5J39 | pdb_00005j39

Crystal Structure of the extended TUDOR domain from TDRD2

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)
A	SCOP2B Superfamily	Tudor/PWWP/MBT domain-like	8039785	3000404	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Tudor/PWWP/MBT domain-like	8039785	3000404	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)
A	RRM_1	e5j39A2	A: a/b three-layered sandwiches	X: jelly-roll	H: Double-stranded beta-helix	T: Double-stranded beta-helix	F: RRM_1	ECOD (v294.1)
B	VTC	e5j39B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F: VTC	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.90	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (4.3.0)
A	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
B	2.40.50.90	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (4.3.0)
B	2.30.30.140	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00567	Tudor domain (TUDOR)	Tudor domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Tudor and KH domain-containing protein	RNA binding binding nucleic acid binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation fertilization regulation of cellular process piRNA processing negative regulation of biological process RNA metabolic process RNA biosynthetic process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation fertilization regulation of cellular process piRNA processing negative regulation of biological process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process regulatory ncRNA processing regulatory ncRNA-mediated gene silencing regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process organelle fission meiotic cell cycle male meiotic nuclear division meiotic cell cycle process cellular component organization nuclear division organelle organization meiotic nuclear division cellular component organization or biogenesis cell cycle cell cycle process multicellular organismal process blastoderm segmentation cellular developmental process anterior/posterior pattern specification anterior/posterior axis specification, embryo segmentation cell development cellular process involved in reproduction in multicellular organism pattern specification process female gamete generation embryo development oocyte development tripartite regional subdivision cellular component biogenesis embryonic axis specification multicellular organism development cellular component assembly anterior/posterior axis specification cell differentiation anatomical structure development cell maturation P granule organization embryonic pattern specification oocyte axis specification oocyte construction oogenesis oocyte anterior/posterior axis specification cytoplasm organization developmental maturation regionalization pole plasm assembly anatomical structure maturation maternal determination of anterior/posterior axis, embryo germ cell development oocyte differentiation axis specification	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule pole plasm membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule pole plasm membraneless organelle supramolecular complex pi-body piP-body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002999	Tudor domain	Domain
A, B	IPR035437	SNase-like, OB-fold superfamily	Homologous Superfamily
A, B	IPR004087	K Homology domain	Domain
A, B	IPR047382	Tudor and KH domain-containing protein, first type I K homology domain	Domain
A, B	IPR047381	Tudor and KH domain-containing protein, second type I K homology domain	Domain
A, B	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
A, B	IPR047380	Tudor domain-containing protein 2-like, tudor domain	Domain
A, B	IPR050621	Tudor domain-containing	Family
A, B	IPR004088	K Homology domain, type 1	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9Y2W6	allergic rhinitis breast cancer inflammatory bowel disease malignant ependymoma ulcerative colitis astrocytic tumor breast carcinoma invasive ductal breast carcinoma malignant mesothelioma attention deficit hyperactivity disorder, inattentive type heart disease lung carcinoma myocardial infarction

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.