8X0L | pdb_00008x0l

Deposited: 2023-11-04 Released: 2024-11-27
Deposition Author(s): Gao, F.G., Liu, S.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Gao, F.G., Liu, S.

To be published.

Macromolecule Content

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein	A, D [auth E], G [auth I]	162	Semliki Forest virus	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315 Go to UniProtKB: P03315
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03315
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
pike glycoprotein E2	B, E [auth F], H [auth J]	418	Semliki Forest virus	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315 Go to UniProtKB: P03315
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03315
Glycosylation
Glycosylation Sites: 2	Glycosylation Focus chain B Focus chain E [auth F] Focus chain H [auth J]
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
pike glycoprotein E1	C, F [auth G], I [auth K]	438	Semliki Forest virus	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315 Go to UniProtKB: P03315
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03315
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain C Focus chain F [auth G] Focus chain I [auth K]
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Very low-density lipoprotein receptor	J [auth H], K [auth D], L	37	Homo sapiens	Mutation(s): 0 Gene Names: VLDLR
UniProt & NIH Common Fund Data Resources
Find proteins for P98155 (Homo sapiens) Explore P98155 Go to UniProtKB: P98155
PHAROS: P98155 GTEx: ENSG00000147852
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P98155
Sequence Annotations Expand
Reference Sequence

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	M, N, O, P, Q M, N, O, P, Q, R	2		N-Glycosylation	Interactions Focus chain M Focus chain N Focus chain O Focus chain P Focus chain Q Focus chain R Interactions & Density Focus chain M Focus chain N Focus chain O Focus chain P Focus chain Q Focus chain R
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

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 T [auth G] SDF format, chain U [auth K] SDF format, chain S [auth C] MOL2 format, chain T [auth G] MOL2 format, chain U [auth K] MOL2 format, chain S [auth C] mmCIF format, chain T [auth G] mmCIF format, chain U [auth K] mmCIF format, chain S [auth C]	S [auth C], T [auth G], U [auth K]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain S [auth C] Focus chain T [auth G] Focus chain U [auth K] Interactions & Density Focus chain S [auth C] Focus chain T [auth G] Focus chain U [auth K]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain W [auth D] SDF format, chain X [auth L] SDF format, chain V [auth H] MOL2 format, chain W [auth D] MOL2 format, chain X [auth L] MOL2 format, chain V [auth H] mmCIF format, chain W [auth D] mmCIF format, chain X [auth L] mmCIF format, chain V [auth H]	V [auth H], W [auth D], X [auth L]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain V [auth H] Focus chain W [auth D] Focus chain X [auth L] Interactions & Density Focus chain V [auth H] Focus chain W [auth D] Focus chain X [auth L]