Annotations: 5JIU

The crystal structure of RanBPM/9 IUS-SPRY domain in complex with DDX-4 peptide

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	CagX	e5jiuA1	A: alpha arrays	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CagX	ECOD (v295.2)
B	CagX	e5jiuB1	A: alpha arrays	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CagX	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.920	Mainly Beta	Sandwich	Jelly Rolls	SPRY domain	CATH (4.3.0)
B	2.60.120.920	Mainly Beta	Sandwich	Jelly Rolls	SPRY domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00622	SPRY domain (SPRY)	SPRY domain	SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of ...	SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development [1,2,3,4]. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region [2]. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. Distant homologues are domains in butyrophilin/ marenostrin/pyrin [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Ran-binding protein 9	small GTPase binding protein binding binding enzyme binding GTPase binding protein-macromolecule adaptor activity molecular adaptor activity	amyloid precursor protein catabolic process regulation of biological process regulation of cellular process positive regulation of protein metabolic process regulation of protein metabolic process biological regulation positive regulation of biological process primary metabolic process regulation of amyloid precursor protein catabolic process regulation of macromolecule metabolic process regulation of primary metabolic process positive regulation of metabolic process metabolic process cellular process amyloid precursor protein catabolic process regulation of biological process regulation of cellular process positive regulation of protein metabolic process regulation of protein metabolic process biological regulation positive regulation of biological process primary metabolic process regulation of amyloid precursor protein catabolic process regulation of macromolecule metabolic process regulation of primary metabolic process positive regulation of metabolic process metabolic process cellular process positive regulation of macromolecule metabolic process protein metabolic process macromolecule metabolic process positive regulation of amyloid precursor protein catabolic process amyloid precursor protein metabolic process regulation of metabolic process positive regulation of cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process signal transduction regulation of signaling negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade 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 organelle organization cytoskeleton organization protein polymerization microtubule cytoskeleton organization microtubule polymerization microtubule polymerization or depolymerization microtubule nucleation microtubule-based process supramolecular fiber organization	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane GID complex protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex membrane-bounded organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane GID complex protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoskeleton membraneless organelle microtubule associated complex intracellular membraneless organelle microtubule cytoskeleton nuclear body
C, D	Probable ATP-dependent RNA helicase DDX4	binding nucleic acid binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding binding nucleic acid binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity RNA helicase activity ATP-dependent activity, acting on RNA macromolecular conformation isomerase activity	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 cell development cellular process involved in reproduction in multicellular organism anatomical structure development 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 cell development cellular process involved in reproduction in multicellular organism anatomical structure development germ cell development 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 secondary piRNA processing 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 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 sperm motility cilium movement involved in cell motility cilium or flagellum-dependent cell motility cilium-dependent cell motility flagellated sperm motility microtubule-based movement microtubule-based process cilium movement cell motility cellular component biogenesis cellular component assembly chromatin organization chromatin remodeling 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 regulation of localization localization regulation of protein localization macromolecule localization intracellular protein localization male meiosis I meiosis I meiosis I cell cycle process transposable element silencing by piRNA-mediated DNA methylation DNA methylation-dependent constitutive heterochromatin formation gene silencing by piRNA-directed DNA methylation	intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytosol chromatoid body intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytosol chromatoid body pi-body piP-body perinuclear region of cytoplasm protein-containing complex ribonucleoprotein complex membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR035782	Ran binding protein 9/10, SPRY domain	Domain
A, B	IPR024964	CTLH/CRA C-terminal to LisH motif domain	Domain
A, B	IPR006595	CTLH, C-terminal LisH motif	Domain
A, B	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B	IPR043136	B30.2/SPRY domain superfamily	Homologous Superfamily
A, B	IPR006594	LIS1 homology motif	Conserved Site
A, B	IPR013144	CRA domain	Domain
A, B	IPR003877	SPRY domain	Domain
A, B	IPR001870	B30.2/SPRY domain	Domain
A, B	IPR050618	Ubiquitination and Signaling Pathway Regulator	Family
C, D	IPR000629	ATP-dependent RNA helicase DEAD-box, conserved site	Conserved Site
C, D	IPR014014	RNA helicase, DEAD-box type, Q motif	Conserved Site
C, D	IPR011545	DEAD/DEAH-box helicase domain	Domain
C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C, D	IPR001650	Helicase, C-terminal domain-like	Domain
C, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	: Q96S59	breast cancer invasive ductal breast carcinoma osteosarcoma psoriasis breast carcinoma lung adenocarcinoma Pick disease schizophrenia esophageal adenocarcinoma medulloblastoma plasma cell myeloma spina bifida

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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.