7CLI | pdb_00007cli

Structure of NF-kB p52 homodimer bound to P-Selectin kB DNA fragment

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	p53-like transcription factors	8040231	3000758	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8054871	3000070	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	E set domains	8054871	3000070	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	p53-like transcription factors	8040231	3000758	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e7cliA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: RVT_thumb	F:	ECOD (20:10:01)
C [auth B]		e7cliB1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Ribosomal_L14e	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF16179	Rel homology dimerisation domain (RHD_dimer)	Rel homology dimerisation domain	The Rel homology domain (RHD) is composed of two structural domains, an N-terminal DNA_binding domain (Pfam:PF00554) and a C-terminal dimerisation domain. This is the dimerisation domain [1].	Domain
A, C [auth B]	PF00554	Rel homology DNA-binding domain (RHD_DNA_bind)	Rel homology DNA-binding domain	Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. The RHD is composed of two structural domains. This is the N-terminal DNA-binding domain that is similar to that found in P53. The C-terminal domain has an immu ...	Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. The RHD is composed of two structural domains. This is the N-terminal DNA-binding domain that is similar to that found in P53. The C-terminal domain has an immunoglobulin-like fold (See Pfam:PF16179) that functions as a dimerisation domain [1-2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	Nuclear factor NF-kappa-B p52 subunit	DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription factor activity, RNA polymerase II-specific DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation canonical NF-kappaB signal transduction intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction developmental process multicellular organismal process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation canonical NF-kappaB signal transduction intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction developmental process multicellular organismal process cellular developmental process follicular dendritic cell differentiation cell differentiation cell activation follicular dendritic cell activation cellular component organization extracellular matrix organization cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization response to peptide response to chemical response to cytokine non-canonical NF-kappaB signal transduction immune system development multicellular organism development spleen development immune system process animal organ development anatomical structure development hematopoietic or lymphoid organ development system development RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process rhythmic process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains anatomical structure morphogenesis immune response anatomical structure formation involved in morphogenesis germinal center formation adaptive immune response positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process biological process involved in interspecies interaction between organisms response to lipid response to other organism response to oxygen-containing compound response to external stimulus response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome I-kappaB/NF-kappaB complex protein-containing complex Bcl3/NF-kappaB2 complex intracellular protein-containing complex
B [auth C]	DNA (5'-D(CPAPAPGPGPGPGPTPCPAPCPCPCPCPCPTPTPC)-3')	-	-	-
D	DNA (5'-D(GPAPAPGPGPGPGPGPTPGPAPCPCPCPCPTPTPG)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR030497	Nuclear factor NF-kappa-B, p100 subunit, RHD domain, N-terminal	Domain
A, C [auth B]	IPR037059	Rel homology domain (RHD), DNA-binding domain superfamily	Homologous Superfamily
A, C [auth B]	IPR002909	IPT domain	Domain
A, C [auth B]	IPR030492	Rel homology domain, conserved site	Conserved Site
A, C [auth B]	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A, C [auth B]	IPR033926	NFkappaB IPT domain	Domain
A, C [auth B]	IPR008967	p53-like transcription factor, DNA-binding domain superfamily	Homologous Superfamily
A, C [auth B]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, C [auth B]	IPR011539	Rel homology domain, DNA-binding domain	Domain
A, C [auth B]	IPR002110	Ankyrin repeat	Repeat
A, C [auth B]	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, C [auth B]	IPR000451	NF-kappa-B/Dorsal	Family
A, C [auth B]	IPR032397	Rel homology dimerisation domain	Domain
A, C [auth B]	IPR000488	Death domain	Domain
A, C [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C [auth B]	Pharos: Q00653	common variable immunodeficiency immunodeficiency, common variable, 10 Heat Stroke primary cutaneous T-cell non-Hodgkin lymphoma rheumatoid arthritis atopic eczema mantle cell lymphoma plasma cell myeloma agammaglobulinemia B cell deficiency deficiency in anterior pituitary function - variable immunodeficiency syndrome immunodeficiency, common variable, 1 lung cancer osteosarcoma tuberculosis common variable immunodeficiency immunodeficiency, common variable, 10 Heat Stroke primary cutaneous T-cell non-Hodgkin lymphoma rheumatoid arthritis atopic eczema mantle cell lymphoma plasma cell myeloma agammaglobulinemia B cell deficiency deficiency in anterior pituitary function - variable immunodeficiency syndrome immunodeficiency, common variable, 1 lung cancer osteosarcoma tuberculosis allergic rhinitis cancer granulomatous slack skin disease pancreatic ductal adenocarcinoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.