1X0F

Complex structure of the C-terminal RNA-binding domain of hnRNP D(AUF1) with 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)
B [auth A]	d1x0fa_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	Canonical RBD	automated matches	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)
B [auth A]	SCOP2 Family	Canonical RBD	8021116	4000236	SCOP2 (2022-06-29)
B [auth A]	SCOP2 Superfamily	RNA-binding domain, RBD	8033496	3000110	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth A]	RRM_1_5	e1x0fA1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_5	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth A]	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A]	PF00076	RNA recognition motif (RRM_1)	RNA recognition motif	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	5'-D(PTPAPGPG)-3'	-	-	-
B [auth A]	Heterogeneous nuclear ribonucleoprotein D0	histone deacetylase binding protein binding binding enzyme binding chromatin binding mRNA 3'-UTR binding RNA binding mRNA 3'-UTR AU-rich region binding nucleic acid binding mRNA binding sequence-specific DNA binding DNA binding telomeric DNA binding DNA secondary structure binding histone deacetylase binding protein binding binding enzyme binding chromatin binding mRNA 3'-UTR binding RNA binding mRNA 3'-UTR AU-rich region binding nucleic acid binding mRNA binding sequence-specific DNA binding DNA binding telomeric DNA binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding	developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development regulation of cellular process negative regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development regulation of cellular process negative regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process regulation of biological process negative regulation of metabolic process primary metabolic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process negative regulation of RNA metabolic process catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process negative regulation of mRNA metabolic process regulation of mRNA catabolic process positive regulation of biosynthetic process negative regulation of cellular process positive regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of catabolic process biological regulation negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of mRNA stability CRD-mediated mRNA stabilization RNA stabilization negative regulation of biosynthetic process positive regulation of gene expression regulation of RNA stability cellular process regulation of mRNA metabolic process response to stimulus response to metal ion response to chemical response to calcium ion rhythmic process circadian rhythm regulation of circadian rhythm 3'-UTR-mediated mRNA destabilization positive regulation of nucleobase-containing compound metabolic process positive regulation of mRNA metabolic process positive regulation of RNA metabolic process mRNA destabilization RNA destabilization positive regulation of catabolic process positive regulation of mRNA catabolic process nucleobase-containing compound biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process RNA processing head development brain development nervous system development cerebellum development central nervous system development metencephalon development hindbrain development cellular developmental process cell dedifferentiation hepatocyte dedifferentiation dedifferentiation response to electrical stimulus response to abiotic stimulus positive regulation of protein metabolic process positive regulation of translation protein metabolic process regulation of protein metabolic process translation regulation of translation negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay nuclear-transcribed mRNA catabolic process DNA-templated transcription regulation of RNA biosynthetic process regulation of DNA-templated transcription positive regulation of cytoplasmic translation cytoplasmic translation regulation of cytoplasmic translation cellular response to acid chemical cellular response to stimulus cellular response to amino acid stimulus response to acid chemical cellular response to chemical stimulus response to amino acid positive regulation of organelle organization telomere organization regulation of DNA biosynthetic process RNA-templated DNA biosynthetic process telomere maintenance via telomere lengthening positive regulation of telomere maintenance via telomere lengthening positive regulation of telomere maintenance DNA metabolic process regulation of chromosome organization regulation of telomere maintenance via telomere lengthening regulation of organelle organization positive regulation of chromosome organization telomere maintenance positive regulation of DNA metabolic process positive regulation of telomere maintenance via telomerase DNA biosynthetic process regulation of DNA metabolic process regulation of telomere maintenance regulation of cellular component organization positive regulation of cellular component organization cellular component organization cellular component organization or biogenesis telomere maintenance via telomerase chromosome organization positive regulation of DNA biosynthetic process regulation of telomere maintenance via telomerase organelle organization response to ketone response to ether response to alcohol response to rapamycin response to oxygen-containing compound response to nitrogen compound positive regulation of DNA-templated transcription positive regulation of RNA biosynthetic process response to lipid cellular response to oxygen-containing compound cellular response to lipid response to estradiol cellular response to estradiol stimulus circadian regulation of translation positive regulation of telomere capping telomere capping regulation of telomere capping cellular response to nitrogen compound cellular response to putrescine response to putrescine transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II response to sodium phosphate response to salt cellular response to nitric oxide response to nitric oxide cellular response to reactive nitrogen species	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 synapse cell junction glutamatergic synapse postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization asymmetric synapse mCRD-mediated mRNA stability complex protein-containing complex ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A]	IPR012956	CARG-binding factor, N-terminal	Domain
B [auth A]	IPR000504	RNA recognition motif domain	Domain
B [auth A]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B [auth A]	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth A]	Pharos: Q14103	pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primary cutaneous T-cell non-Hodgkin lymphoma tuberculosis acute myeloid leukemia breast cancer glioblastoma lung cancer malignant mesothelioma oligodendroglioma pancreatic ductal adenocarcinoma Pick disease progressive supranuclear palsy astrocytic tumor Crohn disease large cell medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primary cutaneous T-cell non-Hodgkin lymphoma tuberculosis acute myeloid leukemia breast cancer glioblastoma lung cancer malignant mesothelioma oligodendroglioma pancreatic ductal adenocarcinoma Pick disease progressive supranuclear palsy astrocytic tumor Crohn disease large cell medulloblastoma lymphoplasmacytic lymphoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor dermatomyositis lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma ovarian cancer

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.