Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5D2N

Crystal structure of C25-NLV-HLA-A2 complex

Functional Information from GO Data

Chain	GOid	namespace	contents
B	0000139	cellular_component	Golgi membrane
B	0001913	biological_process	T cell mediated cytotoxicity
B	0001916	biological_process	positive regulation of T cell mediated cytotoxicity
B	0002237	biological_process	response to molecule of bacterial origin
B	0002376	biological_process	immune system process
B	0002474	biological_process	antigen processing and presentation of peptide antigen via MHC class I
B	0002481	biological_process	antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent
B	0002502	biological_process	peptide antigen assembly with MHC class I protein complex
B	0002503	biological_process	peptide antigen assembly with MHC class II protein complex
B	0002726	biological_process	positive regulation of T cell cytokine production
B	0005198	molecular_function	structural molecule activity
B	0005515	molecular_function	protein binding
B	0005576	cellular_component	extracellular region
B	0005615	cellular_component	extracellular space
B	0005765	cellular_component	lysosomal membrane
B	0005783	cellular_component	endoplasmic reticulum
B	0005788	cellular_component	endoplasmic reticulum lumen
B	0005794	cellular_component	Golgi apparatus
B	0005829	cellular_component	cytosol
B	0005886	cellular_component	plasma membrane
B	0005925	cellular_component	focal adhesion
B	0006826	biological_process	iron ion transport
B	0006879	biological_process	intracellular iron ion homeostasis
B	0006955	biological_process	immune response
B	0007608	biological_process	sensory perception of smell
B	0007611	biological_process	learning or memory
B	0009897	cellular_component	external side of plasma membrane
B	0009986	cellular_component	cell surface
B	0010977	biological_process	negative regulation of neuron projection development
B	0012507	cellular_component	ER to Golgi transport vesicle membrane
B	0016020	cellular_component	membrane
B	0019885	biological_process	antigen processing and presentation of endogenous peptide antigen via MHC class I
B	0019886	biological_process	antigen processing and presentation of exogenous peptide antigen via MHC class II
B	0023026	molecular_function	MHC class II protein complex binding
B	0030670	cellular_component	phagocytic vesicle membrane
B	0031901	cellular_component	early endosome membrane
B	0031902	cellular_component	late endosome membrane
B	0031905	cellular_component	early endosome lumen
B	0032092	biological_process	positive regulation of protein binding
B	0033077	biological_process	T cell differentiation in thymus
B	0034756	biological_process	regulation of iron ion transport
B	0035580	cellular_component	specific granule lumen
B	0042026	biological_process	protein refolding
B	0042605	molecular_function	peptide antigen binding
B	0042612	cellular_component	MHC class I protein complex
B	0042613	cellular_component	MHC class II protein complex
B	0042802	molecular_function	identical protein binding
B	0042803	molecular_function	protein homodimerization activity
B	0042824	cellular_component	MHC class I peptide loading complex
B	0045646	biological_process	regulation of erythrocyte differentiation
B	0048260	biological_process	positive regulation of receptor-mediated endocytosis
B	0050680	biological_process	negative regulation of epithelial cell proliferation
B	0050768	biological_process	negative regulation of neurogenesis
B	0050778	biological_process	positive regulation of immune response
B	0050870	biological_process	positive regulation of T cell activation
B	0051289	biological_process	protein homotetramerization
B	0055038	cellular_component	recycling endosome membrane
B	0060586	biological_process	multicellular organismal-level iron ion homeostasis
B	0070062	cellular_component	extracellular exosome
B	0071281	biological_process	cellular response to iron ion
B	0071283	biological_process	cellular response to iron(III) ion
B	0071316	biological_process	cellular response to nicotine
B	1900121	biological_process	negative regulation of receptor binding
B	1900122	biological_process	positive regulation of receptor binding
B	1904434	biological_process	positive regulation of ferrous iron binding
B	1904437	biological_process	positive regulation of transferrin receptor binding
B	1904724	cellular_component	tertiary granule lumen
B	1990000	biological_process	amyloid fibril formation
B	1990712	cellular_component	HFE-transferrin receptor complex
B	2000774	biological_process	positive regulation of cellular senescence
B	2000978	biological_process	negative regulation of forebrain neuron differentiation
L	0000139	cellular_component	Golgi membrane
L	0001913	biological_process	T cell mediated cytotoxicity
L	0001916	biological_process	positive regulation of T cell mediated cytotoxicity
L	0002237	biological_process	response to molecule of bacterial origin
L	0002376	biological_process	immune system process
L	0002474	biological_process	antigen processing and presentation of peptide antigen via MHC class I
L	0002481	biological_process	antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent
L	0002502	biological_process	peptide antigen assembly with MHC class I protein complex
L	0002503	biological_process	peptide antigen assembly with MHC class II protein complex
L	0002726	biological_process	positive regulation of T cell cytokine production
L	0005198	molecular_function	structural molecule activity
L	0005515	molecular_function	protein binding
L	0005576	cellular_component	extracellular region
L	0005615	cellular_component	extracellular space
L	0005765	cellular_component	lysosomal membrane
L	0005783	cellular_component	endoplasmic reticulum
L	0005788	cellular_component	endoplasmic reticulum lumen
L	0005794	cellular_component	Golgi apparatus
L	0005829	cellular_component	cytosol
L	0005886	cellular_component	plasma membrane
L	0005925	cellular_component	focal adhesion
L	0006826	biological_process	iron ion transport
L	0006879	biological_process	intracellular iron ion homeostasis
L	0006955	biological_process	immune response
L	0007608	biological_process	sensory perception of smell
L	0007611	biological_process	learning or memory
L	0009897	cellular_component	external side of plasma membrane
L	0009986	cellular_component	cell surface
L	0010977	biological_process	negative regulation of neuron projection development
L	0012507	cellular_component	ER to Golgi transport vesicle membrane
L	0016020	cellular_component	membrane
L	0019885	biological_process	antigen processing and presentation of endogenous peptide antigen via MHC class I
L	0019886	biological_process	antigen processing and presentation of exogenous peptide antigen via MHC class II
L	0023026	molecular_function	MHC class II protein complex binding
L	0030670	cellular_component	phagocytic vesicle membrane
L	0031901	cellular_component	early endosome membrane
L	0031902	cellular_component	late endosome membrane
L	0031905	cellular_component	early endosome lumen
L	0032092	biological_process	positive regulation of protein binding
L	0033077	biological_process	T cell differentiation in thymus
L	0034756	biological_process	regulation of iron ion transport
L	0035580	cellular_component	specific granule lumen
L	0042026	biological_process	protein refolding
L	0042605	molecular_function	peptide antigen binding
L	0042612	cellular_component	MHC class I protein complex
L	0042613	cellular_component	MHC class II protein complex
L	0042802	molecular_function	identical protein binding
L	0042803	molecular_function	protein homodimerization activity
L	0042824	cellular_component	MHC class I peptide loading complex
L	0045646	biological_process	regulation of erythrocyte differentiation
L	0048260	biological_process	positive regulation of receptor-mediated endocytosis
L	0050680	biological_process	negative regulation of epithelial cell proliferation
L	0050768	biological_process	negative regulation of neurogenesis
L	0050778	biological_process	positive regulation of immune response
L	0050870	biological_process	positive regulation of T cell activation
L	0051289	biological_process	protein homotetramerization
L	0055038	cellular_component	recycling endosome membrane
L	0060586	biological_process	multicellular organismal-level iron ion homeostasis
L	0070062	cellular_component	extracellular exosome
L	0071281	biological_process	cellular response to iron ion
L	0071283	biological_process	cellular response to iron(III) ion
L	0071316	biological_process	cellular response to nicotine
L	1900121	biological_process	negative regulation of receptor binding
L	1900122	biological_process	positive regulation of receptor binding
L	1904434	biological_process	positive regulation of ferrous iron binding
L	1904437	biological_process	positive regulation of transferrin receptor binding
L	1904724	cellular_component	tertiary granule lumen
L	1990000	biological_process	amyloid fibril formation
L	1990712	cellular_component	HFE-transferrin receptor complex
L	2000774	biological_process	positive regulation of cellular senescence
L	2000978	biological_process	negative regulation of forebrain neuron differentiation

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	binding site for residue IMD C 301

Chain	Residue
C	ALA2
C	LYS3
C	THR4
C	ARG97
C	GLY99

site_id	AC2
Number of Residues	4
Details	binding site for residue IMD A 301

Chain	Residue
A	PHE8
A	ASP29
A	ASP30
B	TYR63

site_id	AC3
Number of Residues	5
Details	binding site for residue IMD A 302

Chain	Residue
A	ASP196
A	SER251
E	ASN164
E	LYS166
L	ILE1

Functional Information from PROSITE/UniProt

site_id	PS00290
Number of Residues	7
Details	IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YTCHVQH

Chain	Residue	Details
H	TYR257-HIS263
L	TYR78-HIS84

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	MOD_RES: Pyrrolidone carboxylic acid; in form pI 5.3 => ECO:0000269\|PubMed:7554280

Chain	Residue	Details
L	GLN2
A	THR143
A	LYS146
A	TYR171
B	GLN2
H	TYR84
H	THR143
H	LYS146
H	TYR171
A	TYR7
A	THR73
A	TYR84

site_id	SWS_FT_FI2
Number of Residues	2
Details	CARBOHYD: N-linked (Glc) (glycation) isoleucine; in hemodialysis-associated amyloidosis => ECO:0000269\|PubMed:7918443

Chain	Residue	Details
L	ILE1
B	ILE1
A	TYR116
A	TYR159

site_id	SWS_FT_FI3
Number of Residues	12
Details	CARBOHYD: N-linked (Glc) (glycation) lysine; in vitro => ECO:0000269\|PubMed:7918443

Chain	Residue	Details
L	LYS19
B	LYS58
B	LYS91
B	LYS94
L	LYS41
L	LYS48
L	LYS58
L	LYS91
L	LYS94
B	LYS19
B	LYS41
B	LYS48

site_id	SWS_FT_FI4
Number of Residues	2
Details	CARBOHYD: N-linked (GlcNAc...) asparagine => ECO:0000269\|PubMed:19159218

Chain	Residue	Details
H	ASN86
A	ASN86

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)