RCSB Protein Data Bank - RCSB PDB - 3NGB Structure Summary

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Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120

DOI:10.2210/pdb3ngb/pdb

3NGB

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Primary Citation

Related Citations in PDB Entry (REMARK 1) Hide

Molecular Description

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Classification:	Viral Protein/immune System
Structure Weight:	363539.61

Molecule:

Envelope glycoprotein gp160

Polymer:

Type:

protein

Length:

353

Chains:

A, D, G, I

Fragment:

UNP RESIDUES 43-122, 201-303, 325-486

Organism

Human immunodeficiency virus 1

Gene Name

env

UniProtKB:

| | Q0ED31

Molecule:

Antigen binding fragment of heavy chain: Antibody VRC01

Polymer:

Type:

protein

Length:

224

Chains:

B, E, H, J

Organism

Homo sapiens

Molecule:

Antigen binding fragment of light chain: Antibody VRC01

Polymer:

Type:

protein

Length:

210

Chains:

C, F, K, L

Organism

Homo sapiens

Source

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Polymer: 1

Scientific Name:

Human immunodeficiency virus 1

Taxonomy

Expression System:

Homo sapiens

Polymer: 2

Scientific Name:

Homo sapiens

Taxonomy

Expression System:

Homo sapiens

Polymer: 3

Scientific Name:

Homo sapiens

Taxonomy

Expression System:

Homo sapiens

Polymer: 6

Scientific Name:

Synthetic construct

Taxonomy

Polymer: 8

Scientific Name:

Synthetic construct

Taxonomy

Ligand Chemical Component

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Identifier	Formula	Name	Interactions
BGC Search Download	C₆ H₁₂ O₆	BETA-D-GLUCOSE		Ligand Explorer
BMA Search Download	C₆ H₁₂ O₆	BETA-D-MANNOSE		Ligand Explorer
MAN Search Download	C₆ H₁₂ O₆	ALPHA-D-MANNOSE		Ligand Explorer
NAG Search Download	C₈ H₁₅ N O₆	N-ACETYL-D-GLUCOSAMINE		Ligand Explorer
TRS Search Download	C₄ H₁₂ N O₃	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL		Ligand Explorer

External Domain Annotations Hide
Pfam Classification: 9 Domains - data from Pfam
Structural Biology Knowledgebase Data Hide

Data in orange boxes are gathered from external resources (when available).

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Biological Assembly 1

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Biological assembly 1 assigned by authors

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Deposition Summary

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Authors: Zhou, T., Kwong, P.D.

Deposition:	2010-06-11
Release:	2010-07-07
Last Modified (REVDAT):	2010-09-01

Revision History Hide

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2011-07-13
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Experimental Details

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Method: X-RAY DIFFRACTION
Exp. Data:
Structure Factors

Unit Cell:
	Length [Å]	Angles [°]
	a = 108.63	α = 90.00
	b = 98.28	β = 99.68
	c = 205.26	γ = 90.00

Molecule of the Month Hide
Epidermal Growth Factor

Nanobodies

Antibodies

Hemagglutinin