The antigenic identity of peptide-MHC complexes: a comparison of the conformations of five viral peptides presented by HLA-A2.

Madden, D.R; Garboczi, D.N; Wiley, D.C.

141415 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

1HHJ

THE ANTIGENIC IDENTITY OF PEPTIDE(SLASH)MHC COMPLEXES: A COMPARISON OF THE CONFORMATION OF FIVE PEPTIDES PRESENTED BY HLA-A2

Macromolecule Annotations for the Entities in PDB 1HHJ

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species
A182-275	d1hhja1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain- like)	Class I MHC, alpha-3 domain	Human (Homo sapiens) [TaxId: 9606]
B	d1hhjb_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain- like)	beta2-microglobulin	Human (Homo sapiens) [TaxId: 9606]
D182-275	d1hhjd1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain- like)	Class I MHC, alpha-3 domain	Human (Homo sapiens) [TaxId: 9606]
E	d1hhje_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain- like)	beta2-microglobulin	Human (Homo sapiens) [TaxId: 9606]
A1-181	d1hhja2	Alpha and beta proteins (a+b)	MHC antigen-recognition domain	MHC antigen-recognition domain	MHC antigen-recognition domain	Class I MHC, alpha-1 and alpha-2 domains	Human (Homo sapiens), HLA-A2.1 [TaxId: 9606]
D1-181	d1hhjd2	Alpha and beta proteins (a+b)	MHC antigen-recognition domain	MHC antigen-recognition domain	MHC antigen-recognition domain	Class I MHC, alpha-1 and alpha-2 domains	Human (Homo sapiens), HLA-A2.1 [TaxId: 9606]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains	Domain	Class	Architecture	Topology	Homology
A1	1hhjA01	Alpha Beta	2-Layer Sandwich	Murine Class I Major Histocompatibility Complex, H2- DB; Chain A, domain 1	Murine Class I Major Histocompatibility Complex, H2- DB, subunit A, domain 1
A2	1hhjA02	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins
B	1hhjB00	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins
D1	1hhjD01	Alpha Beta	2-Layer Sandwich	Murine Class I Major Histocompatibility Complex, H2- DB; Chain A, domain 1	Murine Class I Major Histocompatibility Complex, H2- DB, subunit A, domain 1
D2	1hhjD02	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins
E	1hhjE00	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins

Protein Family Annotation Pfam Database Homepage

Chains	Pfam Accession	Pfam Identifier	Pfam Description	Type	Source

Gene Product Annotation Gene Ontology Consortium Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A,D	CLASS I HISTOCOMPATIBILITY ANTIGEN (HLA-A*0201) (ALPHA CHAIN) (1HHJ:A,D)	none	none	none
B,E	BETA 2-MICROGLOBULIN (1HHJ:B,E)	Protein Binding Identical Protein Binding	Retina Homeostasis Positive Regulation of T Cell Mediated Cytotoxicity Response to Molecule of Bacterial Origin Immune System Process Antigen Processing and Presentation of Peptide Antigen Via Mhc Class I Antigen Processing and Presentation of Exogenous Peptide Antigen Via Mhc Class I Tap Dependent Antigen Processing and Presentation of Exogenous Peptide Antigen Via Mhc Class I Tap Independent Antigen Processing and Presentation of Exogenous Protein Antigen Via Mhc Class Ib Tap Dependent Positive Regulation of T Cell Cytokine Production Iron Ion Transport Immune Response Negative Regulation of Neuron Projection Development Antigen Processing and Presentation of Endogenous Peptide Antigen Via Mhc Class I Positive Regulation of Protein Binding T Cell Differentiation in Thymus Ferric Iron Import Protein Refolding Response to Drug Neutrophil Degranulation Cellular Protein Metabolic Process Innate Immune Response Regulation of Erythrocyte Differentiation Response to Cadmium Ion Positive Regulation of Receptor Mediated Endocytosis Regulation of Defense Response to Virus by Virus Regulation of Immune Response Iron Ion Homeostasis Interferon Gamma Mediated Signaling Pathway Cellular Response to Iron Ion Cellular Response to Iron(iii) Ion Negative Regulation of Receptor Binding Positive Regulation of Receptor Binding Regulation of Iron Ion Import Positive Regulation of Ferrous Iron Binding Positive Regulation of Transferrin Receptor Binding	Golgi Membrane Extracellular Region Extracellular Space Endoplasmic Reticulum Lumen Golgi Apparatus Cytosol Plasma Membrane Focal Adhesion External Side of Plasma Membrane Cell Surface Er to Golgi Transport Vesicle Membrane Membrane Phagocytic Vesicle Membrane Early Endosome Membrane Early Endosome Lumen Specific Granule Lumen Mhc Class I Protein Complex Recycling Endosome Membrane Extracellular Exosome Tertiary Granule Lumen Hfe Transferrin Receptor Complex
C,F	HIV-1 REVERSE TRANSCRIPTASE (RESIDUES 309- 317) (1HHJ:C,F)	none	none	none

Protein Modification Annotation

Type	PDB Residue Nr.	Description

The RCSB PDB is funded by a grant (DBI-1338415) from the National Science Foundation, the National Institutes of Health, and the US Department of Energy.

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141415 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

1HHJ

THE ANTIGENIC IDENTITY OF PEPTIDE(SLASH)MHC COMPLEXES: A COMPARISON OF THE CONFORMATION OF FIVE PEPTIDES PRESENTED BY HLA-A2

Macromolecule Annotations for the Entities in PDB 1HHJ

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Protein Family Annotation Pfam Database Homepage

Gene Product Annotation Gene Ontology Consortium Homepage

Protein Modification Annotation