RCSB Protein Data Bank - RCSB PDB - 2QAD Structure Summary

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Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4

DOI:10.2210/pdb2qad/pdb

2QAD

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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:	216739.04

Molecule:

Envelope glycoprotein gp160

Polymer:

Type:

protein

Length:

322

Chains:

A, E

Fragment:

CORE WITH V3

Organism

Human immunodeficiency virus 1

Gene Name

env

UniProtKB:

| | P35961

Molecule:

T-cell surface glycoprotein CD4

Polymer:

Type:

protein

Length:

181

Chains:

B, F

Fragment:

D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS

Organism

Homo sapiens

Gene Name

CD4

UniProtKB:

| | P01730

Molecule:

anti-HIV-1 antibody 412d light chain

Polymer:

Type:

protein

Length:

214

Chains:

C, G

Fragment:

FAB, ANTIGEN-BINDING FRAGMENT

Organism

Homo sapiens

Molecule:

anti-HIV-1 antibody 412d heavy chain

Polymer:

Type:

protein

Length:

231

Chains:

D, H

Fragment:

FAB, ANTIGEN-BINDING FRAGMENT

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

Common Name:

Human

Expression System:

Escherichia coli

Polymer: 3

Scientific Name:

Homo sapiens

Taxonomy

Common Name:

Human

Expression System:

Human herpesvirus 4

Polymer: 4

Scientific Name:

Homo sapiens

Taxonomy

Common Name:

Human

Expression System:

Human herpesvirus 4

Ligand Chemical Component

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Identifier	Formula	Name	Interactions
EDO Search Download	C₂ H₆ O₂	1,2-ETHANEDIOL		Ligand Explorer
MLA Search Download	C₃ H₄ O₄	MALONIC ACID		Ligand Explorer
NAG Search Download	C₈ H₁₅ N O₆	N-ACETYL-D-GLUCOSAMINE		Ligand Explorer

Modified Residues

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Identifier		Formula	Parent	Type
TYS Search		C₉ H₁₁ N O₆ S	TYR	lPeptideLinking

External Domain Annotations Hide
SCOP Classification v1.75: 8 Domains - data from SCOP

CATH Classification v3.4.0: 12 Domains - data from CATH

Pfam Classification: 19 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: Huang, C.-C., Tang, M., Robinson, J., Wyatt, R., Kwong, P.D.

Deposition:	2007-06-14
Release:	2007-09-25
Last Modified (REVDAT):	2011-07-13

Revision History Hide

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2011-07-13
Version format compliance

2011-07-13
Non-polymer description

Experimental Details

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

Unit Cell:
	Length [Å]	Angles [°]
	a = 109.60	α = 90.00
	b = 53.02	β = 104.64
	c = 225.33	γ = 90.00

Molecule of the Month Hide
Epidermal Growth Factor

Nanobodies

Antibodies

T-Cell Receptor

Hemagglutinin