2YVR | pdb_00002yvr

Crystal structure of MS1043

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	B-box zinc-binding domain	8089238	3001359	SCOP2B (2022-06-29)
A	SCOP2 Family	Type 2 B-box zinc-binding domain	8089237	4003723	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	B-box zinc-binding domain	8089238	3001359	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	Sulfotransfer_3	e2yvrB1	A: alpha bundles	X: Long alpha-hairpin	H: C-terminal UvrC-binding domain of UvrB	T: C-terminal UvrC-binding domain of UvrB	F: Sulfotransfer_3	ECOD (develop294)
A	Sulfotransfer_3	e2yvrA1	A: alpha bundles	X: Long alpha-hairpin	H: C-terminal UvrC-binding domain of UvrB	T: C-terminal UvrC-binding domain of UvrB	F: Sulfotransfer_3	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.160.60	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain	Classic Zinc Finger	CATH (4.3.0)
A	3.30.160.60	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain	Classic Zinc Finger	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00643	B-box zinc finger (zf-B_box)	B-box zinc finger		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Transcription intermediary factor 1-beta	Krueppel-associated box domain binding protein binding binding protein domain specific binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity chromo shadow domain binding Krueppel-associated box domain binding protein binding binding protein domain specific binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity chromo shadow domain binding chromatin binding promoter-specific chromatin binding SUMO transferase activity DNA binding nucleic acid binding kinase activity protein kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding transcription corepressor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	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 peptidyl-lysine modification 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 peptidyl-lysine modification primary metabolic process protein sumoylation macromolecule modification peptidyl-amino acid modification metabolic process cellular process protein metabolic process macromolecule metabolic process protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal developmental process axis elongation epithelium development developmental growth growth morphogenesis of an epithelium tissue development developmental growth involved in morphogenesis anatomical structure morphogenesis tissue morphogenesis convergent extension involved in axis elongation convergent extension anatomical structure development cellular response to stimulus regulation of cellular process positive regulation of biological process regulation of cellular response to stress regulation of primary metabolic process positive regulation of response to stimulus nucleobase-containing compound metabolic process positive regulation of metabolic process positive regulation of DNA repair cellular response to stress regulation of response to stress positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process DNA repair regulation of biological process biological regulation DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair positive regulation of DNA metabolic process regulation of response to stimulus DNA damage response regulation of metabolic process regulation of DNA metabolic process regulation of localization establishment of protein localization cellular localization regulation of protein localization nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of establishment of protein localization regulation of protein localization to nucleus positive regulation of protein transport localization import into nucleus regulation of protein import into nucleus establishment of localization in cell protein import into nucleus positive regulation of intracellular transport intracellular protein localization regulation of intracellular transport regulation of transport positive regulation of protein localization to nucleus regulation of establishment of protein localization positive regulation of protein import into nucleus intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization establishment of protein localization to organelle positive regulation of transport protein transport regulation of cellular localization macromolecule localization protein localization to organelle positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport cellular developmental process cell differentiation animal organ development mesenchyme development mesenchymal cell differentiation epithelial to mesenchymal transition negative regulation of biological process RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic 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 RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process cellular component organization chromatin organization cellular component organization or biogenesis defense response to virus suppression of viral release by host 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 multicellular organism development multicellular organismal process multi-multicellular organism process reproductive process female pregnancy embryo implantation multi-organism reproductive process cellular component biogenesis cellular component assembly chromatin remodeling heterochromatin formation epigenetic regulation of gene expression heterochromatin organization negative regulation of gene expression constitutive heterochromatin formation DNA methylation-dependent constitutive heterochromatin formation negative regulation of gene expression, epigenetic positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process placenta development chordate embryonic development embryonic morphogenesis embryo development in utero embryonic development embryonic placenta morphogenesis embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development regulation of single stranded viral RNA replication via double stranded DNA intermediate viral life cycle negative regulation of single stranded viral RNA replication via double stranded DNA intermediate negative regulation of viral process viral RNA genome replication viral process negative regulation of viral genome replication single stranded viral RNA replication via double stranded DNA intermediate regulation of viral process regulation of viral life cycle viral genome replication regulation of viral genome replication sexual reproduction cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation epigenetic programming of gene expression multicellular organismal reproductive process genomic imprinting germ cell development	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome heterochromatin RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome heterochromatin RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen euchromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001965	Zinc finger, PHD-type	Domain
A, B	IPR047058	Transcription intermediary factor 1-beta, B-box-type 2 zinc finger	Domain
A, B	IPR042713	TIF1-beta, RING finger, HC subclass	Domain
A, B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
A, B	IPR003649	B-box, C-terminal	Domain
A, B	IPR001841	Zinc finger, RING-type	Domain
A, B	IPR001487	Bromodomain	Domain
A, B	IPR037373	Transcription intermediary factor 1-beta, PHD domain	Domain
A, B	IPR019787	Zinc finger, PHD-finger	Domain
A, B	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B	IPR047059	Transcription intermediary factor 1-beta, B-box-type 1 zinc finger	Domain
A, B	IPR000315	B-box-type zinc finger	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q13263	colorectal cancer colorectal adenoma primary hyperoxaluria type 1 diabetes mellitus

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.