4P1Z | pdb_00004p1z

Structure of the MID domain from MIWI

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Mid domain of argonaute	8100551	4004605	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Mid domain of argonaute	8100552	3002210	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Mid domain of argonaute	8100552	3002210	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Mid domain of argonaute	8100552	3002210	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Mid domain of argonaute	8100552	3002210	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	Piwi_N	e4p1zA1	A: a/b three-layered sandwiches	X: Middle domain in Argonaute homologs (From Topology)	H: Middle domain in Argonaute homologs (From Topology)	T: Middle domain in Argonaute homologs	F: Piwi_N	ECOD (1.6)
B	Piwi_N	e4p1zB1	A: a/b three-layered sandwiches	X: Middle domain in Argonaute homologs (From Topology)	H: Middle domain in Argonaute homologs (From Topology)	T: Middle domain in Argonaute homologs	F: Piwi_N	ECOD (1.6)
C	Piwi_N	e4p1zC1	A: a/b three-layered sandwiches	X: Middle domain in Argonaute homologs (From Topology)	H: Middle domain in Argonaute homologs (From Topology)	T: Middle domain in Argonaute homologs	F: Piwi_N	ECOD (1.6)
D	Piwi_N	e4p1zD1	A: a/b three-layered sandwiches	X: Middle domain in Argonaute homologs (From Topology)	H: Middle domain in Argonaute homologs (From Topology)	T: Middle domain in Argonaute homologs	F: Piwi_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.2.0)
B	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.2.0)
C	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.2.0)
D	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.2.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Piwi-like protein 1	mRNA cap binding complex binding protein-containing complex binding binding RNA binding nucleic acid binding single-stranded RNA binding mRNA binding protein binding kinase binding enzyme binding protein kinase binding regulatory RNA binding piRNA binding endonuclease activity mRNA cap binding complex binding protein-containing complex binding binding RNA binding nucleic acid binding single-stranded RNA binding mRNA binding protein binding kinase binding enzyme binding protein kinase binding regulatory RNA binding piRNA binding endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity cation binding ion binding metal ion binding small molecule binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of cellular process negative regulation of biological process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of cellular process negative regulation of biological 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 positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of biological process negative regulation of metabolic process positive regulation of mRNA metabolic process primary metabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process catabolic process positive regulation of biological process RNA metabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process negative regulation of cellular process positive regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process RNA destabilization biological regulation regulation of macromolecule metabolic process regulation of catabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process regulatory ncRNA-mediated post-transcriptional gene silencing positive regulation of catabolic process regulation of mRNA stability regulatory ncRNA-mediated gene silencing negative regulation of biosynthetic process positive regulation of mRNA catabolic process regulation of RNA stability piRNA-mediated gene silencing by mRNA destabilization cellular process regulation of mRNA metabolic process cellular component organization cellular component biogenesis cellular component assembly chromatin organization chromatin remodeling cellular component organization or biogenesis retrotransposition heterochromatin formation epigenetic regulation of gene expression transposable element silencing by piRNA-mediated heterochromatin formation transposable element silencing by heterochromatin formation heterochromatin organization transposition constitutive heterochromatin formation regulatory ncRNA-mediated heterochromatin formation transposable element silencing piRNA-mediated heterochromatin formation negative regulation of gene expression, epigenetic protein biosynthetic process protein metabolic process regulation of protein metabolic process translation regulation of translation cytoplasmic translation regulation of cytoplasmic translation spermatid development spermatid differentiation cellular developmental process cell development cellular process involved in reproduction in multicellular organism cell differentiation anatomical structure development germ cell development sperm DNA condensation nucleus organization organelle organization spermatid nucleus differentiation primary piRNA processing piRNA processing RNA biosynthetic process nucleic acid biosynthetic process RNA processing nucleobase-containing compound biosynthetic process regulatory ncRNA processing meiotic cell cycle cell cycle	intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle pole plasm membraneless organelle cytoplasm supramolecular complex cytosol intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle pole plasm membraneless organelle cytoplasm supramolecular complex cytosol dense body chromatoid body membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B, C, D	IPR014811	Argonaute, linker 1 domain	Domain
A, B, C, D	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, B, C, D	IPR031320	GAGE	Domain
A, B, C, D	IPR003100	PAZ domain	Domain
A, B, C, D	IPR036085	PAZ domain superfamily	Homologous Superfamily
A, B, C, D	IPR003165	Piwi domain	Domain

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.