPPDAGEKMGLSIFALLTLTVFLLLLADKVPE
TSLSVPIIIKYLMFTMVLVTFSVILSVVVLNLHHRSPHTHQMPLWVRQIFIHKLPLYLRL
KRPKPERDLMPEPPHCSSPGSGWGRGTDEYFIRKPPSDFLFPKPNRFQPELSAPDLRRFI
DGPNRAVALLPELREVVSSISYIARQLQEQEDHDALKEDWQFVAMVVDRLFLWTFIIFTS
VGTLVIFLDATYHLPPPDPFPSR

Sequence of entity 3 (D), FASTA

>9DMT_3 Acetylcholine receptor subunit delta (chains D)
MEGPVLTLGLLAALAVCGSWGLNEEERLIRHLFQEKGYNKELRPVAHKEESVDVALALTL
SNLISLKEVEETLTTNVWIEHGWTDNRLKWNAEEFGNISVLRLPPDMVWLPEIVLENNND
GSFQISYSCNVLVYHYGFVYWLPPAIFRSSCPISVTYFPFDWQNCSLKFSSLKYTAKEIT
LSLKQDAKENRTYPVEWIIIDPEGFTENGEWEIVHRPARVNVDPRAPLDSPSRQDITFYL
IIRRKPLFYIINILVPCVLISFMVNLVFYLPADSGEKTSVAISVLLAQSVFLLLISKRLP
ATSMAIPLIGKFLLFGMVLVTMVVVICVIVLNIHFRTPSTHVLSEGVKKLFLETLPELLH
MSRPAEDGPSPGALVRRSSSLGYISKAEEYFLLKSRSDLMFEKQSERHGLARRLTTARRP
PASSEQAQQELFNELKPAVDGANFIVNHMRDQNNYNEEKDSWNRVARTVDRLCLFVVTPV
MVVGTAWIFLQGVYNQPPPQPFPGDPYSYNVQDKRFI

Sequence of entity 4 (B), FASTA

>9DMT_4 Acetylcholine receptor subunit epsilon (chains B)
MARAPLGVLLLLGLLGRGVGKNEELRLYHHLFNNYDPGSRPVREPEDTVTISLKVTLTNL
ISLNEKEETLTTSVWIGIDWQDYRLNYSKDDFGGIETLRVPSELVWLPEIVLENNIDGQF
GVAYDANVLVYEGGSVTWLPPAIYRSVCAVEVTYFPFDWQNCSLIFRSQTYNAEEVEFTF
AVDNDGKTINKIDIDTEAYTENGEWAIDFCPGVIRRHHGGATDGPGETDVIYSLIIRRKP
LFYVINIIVPCVLISGLVLLAYFLPAQAGGQKCTVSINVLLAQTVFLFLIAQKIPETSLS
VPLLGRFLIFVMVVATLIVMNCVIVLNVSQRTPTTHAMSPRLRHVLLELLPRLLGSPPPP
EAPRAASPPRRASSVGLLLRAEELILKKPRSELVFEGQRHRQGTWTAAFCQSLGAAAPEV
RCCVDAVNFVAESTRDQEATGEEVSDWVRMGNALDNICFWAALVLFSVGSSLIFLGAYFN
RVPDLPYAPCIQP

Sequence of entity 5 (F), FASTA

>9DMT_5 Fab7 heavy chain (chains F)
MDSKGSSQKGSRLLLLLVVSNLLLCQGVVSAEVQLVESGGGLVKPGGSLRLSCAASGFTF
SGYWMHWVRQAPGKGLVWVSHINGDGSSTTYADSVKGRFTISRDNAKNTLYLQMNALRAE
DTAVYYCTRDVGSYGLESRYLTYVNWFDPWGQGTLVTVSSASTKGPSVFPLAPSSKSTSG
GTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQT
YICNVNHKPSNTKVDKKVEPKSCGSDYKDHDGDYKDHDIDYKDDDDKHHHHHHHH

Sequence of entity 6 (G), FASTA

>9DMT_6 Fab7 light chain (chains G)
MGWSCIILFLVATATGVHSDIQMTQSPSTLSASVGDRVTITCRASQSISSWLAWFQQKPG
QAPKLLIYKASSLESGVPSRFSGSGSGTEFSLTISSLQPDDFATYYCQQYNTYWTFGQGT
KVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQES
VTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Ligands and cofactors

ID	Name	Formula	Copies
POV	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl…	C42 H82 N O8 P	4
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	2
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
9DMQ 2.06 Å, Human muscle nAChR with fab3-bound
9DMV 2.13 Å, Human muscle nAChR with fab9-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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