6D12

Crystal structure of C-terminal xRRM domain of human Larp7 bound to 7SK stem-loop 4 RNA

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF08777	e6d12A1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF08777	ECOD (1.6)
B	PF08777	e6d12B1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF08777	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08777	RNA binding motif (RRM_3)	RNA binding motif	This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	La-related protein 7	RNA binding U6 snRNA binding snRNA binding binding organic cyclic compound binding nucleic acid binding 7SK snRNA binding mRNA binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular developmental process cell differentiation cellular process regulation of cellular process negative regulation of biological process negative regulation of transcription elongation by RNA polymerase II developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular developmental process cell differentiation cellular process regulation of cellular process negative regulation of biological process negative regulation of transcription elongation by RNA polymerase II negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of DNA-templated transcription elongation negative regulation of DNA-templated transcription regulation of biological process regulation of transcription elongation by RNA polymerase II cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process negative regulation of DNA-templated transcription, elongation organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process transcription elongation by RNA polymerase II cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process DNA-templated transcription elongation negative regulation of biosynthetic process positive regulation of macromolecule biosynthetic process positive regulation of snRNA transcription by RNA polymerase II positive regulation of metabolic process snRNA metabolic process snRNA transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process snRNA transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic process positive regulation of biosynthetic process regulation of snRNA transcription by RNA polymerase II positive regulation of cellular process positive regulation of RNA biosynthetic process ncRNA metabolic process positive regulation of cellular biosynthetic process mRNA processing mRNA metabolic process RNA processing sno(s)RNA metabolic process box C/D sno(s)RNA 3'-end processing RNA 3'-end processing sno(s)RNA processing box C/D sno(s)RNA metabolic process box C/D sno(s)RNA processing sno(s)RNA 3'-end processing nucleic acid catabolic process snRNA modification snRNA methylation U6 2'-O-snRNA methylation macromolecule methylation RNA modification methylation macromolecule modification snRNA 2'-O-methylation RNA methylation protein localization regulation of localization cellular localization regulation of protein localization positive regulation of protein localization to Cajal body regulation of protein localization to nucleus regulation of protein localization to Cajal body localization cellular macromolecule localization protein localization to nuclear body positive regulation of protein localization to nucleus protein localization to nucleus protein localization to nucleoplasm regulation of cellular localization macromolecule localization protein localization to organelle positive regulation of protein localization protein localization to Cajal body RNA splicing regulation of mRNA splicing, via spliceosome regulation of mRNA processing regulation of RNA splicing RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of mRNA metabolic process viral gene expression regulation of viral process negative regulation of viral process regulation of viral transcription negative regulation of viral transcription viral process viral transcription negative regulation of transcription by RNA polymerase II	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex Sm-like protein family complex intracellular membrane-bounded organelle intracellular organelle small nuclear ribonucleoprotein complex organelle ribonucleoprotein complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex Sm-like protein family complex intracellular membrane-bounded organelle intracellular organelle small nuclear ribonucleoprotein complex organelle ribonucleoprotein complex 7SK snRNP membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
C	human 7SK RNA stem-loop 4	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR034910	LARP7, RNA recognition motif 2	Domain
A, B	IPR002344	Lupus La protein	Family
A, B	IPR006630	La-type HTH domain	Domain
A, B	IPR014886	La protein, xRRM domain	Domain
A, B	IPR034946	La-related protein 7, La domain	Domain
A, B	IPR000504	RNA recognition motif domain	Domain
A, B	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, B	IPR034887	LARP7, RNA recognition motif 1	Domain
A, B	IPR045180	La domain containing protein	Family
A, B	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q4G0J3	microcephalic primordial dwarfism, Alazami type intellectual disability astrocytic tumor malignant glioma Mental Retardation, Psychosocial oligodendroglioma progressive supranuclear palsy medulloblastoma ovarian cancer primitive neuroectodermal tumor malignant ependymoma microcephaly Pick disease

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.