6DZM

Deposited: 2018-07-05 Released: 2018-09-12
Deposition Author(s): Murin, C.D., Ward, A.B.
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 2.0 of the entry. See complete history.

Macromolecule Content

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bundibugyo virus GP1	A, E [auth B], I [auth C]	311	Bundibugyo virus	Mutation(s): 0 Gene Names: GP, DF49_53413gpGP, DH33_45404gpGP
UniProt
Find proteins for B8XCN0 (Bundibugyo ebolavirus) Explore B8XCN0 Go to UniProtKB: B8XCN0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B8XCN0
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Bundibugyo virus GP2	B [auth D], F [auth E], J [auth F]	177	Bundibugyo virus	Mutation(s): 0 Gene Names: GP, DF49_53413gpGP, DH33_45404gpGP
UniProt
Find proteins for B8XCN0 (Bundibugyo ebolavirus) Explore B8XCN0 Go to UniProtKB: B8XCN0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B8XCN0
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody ADI-15878 Fab, light chain	C [auth H], G [auth K], K [auth L]	106	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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(by identity cutoff) | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody ADI-15878 Fab, heavy chain	D [auth G], H [auth I], L [auth J]	120	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)-2-acetamido-2-deoxy-beta-D-glucopyranose	M, O, Q	2		N-Glycosylation	Interactions Focus chain M Focus chain O Focus chain Q Interactions & Density Focus chain M Focus chain O Focus chain Q
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	3D 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	N, P, R	5		N-Glycosylation	Interactions Focus chain N Focus chain P Focus chain R Interactions & Density Focus chain N Focus chain P Focus chain R
Glycosylation Resources
GlyTouCan: G22768VO GlyCosmos: G22768VO GlyGen: G22768VO

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain S [auth A] SDF format, chain T [auth D] SDF format, chain U [auth B] SDF format, chain V [auth E] SDF format, chain W [auth C] SDF format, chain X [auth F] MOL2 format, chain S [auth A] MOL2 format, chain T [auth D] MOL2 format, chain U [auth B] MOL2 format, chain V [auth E] MOL2 format, chain W [auth C] MOL2 format, chain X [auth F]	S [auth A] T [auth D] U [auth B] V [auth E] W [auth C] S [auth A], T [auth D], U [auth B], V [auth E], W [auth C], X [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain S [auth A] Focus chain T [auth D] Focus chain U [auth B] Focus chain V [auth E] Focus chain W [auth C] Focus chain X [auth F] Interactions & Density Focus chain S [auth A] Focus chain T [auth D] Focus chain U [auth B] Focus chain V [auth E] Focus chain W [auth C] Focus chain X [auth F]

Experimental Data & Validation

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	2.1

Entry History & Funding Information

Deposition Author(s):

Murin, C.D.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	U19 AI109762

Version 1.0: 2018-09-12
Type: Initial release
Version 1.1: 2018-09-19
Changes: Data collection, Database references
Version 1.2: 2019-12-18
Changes: Author supporting evidence, Other
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary