9DMV: Human muscle nAChR with fab9-bound

Human muscle nAChR with fab9-bound. Determined by electron microscopy at 2.13 Å resolution. Released 9 Apr 2025.

Method: Electron microscopy
Resolution: 2.13 Å
Organism: Homo sapiens
Chains: 7
Atoms: 20,424
Mol. weight: 338.87 kDa
Ligands: NAG, CLR, POV
Released: 9 Apr 2025

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

Secondary structure: helices and β-sheets

9DMV contains 97 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: 16 helices, 15 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
β-strand	198-209	12	2
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	320-323	4
β-strand	327	1	3
α-helix	370-436	67

Chain B: 16 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	3-12	10
β-strand	29-44	16	13
β-strand	49-61	13	13
α-helix	63-65	3
α-helix	69-72	4
β-strand	77-80	4	13
α-helix	82-84	3
β-strand	90-92	3	14
β-strand	95	1	13
α-helix	106-107	2
β-strand	108-111	4	13
β-strand	115-118	4	13
β-strand	121-127	7	13
β-strand	139-148	10	14
β-strand	156-160	5	13
β-strand	162	1	15
β-strand	168	1	15
β-strand	171	1	16
β-strand	173	1	13
β-strand	185-189	5	14
β-strand	191	1	16
β-strand	192-197	6	14
β-strand	207-218	12	14
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	461-463	3

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	4
β-strand	49-61	13	4
α-helix	69-72	4
β-strand	77-81	5	4
α-helix	82-84	3
β-strand	90-92	3	5
β-strand	95	1	4
β-strand	101	1	5
α-helix	106	1
β-strand	107-111	5	4
β-strand	115-118	4	4
β-strand	121-127	7	4
β-strand	139-148	10	5
β-strand	156-160	5	4
β-strand	166	1	4
α-helix	170-173	4
β-strand	176-190	15	5
β-strand	193-209	17	5
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	320-323	4
α-helix	370-434	65

Chain D: 18 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	2-8	7
α-helix	9-14	6
β-strand	31-46	16	9
β-strand	51-63	13	9
α-helix	65-67	3
α-helix	71-74	4
β-strand	79-82	4	9
α-helix	84-86	3
β-strand	93-94	2	10
β-strand	97	1	9
α-helix	108-109	2
β-strand	110-113	4	9
β-strand	117-120	4	9
β-strand	123-129	7	9
β-strand	141-149	9	10
β-strand	158-162	5	9
β-strand	164-167	4	11
β-strand	170-173	4	11
β-strand	176	1	12
β-strand	178	1	9
α-helix	184-187	4
β-strand	190-194	5	10
β-strand	196	1	12
β-strand	197-201	5	10
β-strand	213-223	11	10
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	409-472	64

Chain E: 16 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	2-11	10
β-strand	29-44	16	6
β-strand	49-66	18	6
α-helix	69-71	3
β-strand	77-81	5	6
α-helix	82-84	3
β-strand	90-92	3	7
β-strand	95	1	6
β-strand	107-111	5	6
β-strand	113-118	6	6
β-strand	121-127	7	6
β-strand	139-148	10	7
β-strand	156-160	5	6
β-strand	171	1	8
β-strand	173	1	6
β-strand	180	1	6
β-strand	185-189	5	7
β-strand	191	1	8
β-strand	192-195	4	7
β-strand	211-220	10	7
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
β-strand	317	1	3
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
α-helix	471-473	3

Chain F: 7 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	34-38	5	17
β-strand	42-43	2	18
β-strand	48-56	9	17
β-strand	65-72	8	19
β-strand	79-85	7	19
β-strand	90-92	3	19
β-strand	100-105	6	17
β-strand	110-116	7	17
α-helix	120-122	3
β-strand	124-134	11	19
β-strand	139-145	7	19
α-helix	146	1
β-strand	149-151	3	19
β-strand	152-153	2	18
β-strand	159	1	20
α-helix	160-161	2
β-strand	162-166	5	21
β-strand	177-187	11	21
β-strand	188	1	20
β-strand	193-196	4	22
α-helix	197-199	3
β-strand	201	1	22
β-strand	205-207	3	21
α-helix	208-210	3
β-strand	211-212	2	21
β-strand	218-227	10	21
α-helix	228-231	4
β-strand	236-242	7	22
α-helix	243-245	3
β-strand	247-253	7	22

Chain G: 7 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	23-26	4	23
β-strand	29-32	4	19
β-strand	38-44	7	23
β-strand	52-57	6	19
β-strand	64-68	5	19
β-strand	72-73	2	19
α-helix	74	1
β-strand	81-86	6	23
β-strand	89-94	6	23
α-helix	99-101	3
β-strand	104-109	6	19
α-helix	115	1
β-strand	116-117	2	19
β-strand	121-125	5	19
β-strand	130	1	24
β-strand	133-137	5	25
α-helix	138-140	3
α-helix	141-144	4
β-strand	148-158	11	25
β-strand	159	1	24
β-strand	164-169	6	26
β-strand	172-173	2	26
β-strand	178-182	5	25
α-helix	183-186	4
β-strand	192-201	10	25
α-helix	202-205	4
β-strand	210-216	7	26
β-strand	224-229	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	502	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)
Fab9 heavy chain	F	protein	266	Homo sapiens
Fab9 light chain	G	protein	233	Homo sapiens

Sequence of entity 1 (A, C), FASTA

>9DMV_1 Acetylcholine receptor subunit alpha (chains A, C)
MEPWPLLLLFSLCSAGLVLGSEHETRLVAKLFKDYSSVVRPVEDHRQVVEVTVGLQLIQL
INVDEVNQIVTTNVRLKQQWVDYNLKWNPDDYGGVKKIHIPSEKIWRPDLVLYNNADGDF
AIVKFTKVLLQYTGHITWTPPAIFKSYCEIIVTHFPFDEQNCSMKLGTWTYDGSVVAINP
ESDQPDLSNFMESGEWVIKESRGWKHSVTYSCCPDTPYLDITYHFVMQRLPLYFIVNVII
PCLLFSFLTGLVFYLPTDSGEKMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLF
TMVFVIASIIITVIVINTHHRSPSTHVMPNWVRKVFIDTIPNIMFFSTMKRPSREKQDKK
IFTEDIDISDISGKPGPPPMGFHSPLIKHPEVKSAIEGIKYIAETMKSDQESNNAAAEWK
YVAMVMDHILLGVFMLVCIIGTLAVFAGRLIELNQQG

Sequence of entity 2 (E), FASTA

>9DMV_2 Acetylcholine receptor subunit beta (chains E)
MTPGALLMLLGALGAPLAPGVRGSEAEGRLREKLFSGYDSSVRPAREVGDRVRVSVGLIL
AQLISLNEKDEEMSTKVYLDLEWTDYRLSWDPAEHDGIDSLRITAESVWLPDVVLLNNND
GNFDVALDISVVVSSDGSVRWQPPGIYRSSCSIQVTYFPFDWQNCTMVFSSYSYDSSEVS
LQTGLGPDGQGHQEIHIHEGTFIENGQWEIIHKPSRLIQPPGDPRGGREGQRQEVIFYLI
IRRKPLFYLVNVIAPCILITLLAIFVFYLPPDAGEKMGLSIFALLTLTVFLLLLADKVPE
TSLSVPIIIKYLMFTMVLVTFSVILSVVVLNLHHRSPHTHQMPLWVRQIFIHKLPLYLRL
KRPKPERDLMPEPPHCSSPGSGWGRGTDEYFIRKPPSDFLFPKPNRFQPELSAPDLRRFI
DGPNRAVALLPELREVVSSISYIARQLQEQEDHDALKEDWQFVAMVVDRLFLWTFIIFTS
VGTLVIFLDATYHLPPPDPFPS

Sequence of entity 3 (D), FASTA

>9DMV_3 Acetylcholine receptor subunit delta (chains D)
MEGPVLTLGLLAALAVCGSWGLNEEERLIRHLFQEKGYNKELRPVAHKEESVDVALALTL
SNLISLKEVEETLTTNVWIEHGWTDNRLKWNAEEFGNISVLRLPPDMVWLPEIVLENNND
GSFQISYSCNVLVYHYGFVYWLPPAIFRSSCPISVTYFPFDWQNCSLKFSSLKYTAKEIT
LSLKQDAKENRTYPVEWIIIDPEGFTENGEWEIVHRPARVNVDPRAPLDSPSRQDITFYL
IIRRKPLFYIINILVPCVLISFMVNLVFYLPADSGEKTSVAISVLLAQSVFLLLISKRLP
ATSMAIPLIGKFLLFGMVLVTMVVVICVIVLNIHFRTPSTHVLSEGVKKLFLETLPELLH
MSRPAEDGPSPGALVRRSSSLGYISKAEEYFLLKSRSDLMFEKQSERHGLARRLTTARRP
PASSEQAQQELFNELKPAVDGANFIVNHMRDQNNYNEEKDSWNRVARTVDRLCLFVVTPV
MVVGTAWIFLQGVYNQPPPQPFPGDPYSYNVQDKRFI

Sequence of entity 4 (B), FASTA

>9DMV_4 Acetylcholine receptor subunit epsilon (chains B)
MARAPLGVLLLLGLLGRGVGKNEELRLYHHLFNNYDPGSRPVREPEDTVTISLKVTLTNL
ISLNEKEETLTTSVWIGIDWQDYRLNYSKDDFGGIETLRVPSELVWLPEIVLENNIDGQF
GVAYDANVLVYEGGSVTWLPPAIYRSVCAVEVTYFPFDWQNCSLIFRSQTYNAEEVEFTF
AVDNDGKTINKIDIDTEAYTENGEWAIDFCPGVIRRHHGGATDGPGETDVIYSLIIRRKP
LFYVINIIVPCVLISGLVLLAYFLPAQAGGQKCTVSINVLLAQTVFLFLIAQKIPETSLS
VPLLGRFLIFVMVVATLIVMNCVIVLNVSQRTPTTHAMSPRLRHVLLELLPRLLGSPPPP
EAPRAASPPRRASSVGLLLRAEELILKKPRSELVFEGQRHRQGTWTAAFCQSLGAAAPEV
RCCVDAVNFVAESTRDQEATGEEVSDWVRMGNALDNICFWAALVLFSVGSSLIFLGAYFN
RVPDLPYAPCIQP

Sequence of entity 5 (F), FASTA

>9DMV_5 Fab9 heavy chain (chains F)
MDSKGSSQKGSRLLLLLVVSNLLLCQGVVSAQVQLQESGPRLVKPSQTLSLTCTVSGGSV
TRGNYYWTWIRQPAGKELEWIGHIYISGRTNFNPSLKSRVSISVDTSKNQFSLKLTSVTV
ADTAVYYCAREREVIVDRRRWLDPWGQGILVTVSSASTKGPSVFPLAPSSKSTSGGTAAL
GCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNV
NHKPSNTKVDKKVEPKSCGSHHHHHH

Sequence of entity 6 (G), FASTA

>9DMV_6 Fab9 light chain (chains G)
MGWSCIILFLVATATGVHSDIVMTQSPSSLSASIGDRVTITCRASHNISRYLSWFQQRPG
KAPKLLIYAASSLQSGVPSRFSGSGSGTDYTLTISNLHPEDFATYFCQQSYSTPLIFGQG
TKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQE
SVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Ligands and cofactors

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

Primary citation

Structure of human muscle AChR with fab9-bound. Li, H., Hibbs, R.E. To be published.

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
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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