9IUN | pdb_00009iun

Crystal structure of Trim25 Pspry

External Resource: Annotation

Domain Annotation: SCOP2 Classification
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	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8060026	3000120	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	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
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF13765	SPRY-associated domain (PRY)	SPRY-associated domain	PRY is a 50-60 amino acids domain associated with SPRY domains, adjacent to its N-terminal. PRY and SPRY domains are structurally very similar and consist of a beta sandwich fold [1,2,3]. Distant homologues are domains in butyrophilin/marenostrin/py ...	PRY is a 50-60 amino acids domain associated with SPRY domains, adjacent to its N-terminal. PRY and SPRY domains are structurally very similar and consist of a beta sandwich fold [1,2,3]. Distant homologues are domains in butyrophilin/marenostrin/pyrin, evolutionarily more ancient than SPRY/B30.2 counterpart.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	E3 ubiquitin/ISG15 ligase TRIM25	protein binding binding RIG-I binding signaling receptor binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding nucleic acid binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein protein binding binding RIG-I binding signaling receptor binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding nucleic acid 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 cell adhesion molecule binding cadherin binding ligase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response cellular process activation of immune response positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction regulation of signal transduction regulation of intracellular signal transduction intracellular signaling cassette positive regulation of cellular process regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling response to hormone response to endogenous stimulus response to chemical response to estrogen catabolic process proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress host-mediated suppression of symbiont invasion host-mediated perturbation of symbiont process modulation of process of another organism defense response to virus suppression of viral release by host response to virus modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process antiviral innate immune response regulation of localization localization regulation of protein localization macromolecule localization intracellular protein localization protein polyubiquitination protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein K48-linked ubiquitination protein modification by small protein conjugation protein modification by small protein conjugation or removal exit from host cell viral process viral release from host cell viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction response to nutrient levels response to vitamin D response to lipid response to nutrient response to oxygen-containing compound response to vitamin response to oxidative stress protein monoubiquitination modulation by symbiont of entry into host regulation of viral entry into host cell regulation of viral life cycle regulation of viral process symbiont entry into host cell symbiont entry into host regulation of biological process involved in symbiotic interaction response to peptide response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor	intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule cytosol membrane-bounded organelle nucleus intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen nuclear body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR051051	E3 ubiquitin-protein ligase TRIM/RNF	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR006574	SPRY-associated	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR043136	B30.2/SPRY domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR042753	TRIM25, PRY/SPRY domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR003877	SPRY domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001870	B30.2/SPRY domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR027370	Zinc finger, RING-type, eukaryotic	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR003879	Butyrophylin-like, SPRY domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR058030	TRIM8/14/16/25/29/45/65, coiled-coil region	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001841	Zinc finger, RING-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Pharos: Q14258	atypical teratoid rhabdoid tumor inflammatory bowel disease oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm psoriasis Crohn disease juvenile dermatomyositis ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia subependymal giant cell astrocytoma glioblastoma malignant glioma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma

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.