6D12 | pdb_00006d12

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)
B	RRM_3	e6d12B1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_3	ECOD (1.6)
A	RRM_3	e6d12A1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_3	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
C	human 7SK RNA stem-loop 4	-	-	-
A, B	La-related protein 7	RNA binding U6 snRNA binding snRNA binding binding nucleic acid binding 7SK snRNA 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 transcription elongation by RNA polymerase II regulation of cellular process negative regulation of biological process 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 transcription elongation by RNA polymerase II regulation of cellular process negative regulation of biological process RNA metabolic process negative regulation of transcription elongation by RNA polymerase II regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic 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 negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process negative regulation of DNA-templated transcription, elongation regulation of gene expression DNA-templated transcription elongation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule 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 positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of snRNA transcription by RNA polymerase II positive regulation of metabolic process snRNA metabolic process positive regulation of biosynthetic process regulation of snRNA transcription by RNA polymerase II snRNA transcription by RNA polymerase II positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of transcription by RNA polymerase II snRNA transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process mRNA processing mRNA metabolic process RNA processing snRNA modification snRNA processing snRNA 2'-O-methylation snRNA methylation U6 2'-O-snRNA methylation macromolecule methylation RNA modification methylation macromolecule modification RNA methylation regulation of localization regulation of protein localization positive regulation of protein localization to Cajal body positive regulation of protein localization to nucleus regulation of protein localization to nucleus regulation of protein localization to Cajal body protein localization to nucleus protein localization to nucleoplasm localization macromolecule localization protein localization to organelle positive regulation of protein localization intracellular protein localization protein localization to Cajal body protein localization to nuclear 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 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 sno(s)RNA metabolic process box C/D sno(s)RNA 3'-end processing RNA 3'-end processing	cellular anatomical structure intracellular anatomical structure cytoplasm 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 cellular anatomical structure intracellular anatomical structure cytoplasm 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

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 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.