1HHJ

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


ChainDomainClassArchitectureTopologyHomology
A3.30.500.10 Alpha Beta 2-Layer Sandwich Murine Class I Major Histocompatibility Complex, H2-DB Chain A, domain 1
A2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins
D3.30.500.10 Alpha Beta 2-Layer Sandwich Murine Class I Major Histocompatibility Complex, H2-DB Chain A, domain 1
D2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins
B2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins
E2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins

Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
A, DPF00129Class I Histocompatibility antigen, domains alpha 1 and 2 (MHC_I)Class I Histocompatibility antigen, domains alpha 1 and 2- Domain
A, DPF06623MHC_I C-terminus (MHC_I_C)MHC_I C-terminus- Family
A, DPF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domain- Domain
B, EPF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domain- Domain
C, FPF06817Reverse transcriptase thumb domain (RVT_thumb)Reverse transcriptase thumb domainThis domain is known as the thumb domain. It is composed of a four helix bundle [1].Domain
C, FPF06815Reverse transcriptase connection domain (RVT_connect)Reverse transcriptase connection domainThis domain is known as the connection domain. This domain lies between the thumb and palm domains [1].Domain
C, FPF00607gag gene protein p24 (core nucleocapsid protein) (Gag_p24)gag gene protein p24 (core nucleocapsid protein)- Family
C, FPF00075RNase H (RNase_H)RNase HRNase H digests the RNA strand of an RNA/DNA hybrid. Important enzyme in retroviral replication cycle, and often found as a domain associated with reverse transcriptases. Structure is a mixed alpha+beta fold with three a/b/a layers.Domain
C, FPF02022Integrase Zinc binding domain (Integrase_Zn)Integrase Zinc binding domainIntegrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. This domain is the amino-terminal domain zinc binding domain. The central domain is the catalytic domain Pfam:PF00665 ...Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. This domain is the amino-terminal domain zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. The carboxyl terminal domain is a DNA binding domain Pfam:PF00552.
Domain
C, FPF00098Zinc knuckle (zf-CCHC)Zinc knuckleThe zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eu ...The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.
Domain
C, FPF00077Retroviral aspartyl protease (RVP)Retroviral aspartyl proteaseSingle domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a ...Single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases such as pepsins, cathepsins, and renins (Pfam:PF00026).
Domain
C, FPF00540gag gene protein p17 (matrix protein) (Gag_p17)gag gene protein p17 (matrix protein)The matrix protein forms an icosahedral shell associated with the inner membrane of the mature immunodeficiency virus.Domain
C, FPF00078Reverse transcriptase (RNA-dependent DNA polymerase) (RVT_1)Reverse transcriptase (RNA-dependent DNA polymerase)- Family
C, FPF00552Integrase DNA binding domain (IN_DBD_C)Integrase DNA binding domainIntegrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. This do ...Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. This domain is the carboxyl terminal domain that is a non-specific DNA binding domain [1].
Domain
C, FPF00665Integrase core domain (rve)Integrase core domainIntegrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain Pfam:PF02022. This domain is the central catalytic domain. The ca ...Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain Pfam:PF02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain Pfam:PF00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyses the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site [1].
Domain

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, DCLASS I HISTOCOMPATIBILITY ANTIGEN (HLA-A*0201) (ALPHA CHAIN)
B, EBETA 2-MICROGLOBULIN
C, FHIV-1 REVERSE TRANSCRIPTASE (RESIDUES 309-317)