Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4XYN

X-ray structure of Ca(2+)-S100B with human RAGE-derived W61 peptide

Replaces: 4N6I

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0001726	cellular_component	ruffle
A	0005509	molecular_function	calcium ion binding
A	0005515	molecular_function	protein binding
A	0005576	cellular_component	extracellular region
A	0005615	cellular_component	extracellular space
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0007155	biological_process	cell adhesion
A	0007409	biological_process	axonogenesis
A	0007417	biological_process	central nervous system development
A	0007611	biological_process	learning or memory
A	0007613	biological_process	memory
A	0008270	molecular_function	zinc ion binding
A	0008284	biological_process	positive regulation of cell population proliferation
A	0042802	molecular_function	identical protein binding
A	0042803	molecular_function	protein homodimerization activity
A	0043025	cellular_component	neuronal cell body
A	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
A	0043231	cellular_component	intracellular membrane-bounded organelle
A	0044548	molecular_function	S100 protein binding
A	0045666	biological_process	positive regulation of neuron differentiation
A	0046872	molecular_function	metal ion binding
A	0048156	molecular_function	tau protein binding
A	0048168	biological_process	regulation of neuronal synaptic plasticity
A	0048306	molecular_function	calcium-dependent protein binding
A	0048471	cellular_component	perinuclear region of cytoplasm
A	0050786	molecular_function	RAGE receptor binding
A	0097490	biological_process	sympathetic neuron projection extension
A	1990138	biological_process	neuron projection extension
A	1990845	biological_process	adaptive thermogenesis
B	0001726	cellular_component	ruffle
B	0005509	molecular_function	calcium ion binding
B	0005515	molecular_function	protein binding
B	0005576	cellular_component	extracellular region
B	0005615	cellular_component	extracellular space
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0007155	biological_process	cell adhesion
B	0007409	biological_process	axonogenesis
B	0007417	biological_process	central nervous system development
B	0007611	biological_process	learning or memory
B	0007613	biological_process	memory
B	0008270	molecular_function	zinc ion binding
B	0008284	biological_process	positive regulation of cell population proliferation
B	0042802	molecular_function	identical protein binding
B	0042803	molecular_function	protein homodimerization activity
B	0043025	cellular_component	neuronal cell body
B	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
B	0043231	cellular_component	intracellular membrane-bounded organelle
B	0044548	molecular_function	S100 protein binding
B	0045666	biological_process	positive regulation of neuron differentiation
B	0046872	molecular_function	metal ion binding
B	0048156	molecular_function	tau protein binding
B	0048168	biological_process	regulation of neuronal synaptic plasticity
B	0048306	molecular_function	calcium-dependent protein binding
B	0048471	cellular_component	perinuclear region of cytoplasm
B	0050786	molecular_function	RAGE receptor binding
B	0097490	biological_process	sympathetic neuron projection extension
B	1990138	biological_process	neuron projection extension
B	1990845	biological_process	adaptive thermogenesis
C	0001726	cellular_component	ruffle
C	0005509	molecular_function	calcium ion binding
C	0005515	molecular_function	protein binding
C	0005576	cellular_component	extracellular region
C	0005615	cellular_component	extracellular space
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0007155	biological_process	cell adhesion
C	0007409	biological_process	axonogenesis
C	0007417	biological_process	central nervous system development
C	0007611	biological_process	learning or memory
C	0007613	biological_process	memory
C	0008270	molecular_function	zinc ion binding
C	0008284	biological_process	positive regulation of cell population proliferation
C	0042802	molecular_function	identical protein binding
C	0042803	molecular_function	protein homodimerization activity
C	0043025	cellular_component	neuronal cell body
C	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
C	0043231	cellular_component	intracellular membrane-bounded organelle
C	0044548	molecular_function	S100 protein binding
C	0045666	biological_process	positive regulation of neuron differentiation
C	0046872	molecular_function	metal ion binding
C	0048156	molecular_function	tau protein binding
C	0048168	biological_process	regulation of neuronal synaptic plasticity
C	0048306	molecular_function	calcium-dependent protein binding
C	0048471	cellular_component	perinuclear region of cytoplasm
C	0050786	molecular_function	RAGE receptor binding
C	0097490	biological_process	sympathetic neuron projection extension
C	1990138	biological_process	neuron projection extension
C	1990845	biological_process	adaptive thermogenesis
D	0001726	cellular_component	ruffle
D	0005509	molecular_function	calcium ion binding
D	0005515	molecular_function	protein binding
D	0005576	cellular_component	extracellular region
D	0005615	cellular_component	extracellular space
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0007155	biological_process	cell adhesion
D	0007409	biological_process	axonogenesis
D	0007417	biological_process	central nervous system development
D	0007611	biological_process	learning or memory
D	0007613	biological_process	memory
D	0008270	molecular_function	zinc ion binding
D	0008284	biological_process	positive regulation of cell population proliferation
D	0042802	molecular_function	identical protein binding
D	0042803	molecular_function	protein homodimerization activity
D	0043025	cellular_component	neuronal cell body
D	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
D	0043231	cellular_component	intracellular membrane-bounded organelle
D	0044548	molecular_function	S100 protein binding
D	0045666	biological_process	positive regulation of neuron differentiation
D	0046872	molecular_function	metal ion binding
D	0048156	molecular_function	tau protein binding
D	0048168	biological_process	regulation of neuronal synaptic plasticity
D	0048306	molecular_function	calcium-dependent protein binding
D	0048471	cellular_component	perinuclear region of cytoplasm
D	0050786	molecular_function	RAGE receptor binding
D	0097490	biological_process	sympathetic neuron projection extension
D	1990138	biological_process	neuron projection extension
D	1990845	biological_process	adaptive thermogenesis

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue CA A 501

Chain	Residue
A	ASP62
A	ASP64
A	ASP66
A	GLU68
A	GLU73
A	HOH605

site_id	AC2
Number of Residues	6
Details	binding site for residue CA A 502

Chain	Residue
A	LYS27
A	GLU32
A	HOH606
A	SER19
A	GLU22
A	ASP24

site_id	AC3
Number of Residues	6
Details	binding site for residue CA B 501

Chain	Residue
B	ASP62
B	ASP64
B	ASP66
B	GLU68
B	GLU73
B	HOH604

site_id	AC4
Number of Residues	6
Details	binding site for residue CA B 502

Chain	Residue
B	SER19
B	GLU22
B	ASP24
B	LYS27
B	GLU32
B	HOH603

site_id	AC5
Number of Residues	6
Details	binding site for residue CA C 501

Chain	Residue
C	SER19
C	GLU22
C	ASP24
C	LYS27
C	GLU32
C	HOH601

site_id	AC6
Number of Residues	5
Details	binding site for residue CA C 502

Chain	Residue
C	ASP62
C	ASP64
C	GLU68
C	GLU73
C	HOH602

site_id	AC7
Number of Residues	6
Details	binding site for residue CA D 501

Chain	Residue
D	SER19
D	GLU22
D	ASP24
D	LYS27
D	GLU32
D	HOH602

site_id	AC8
Number of Residues	6
Details	binding site for residue CA D 502

Chain	Residue
D	ASP62
D	ASP64
D	ASP66
D	GLU68
D	GLU73
D	HOH603

Functional Information from PROSITE/UniProt

site_id	PS00018
Number of Residues	13
Details	EF_HAND_1 EF-hand calcium-binding domain. DNDGDGECDfqEF

Chain	Residue	Details
A	ASP62-PHE74

site_id	PS00303
Number of Residues	22
Details	S100_CABP S-100/ICaBP type calcium binding protein signature. VMetLDndgDgecDFqEFmaFV

Chain	Residue	Details
A	VAL57-VAL78

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	16
Details	BINDING: BINDING => ECO:0000269\|PubMed:20950652, ECO:0007744\|PDB:3CZT

Chain	Residue	Details
A	HIS16
C	HIS26
C	HIS86
C	HIS91
D	HIS16
D	HIS26
D	HIS86
D	HIS91
A	HIS26
A	HIS86
A	HIS91
B	HIS16
B	HIS26
B	HIS86
B	HIS91
C	HIS16

site_id	SWS_FT_FI2
Number of Residues	20
Details	BINDING: BINDING => ECO:0000269\|PubMed:20950652, ECO:0007744\|PDB:3CZT, ECO:0007744\|PDB:3D0Y, ECO:0007744\|PDB:3D10

Chain	Residue	Details
A	SER19
B	GLU32
C	SER19
C	GLU22
C	ASP24
C	LYS27
C	GLU32
D	SER19
D	GLU22
D	ASP24
D	LYS27
A	GLU22
D	GLU32
A	ASP24
A	LYS27
A	GLU32
B	SER19
B	GLU22
B	ASP24
B	LYS27

site_id	SWS_FT_FI3
Number of Residues	16
Details	BINDING: BINDING => ECO:0000255\|PROSITE-ProRule:PRU00448, ECO:0000269\|PubMed:20950652, ECO:0007744\|PDB:3CZT, ECO:0007744\|PDB:3D0Y, ECO:0007744\|PDB:3D10

Chain	Residue	Details
A	ASP62
C	ASP66
C	GLU68
C	GLU73
D	ASP62
D	ASP66
D	GLU68
D	GLU73
A	ASP66
A	GLU68
A	GLU73
B	ASP62
B	ASP66
B	GLU68
B	GLU73
C	ASP62

site_id	SWS_FT_FI4
Number of Residues	4
Details	BINDING: BINDING => ECO:0000255\|PROSITE-ProRule:PRU00448, ECO:0000269\|PubMed:20950652, ECO:0007744\|PDB:2H61, ECO:0007744\|PDB:3CZT, ECO:0007744\|PDB:3D0Y, ECO:0007744\|PDB:3D10

Chain	Residue	Details
A	ASP64
B	ASP64
C	ASP64
D	ASP64

site_id	SWS_FT_FI5
Number of Residues	4
Details	MOD_RES: N-acetylserine; alternate => ECO:0000250\|UniProtKB:P02638

Chain	Residue	Details
A	SER2
B	SER2
C	SER2
D	SER2

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