9OM5 | pdb_00009om5

Deposited: 2025-05-13 Released: 2026-05-27
Deposition Author(s): Cheng, J., Cale, E.M., Longo, N., Sutton, M.S., Lei, H., Huang, R., Morton, A.J., Lang, Z.C., Morano, N.C., Roark, R.S., Becker, J.E., Tsybovsky, Y., Li, N., Zhang, B., Du, H., Rubin, S., Shapiro, L., Pierson, T.C., Doria-Rose, N.A., Kwong, P.D., Zhou, T.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Macromolecule Content

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	A, C, E	348	Influenza A virus	Mutation(s): 0 Gene Names: HA
UniProt
Find proteins for A0A5P1MU07 (Influenza A virus) Explore A0A5P1MU07 Go to UniProtKB: A0A5P1MU07
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A5P1MU07
Glycosylation
Glycosylation Sites: 6	Glycosylation Focus chain A Focus chain C Focus chain E
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	B, D, F	223	Influenza A virus	Mutation(s): 0 Gene Names: HA
UniProt
Find proteins for A0A2P1E3C0 (Influenza A virus) Explore A0A2P1E3C0 Go to UniProtKB: A0A2P1E3C0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2P1E3C0
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain B Focus chain D Focus chain F
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
MEDI8852 Fab heavy chain	G, I, K	227	Homo sapiens	Mutation(s): 0

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
MEDI8852 Fab light chain	H, J, L	206	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
VRC35 Fab heavy chain	M [auth a] O [auth c] Q [auth e] S [auth g] U [auth i] M [auth a], O [auth c], Q [auth e], S [auth g], U [auth i], W [auth k]	222	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
VRC35 Fab light chain	N [auth b] P [auth d] R [auth f] T [auth h] V [auth j] N [auth b], P [auth d], R [auth f], T [auth h], V [auth j], X [auth l]	219	Homo sapiens	Mutation(s): 0

Entity ID: 7
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	BA [auth P], DA [auth R], FA [auth T], GA [auth U], IA [auth W], BA [auth P], DA [auth R], FA [auth T], GA [auth U], IA [auth W], KA [auth Y], MA [auth m], NA [auth n], PA [auth p], RA [auth r], Y [auth M], Z [auth N]	3		N-Glycosylation	Interactions Focus chain BA [auth P] Focus chain DA [auth R] Focus chain FA [auth T] Focus chain GA [auth U] Focus chain IA [auth W] Focus chain KA [auth Y] Focus chain MA [auth m] Focus chain NA [auth n] Focus chain PA [auth p] Focus chain RA [auth r] Focus chain Y [auth M] Focus chain Z [auth N] Interactions & Density Focus chain BA [auth P] Focus chain DA [auth R] Focus chain FA [auth T] Focus chain GA [auth U] Focus chain IA [auth W] Focus chain KA [auth Y] Focus chain MA [auth m] Focus chain NA [auth n] Focus chain PA [auth p] Focus chain RA [auth r] Focus chain Y [auth M] Focus chain Z [auth N]

Entity ID: 8
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	AA [auth O], CA [auth Q], EA [auth S], JA [auth X], LA [auth Z], AA [auth O], CA [auth Q], EA [auth S], JA [auth X], LA [auth Z], QA [auth q], SA [auth s]	5		N-Glycosylation	Interactions Focus chain AA [auth O] Focus chain CA [auth Q] Focus chain EA [auth S] Focus chain JA [auth X] Focus chain LA [auth Z] Focus chain QA [auth q] Focus chain SA [auth s] Interactions & Density Focus chain AA [auth O] Focus chain CA [auth Q] Focus chain EA [auth S] Focus chain JA [auth X] Focus chain LA [auth Z] Focus chain QA [auth q] Focus chain SA [auth s]

Entity ID: 9
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	HA [auth V], OA [auth o]	4		N-Glycosylation	Interactions Focus chain HA [auth V] Focus chain OA [auth o] Interactions & Density Focus chain HA [auth V] Focus chain OA [auth o]

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG (Subject of Investigation/LOI) Query on NAG Download:Ideal Coordinates CCD File SDF format, chain TA [auth B] SDF format, chain UA [auth D] SDF format, chain VA [auth F] MOL2 format, chain TA [auth B] MOL2 format, chain UA [auth D] MOL2 format, chain VA [auth F] mmCIF format, chain TA [auth B] mmCIF format, chain UA [auth D] mmCIF format, chain VA [auth F]	TA [auth B], UA [auth D], VA [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain TA [auth B] Focus chain UA [auth D] Focus chain VA [auth F] Interactions & Density Focus chain TA [auth B] Focus chain UA [auth D] Focus chain VA [auth F]
MAN (Subject of Investigation/LOI) Query on MAN Download:Ideal Coordinates CCD File SDF format, chain WA [auth e] SDF format, chain XA [auth i] MOL2 format, chain WA [auth e] MOL2 format, chain XA [auth i] mmCIF format, chain WA [auth e] mmCIF format, chain XA [auth i]	WA [auth e], XA [auth i]	alpha-D-mannopyranose C₆ H₁₂ O₆ WQZGKKKJIJFFOK-PQMKYFCFSA-N		Interactions Focus chain WA [auth e] Focus chain XA [auth i] Interactions & Density Focus chain WA [auth e] Focus chain XA [auth i]