7T9T

Deposited: 2021-12-20 Released: 2023-08-16
Deposition Author(s): Manne, K., Acharya, P.
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.

Literature

Manne, K.

To be published.

Macromolecule Content

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein gp160	A, E, I	461	Human immunodeficiency virus 1	Mutation(s): 0 Gene Names: env
UniProt
Find proteins for M4M0W3 (Human immunodeficiency virus 1) Explore M4M0W3 Go to UniProtKB: M4M0W3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	M4M0W3
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein gp41	B, F, J	160	Human immunodeficiency virus 1	Mutation(s): 0 Gene Names: env
UniProt
Find proteins for Q2N0S5 (Human immunodeficiency virus 1) Explore Q2N0S5 Go to UniProtKB: Q2N0S5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q2N0S5
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CH235.12 Fab Heavy Chain	C, G, K	225	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
CH235.12 Fab Light Chain	D, H, L	213	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	M [auth a], S [auth O], Y [auth U]	4		N-Glycosylation	Interactions Focus chain M [auth a] Focus chain S [auth O] Focus chain Y [auth U] Interactions & Density Focus chain M [auth a] Focus chain S [auth O] Focus chain Y [auth U]
Glycosylation Resources
GlyTouCan: G95663PY GlyCosmos: G95663PY

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	DA [auth Z], N [auth b], R [auth N], T [auth P], X [auth T], DA [auth Z], N [auth b], R [auth N], T [auth P], X [auth T], Z [auth V]	2		N-Glycosylation	Interactions Focus chain DA [auth Z] Focus chain N [auth b] Focus chain R [auth N] Focus chain T [auth P] Focus chain X [auth T] Focus chain Z [auth V] Interactions & Density Focus chain DA [auth Z] Focus chain N [auth b] Focus chain R [auth N] Focus chain T [auth P] Focus chain X [auth T] Focus chain Z [auth V]
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Entity ID: 7
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	AA [auth W], CA [auth Y], O [auth c], Q [auth M], U [auth Q], AA [auth W], CA [auth Y], O [auth c], Q [auth M], U [auth Q], W [auth S]	3		N-Glycosylation	Interactions Focus chain AA [auth W] Focus chain CA [auth Y] Focus chain O [auth c] Focus chain Q [auth M] Focus chain U [auth Q] Focus chain W [auth S] Interactions & Density Focus chain AA [auth W] Focus chain CA [auth Y] Focus chain O [auth c] Focus chain Q [auth M] Focus chain U [auth Q] Focus chain W [auth S]
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Entity ID: 8
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-[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	BA [auth X], P [auth d], V [auth R]	6		N-Glycosylation	Interactions Focus chain BA [auth X] Focus chain P [auth d] Focus chain V [auth R] Interactions & Density Focus chain BA [auth X] Focus chain P [auth d] Focus chain V [auth R]
Glycosylation Resources
GlyTouCan: G34442SS GlyCosmos: G34442SS GlyGen: G34442SS

Small Molecules

Ligands 1 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 EA [auth A] SDF format, chain FA [auth A] SDF format, chain GA [auth E] SDF format, chain HA [auth E] SDF format, chain IA [auth I] SDF format, chain JA [auth I] MOL2 format, chain EA [auth A] MOL2 format, chain FA [auth A] MOL2 format, chain GA [auth E] MOL2 format, chain HA [auth E] MOL2 format, chain IA [auth I] MOL2 format, chain JA [auth I]	EA [auth A] FA [auth A] GA [auth E] HA [auth E] IA [auth I] EA [auth A], FA [auth A], GA [auth E], HA [auth E], IA [auth I], JA [auth I]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain EA [auth A] Focus chain FA [auth A] Focus chain GA [auth E] Focus chain HA [auth E] Focus chain IA [auth I] Focus chain JA [auth I] Interactions & Density Focus chain EA [auth A] Focus chain FA [auth A] Focus chain GA [auth E] Focus chain HA [auth E] Focus chain IA [auth I] Focus chain JA [auth I]