2PQU | pdb_00002pqu

Crystal structure of KH1 domain of human PCBP2 complexed to single-stranded 12-mer telomeric dna

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth D]	d2pqud_	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Poly(RC)-binding protein 2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth C]	d2pquc_	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Poly(RC)-binding protein 2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth B]	d2pqub_	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Poly(RC)-binding protein 2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth A]	d2pqua2	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	Poly(RC)-binding protein 2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth A]	d2pqua3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth D]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8037474	3001023	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8037474	3001023	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8037474	3001023	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8037474	3001023	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)
F [auth D]	Staphylokinase	e2pquD1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
E [auth C]	Staphylokinase	e2pquC1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
D [auth B]	Staphylokinase	e2pquB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
C [auth A]	Staphylokinase	e2pquA1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth D]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
E [auth C]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
D [auth B]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
C [auth A]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], D [auth B], E [auth C], F [auth D]	PF00013	KH domain (KH_1)	KH domain	KH motifs bind RNA in vitro. Autoantibodies to Nova, a KH domain protein, cause paraneoplastic opsoclonus ataxia.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], D [auth B], E [auth C], F [auth D]	Poly(rC)-binding protein 2	RNA binding binding lncRNA binding nucleic acid binding mRNA binding DNA binding chromatin binding double-stranded DNA binding DNA-DNA tethering activity chromatin DNA binding promoter-enhancer loop anchoring activity chromatin loop anchoring activity molecular adaptor activity ubiquitin protein ligase binding RNA binding binding lncRNA binding nucleic acid binding mRNA binding DNA binding chromatin binding double-stranded DNA binding DNA-DNA tethering activity chromatin DNA binding promoter-enhancer loop anchoring activity chromatin loop anchoring activity molecular adaptor activity ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding single-stranded DNA binding	RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus regulation of defense response regulation of response to biotic stimulus negative regulation of response to biotic stimulus regulation of response to external stimulus negative regulation of biological process regulation of defense response to virus regulation of response to stress response to virus regulation of biological process negative regulation of response to stimulus biological regulation defense response to virus regulation of response to stimulus negative regulation of response to external stimulus negative regulation of defense response negative regulation of defense response to virus catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process protein metabolic process mRNA metabolic process cellular component organization chromatin looping chromatin organization cellular component organization or biogenesis viral gene expression viral translation IRES-dependent viral translational initiation regulation of cellular process regulation of primary metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of macromolecule metabolic process gene expression regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process cellular response to stimulus positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway regulation of signal transduction intracellular signal transduction cGAS/STING signaling pathway cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of innate immune response negative regulation of cGAS/STING signaling pathway regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway intracellular receptor signaling pathway signaling negative regulation of signaling negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction positive regulation of biological process regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of cell communication positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of intracellular signal transduction negative regulation of cellular process regulation of signaling positive regulation of innate immune response negative regulation of signal transduction negative regulation of immune system process regulation of cell communication	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen protein-containing complex ribonucleoprotein complex
A [auth E], B [auth G]	12-mer C-rich strand of human telomeric DNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B], E [auth C], F [auth D]	IPR004087	K Homology domain	Domain
C [auth A], D [auth B], E [auth C], F [auth D]	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
C [auth A], D [auth B], E [auth C], F [auth D]	IPR004088	K Homology domain, type 1	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A], D [auth B], E [auth C], F [auth D]	Pharos: Q15366	Alzheimer disease large cell medulloblastoma Pick disease atypical teratoid rhabdoid tumor osteosarcoma rheumatoid arthritis hypospadias pancreatic intraductal papillary-mucinous carcinoma

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.