9DWE: Hemagglutinin H5 A/Texas/37/2024

Cryo-EM structure of hemagglutinin H5 A/Texas/37/2024 in complex with LSTa and antibody CR9114. Determined by electron microscopy at 2.8 Å resolution. Released 4 Dec 2024.

Method: Electron microscopy
Resolution: 2.8 Å
Organisms: Homo sapiens, Influenza A virus
Chains: 9
Atoms: 17,397
Mol. weight: 273.51 kDa
Ligands: NAG
Released: 4 Dec 2024

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

Secondary structure: helices and β-sheets

9DWE contains 53 α-helices and 222 β-strands across 9 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: 17 helices, 48 β-strands

Element	Residues	Length	Sheet
α-helix	9-11	3
β-strand	12-17	6	7
β-strand	18	1	8
β-strand	25-26	2	9
β-strand	34-35	2	9
β-strand	36	1	10
β-strand	39-41	3	11
β-strand	43-44	2	12
β-strand	51-54	4	13
β-strand	56	1	13
β-strand	59-60	2	14
β-strand	64	1	15
α-helix	66-71	6
α-helix	74-79	6
β-strand	87-89	3	14
β-strand	95	1	15
β-strand	100-102	3	16
α-helix	105-111	7
α-helix	112-114	3
β-strand	115-122	8	16
α-helix	125A-126	3
β-strand	130-131	2	17
β-strand	136-141	6	18
β-strand	144-146	3	18
β-strand	151-153	3	16
α-helix	154	1
β-strand	155-156	2	17
β-strand	157	1	19
β-strand	160	1	19
α-helix	162-163	2
β-strand	164-169	6	20
β-strand	176-184	9	16
α-helix	188-195	8
β-strand	202-205	4	20
β-strand	210-213	4	20
β-strand	223	1	21
β-strand	226	1	21
β-strand	229-237	9	16
α-helix	238	1
β-strand	242-247	6	20
β-strand	251-254	4	16
β-strand	256-262	8	16
β-strand	267-269	3	14
α-helix	272-273	2
β-strand	274-279	6	13
β-strand	281-282	2	22
β-strand	287-288	2	22
β-strand	294-295	2	12
β-strand	302-303	2	22
α-helix	306	1
β-strand	307-308	2	12
β-strand	315-317	3	11
β-strand	321	1	10
β-strand	338	1	23
β-strand	342	1	23
β-strand	346	1	8
β-strand	354-360	7	7
β-strand	363-368	6	7
α-helix	370-390	21
α-helix	407-458	52
α-helix	459-461	3
β-strand	462-464	3	7
β-strand	469-472	4	7
α-helix	478-485	8
α-helix	491-505	15

Chain B: 16 helices, 48 β-strands

Element	Residues	Length	Sheet
β-strand	12-17	6	30
β-strand	18	1	31
β-strand	25-26	2	32
β-strand	34-35	2	32
β-strand	36	1	33
β-strand	39-41	3	34
β-strand	43-44	2	35
β-strand	51-54	4	36
β-strand	56	1	36
β-strand	59-60	2	37
β-strand	64	1	38
α-helix	66-71	6
α-helix	74-79	6
β-strand	87-89	3	37
β-strand	95	1	38
β-strand	100-102	3	39
α-helix	105-111	7
α-helix	112-114	3
β-strand	115-122	8	39
α-helix	125A-126	3
β-strand	130-131	2	40
β-strand	136-141	6	41
β-strand	144-146	3	41
β-strand	151-153	3	39
α-helix	154	1
β-strand	155-156	2	40
β-strand	157	1	42
β-strand	160	1	42
α-helix	162-163	2
β-strand	164-169	6	43
β-strand	176-184	9	39
α-helix	188-194	7
β-strand	202-205	4	43
β-strand	210-213	4	43
β-strand	223	1	44
β-strand	226	1	44
β-strand	229-237	9	39
α-helix	238	1
β-strand	242-247	6	43
β-strand	251-254	4	39
β-strand	256-262	8	39
β-strand	267-269	3	37
α-helix	272-273	2
β-strand	274-279	6	36
β-strand	281-282	2	45
β-strand	288	1	45
β-strand	294-295	2	35
β-strand	302-303	2	45
α-helix	306	1
β-strand	307-308	2	35
β-strand	315-317	3	34
β-strand	321	1	33
β-strand	338	1	46
β-strand	342	1	46
β-strand	346	1	31
β-strand	354-360	7	30
β-strand	363-368	6	30
α-helix	370-390	21
α-helix	407-458	52
α-helix	459-461	3
β-strand	462-464	3	30
β-strand	469-472	4	30
α-helix	478-485	8
α-helix	495-505	11

Chain C: 16 helices, 48 β-strands

Element	Residues	Length	Sheet
β-strand	12-14	3	53
β-strand	15-17	3	54
β-strand	18	1	55
β-strand	25-26	2	56
β-strand	34-35	2	56
β-strand	36	1	57
β-strand	39-41	3	58
β-strand	43-44	2	59
β-strand	51-54	4	60
β-strand	56	1	60
β-strand	59-60	2	61
β-strand	64	1	62
α-helix	66-71	6
α-helix	74-79	6
β-strand	87-89	3	61
β-strand	95	1	62
β-strand	100-102	3	63
α-helix	105-111	7
β-strand	115-122	8	63
α-helix	125A-126	3
β-strand	130-131	2	64
β-strand	136-141	6	65
β-strand	144-146	3	65
β-strand	151-153	3	63
α-helix	154	1
β-strand	155-156	2	64
β-strand	157	1	66
β-strand	160	1	66
α-helix	162-163	2
β-strand	164-169	6	67
β-strand	176-184	9	63
α-helix	188-194	7
β-strand	202-205	4	67
β-strand	210-213	4	67
β-strand	223	1	68
β-strand	226	1	68
β-strand	229-237	9	63
α-helix	238	1
β-strand	242-247	6	67
β-strand	251-254	4	63
β-strand	256-262	8	63
β-strand	267-269	3	61
α-helix	272-273	2
β-strand	274-279	6	60
β-strand	281-282	2	69
β-strand	294-295	2	59
β-strand	302-303	2	69
α-helix	306	1
β-strand	307-308	2	59
β-strand	315-317	3	58
β-strand	321	1	57
β-strand	338	1	70
β-strand	342	1	70
β-strand	346	1	55
β-strand	354-358	5	54
β-strand	365-368	4	54
α-helix	370-390	21
α-helix	404-406	3
α-helix	407-458	52
α-helix	459-461	3
β-strand	462-464	3	53
β-strand	469-472	4	53
α-helix	478-485	8
α-helix	491-505	15

Chains H, I and J: 1 helix, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	5
β-strand	10-12	3	6
β-strand	18-25	8	5
β-strand	34-39	6	6
β-strand	45-52	8	6
β-strand	56-59	4	6
β-strand	67-72	6	5
β-strand	77-82	6	5
α-helix	84-86	3
β-strand	88-94	7	6
β-strand	102-103	2	6
β-strand	104	1	5
β-strand	107-111	5	6

Chains L and M: 0 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	1
β-strand	5	1	2
β-strand	9-13	4	3
β-strand	19-24	6	2
β-strand	33-38	6	3
β-strand	45-48	4	3
β-strand	49	1	4
β-strand	53	1	4
β-strand	62-67	6	2
β-strand	70-75	6	2
β-strand	85-92	8	3
β-strand	95B-98	4	3
β-strand	99	1	1
β-strand	102-106	5	3

Chain N: 1 helix, 14 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	47
β-strand	5	1	48
β-strand	9-13	4	49
β-strand	19-24	6	48
β-strand	33-38	6	49
β-strand	45-48	4	49
β-strand	49	1	50
β-strand	53	1	50
β-strand	62-67	6	48
β-strand	70-75	6	48
α-helix	80-82	3
β-strand	85-92	8	49
β-strand	95B-98	4	49
β-strand	99	1	47
β-strand	102-106	5	49

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
CR9114 Fab light chain	L, M, N	protein	110	Homo sapiens
CR9114 Fab Fab heavy chain	H, I, J	protein	120	Homo sapiens
Hemagglutinin	A, B, C	protein	572	Influenza A virus	A0A8E4ZAK5

Sequence of entity 1 (L, M, N), FASTA

>9DWE_1 CR9114 Fab light chain (chains L, M, N)
SALTQPPAVSGTPGQRVTISCSGSDSNIGRRSVNWYQQFPGTAPKLLIYSNDQRPSVVPD
RFSGSKSGTSASLAISGLQSEDEAEYYCAAWDDSLKGAVFGGGTQLTVLG

Sequence of entity 2 (H, I, J), FASTA

>9DWE_2 CR9114 Fab Fab heavy chain (chains H, I, J)
QVQLVQSGAEVKKPGSSVKVSCKSSGGTSNNYAISWVRQAPGQGLDWMGGISPIFGSTAY
AQKFQGRVTISADIFSNTAYMELNSLTSEDTAVYFCARHGNYYYYSGMDVWGQGTTVTVS

Sequence of entity 3 (A, B, C), FASTA

>9DWE_3 Hemagglutinin (chains A, B, C)
MENIVLLLAIVSLVKSDQICIGYHANNSTEQVDTIMEKNVTVTHAQDILEKTHNGKLCDL
NGVKPLILKDCSVAGWLLGNPMCDEFIRVPEWSYIVERANPANDLCYPGSLNDYEELKHM
LSRINHFEKIQIIPKSSWPNHETSLGVSAACPYQGAPSFFRNVVWLIKKNDAYPTIKISY
NNTNREDLLILWGIHHSNNAEEQTNLYKNPITYISVGTSTLNQRLAPKIATRSQVNGQRG
RMDFFWTILKPDDAIHFESNGNFIAPEYAYKIVKKGDSTIMKSGVEYGHCNTKCQTPVGA
INSSMPFHNIHPLTIGECPKYVKSNKLVLATGLRNSPLREKRRKRGLFGAIAGFIEGGWQ
GMVDGWYGYHHSNEQGSGYAADKESTQKAIDGVTNKVNSIIDKMNTQFEAVGREFNNLER
RIENLNKKMEDGFLDVWTYNAELLVLMENERTLDFHDSNVKNLYDKVRLQLRDNAKELGN
GCFEFYHKCDNECMESVRNGTYDYPQYSEEARLKREEISGSGYIPEAPRDGQAYVRKDGE
WVLLSTFLGSGLNDIFEAQKIEWHEGHHHHHH

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	15

Primary citation

A single mutation in dairy cow-associated H5N1 viruses increases receptor binding breadth. Good, M.R., Fernandez-Quintero, M.L., Ji, W. et al. Nat Commun (2024) 15:10768-10768. DOI 10.1038/s41467-024-54934-3 · PubMed

Other PDB entries of the same protein (UniProt A0A8E4ZAK5), best resolution first:

8X2D 2.48 Å, Crystal structure of H5 hemagglutinin from swan-infecting H5N8 influenza virus complexed…
8X2C 2.59 Å, Crystal structure of H5 hemagglutinin from swan-infecting H5N8 influenza virus
8X29 2.61 Å, Crystal structure of H5 hemagglutinin from swan-infecting H5N8 influenza virus in…
8X2F 2.62 Å, Cryo-EM structure of H5 hemagglutinin from human-infecting H5N8 influenza virus in…
9EKF 2.68 Å, CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab 65C6 and an auto glycan…
9DIO 2.7 Å, Crystal structure of H5 hemagglutinin Q226L mutant from the influenza virus…
8ZDV 2.8 Å, The cryoEM structure of H5N8 HA in an auto inhibited state
9JN0 2.84 Å, Cryo-EM structure of a human-infecting bovine influenza H5N1 hemagglutinin complexed…
9JMZ 2.91 Å, Cryo-EM structure of a human-infecting bovine influenza H5N1 hemagglutinin complexed…
9N7T 3.01 Å, H5 hemagglutinin (A/Jiangsu/NJ210/2023) in complex with central stem-targeting Fab ST14
8X27 3.04 Å, Crystal structure of H5 hemagglutinin from human-infecting H5N8 influenza virus in…
9MQ2 3.06 Å, Cryo-EM map of H5 HA (A/Jiangsu/NJ210/2023) in complex with monoclonal fab 12G1

Browse structure collections

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