5NVL

Crystal structure of the human 4EHP-GIGYF2 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5nvla1	Alpha and beta proteins (a+b)	eIF4e-like	eIF4e-like	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d5nvla2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d5nvlc1	Alpha and beta proteins (a+b)	eIF4e-like	eIF4e-like	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d5nvlc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	eIF4e-like	8072946	3001871	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	eIF4e-like	8072946	3001871	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	IF4E	e5nvlA1	A: a+b two layers	X: Translation initiation factor eIF4e and phosphothreonine lyase (From Topology)	H: Translation initiation factor eIF4e and phosphothreonine lyase (From Topology)	T: Translation initiation factor eIF4e and phosphothreonine lyase	F: IF4E	ECOD (1.6)
C	IF4E	e5nvlC1	A: a+b two layers	X: Translation initiation factor eIF4e and phosphothreonine lyase (From Topology)	H: Translation initiation factor eIF4e and phosphothreonine lyase (From Topology)	T: Translation initiation factor eIF4e and phosphothreonine lyase	F: IF4E	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.760.10	Alpha Beta	2-Layer Sandwich	RNA Cap, Translation Initiation Factor Eif4e	RNA Cap, Translation Initiation Factor Eif4e	CATH (4.3.0)
C	3.30.760.10	Alpha Beta	2-Layer Sandwich	RNA Cap, Translation Initiation Factor Eif4e	RNA Cap, Translation Initiation Factor Eif4e	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF01652	Eukaryotic initiation factor 4E (IF4E)	Eukaryotic initiation factor 4E	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Eukaryotic translation initiation factor 4E type 2	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding RNA binding RNA 7-methylguanosine cap binding RNA cap binding mRNA cap binding mRNA binding ubiquitin protein ligase binding protein binding translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding RNA binding RNA 7-methylguanosine cap binding RNA cap binding mRNA cap binding mRNA binding ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding	cellular biosynthetic process cellular metabolic process primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process translational initiation metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of cellular process negative regulation of biological process cellular biosynthetic process cellular metabolic process primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process translational initiation metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process cellular component disassembly ribosome disassembly rescue of stalled ribosome cellular component organization organelle organization organelle disassembly translational elongation cellular component organization or biogenesis cellular response to stimulus response to stimulus regulation of type I interferon-mediated signaling pathway response to cytokine regulation of signal transduction response to biotic stimulus cell communication interferon-mediated signaling pathway cellular response to type I interferon cellular response to cytokine stimulus regulation of immune system process signal transduction immune response response to other organism regulation of innate immune response negative regulation of immune response response to external stimulus regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus regulation of response to stimulus response to chemical defense response to other organism negative regulation of response to external stimulus negative regulation of defense response regulation of immune response response to type I interferon regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus negative regulation of response to biotic stimulus negative regulation of signaling signaling negative regulation of cell communication cytokine-mediated signaling pathway response to stress regulation of response to stress innate immune response response to external biotic stimulus regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus defense response regulation of cytokine-mediated signaling pathway defense response to symbiont negative regulation of signal transduction response to peptide negative regulation of immune system process negative regulation of cytokine-mediated signaling pathway immune system process type I interferon-mediated signaling pathway regulation of cell communication negative regulation of type I interferon-mediated signaling pathway negative regulation of innate immune response regulation of translational initiation negative regulation of translational initiation miRNA-mediated gene silencing by inhibition of translation regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing miRNA-mediated post-transcriptional gene silencing post-transcriptional gene silencing	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle supramolecular complex P-body non-membrane-bounded organelle protein-containing complex eukaryotic translation initiation factor 4F complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle supramolecular complex P-body non-membrane-bounded organelle protein-containing complex eukaryotic translation initiation factor 4F complex RNA cap binding complex intracellular protein-containing complex
B, D	GRB10-interacting GYF protein 2	RNA binding binding organic cyclic compound binding nucleic acid binding protein binding proline-rich region binding cell adhesion molecule binding cadherin binding molecular adaptor activity	regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process cellular metabolic process regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process adult locomotory behavior behavior multicellular organismal process adult behavior locomotory behavior multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells within a tissue anatomical structure homeostasis tissue homeostasis homeostasis of number of cells cellular component disassembly ribosome disassembly rescue of stalled ribosome cellular component organization organelle organization organelle disassembly translational elongation cellular component organization or biogenesis cellular response to stimulus response to stimulus regulation of type I interferon-mediated signaling pathway response to cytokine regulation of signal transduction response to biotic stimulus cell communication interferon-mediated signaling pathway cellular response to type I interferon cellular response to cytokine stimulus regulation of immune system process signal transduction immune response response to other organism regulation of innate immune response negative regulation of immune response response to external stimulus regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus regulation of response to stimulus response to chemical defense response to other organism negative regulation of response to external stimulus negative regulation of defense response regulation of immune response response to type I interferon regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus negative regulation of response to biotic stimulus negative regulation of signaling signaling negative regulation of cell communication cytokine-mediated signaling pathway response to stress regulation of response to stress innate immune response response to external biotic stimulus regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus defense response regulation of cytokine-mediated signaling pathway defense response to symbiont negative regulation of signal transduction response to peptide negative regulation of immune system process negative regulation of cytokine-mediated signaling pathway immune system process type I interferon-mediated signaling pathway regulation of cell communication negative regulation of type I interferon-mediated signaling pathway negative regulation of innate immune response post-transcriptional gene silencing developmental process cellular developmental process cell differentiation in spinal cord nervous system development generation of neurons multicellular organism development central nervous system neuron differentiation neurogenesis spinal cord development central nervous system development neuron differentiation cell differentiation anatomical structure development ventral spinal cord development spinal cord motor neuron differentiation system development system process nervous system process neuromuscular process neuromuscular process controlling balance insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway regulation of cell cycle phase transition DNA damage checkpoint signaling negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling cellular response to stress mitotic DNA damage checkpoint signaling negative regulation of cell cycle phase transition cell cycle regulation of cell cycle cell cycle process negative regulation of G1/S transition of mitotic cell cycle mitotic G1/S transition checkpoint signaling negative regulation of mitotic cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic G1 DNA damage checkpoint signaling mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle DNA damage response signal transduction in response to DNA damage G1/S transition of mitotic cell cycle mitotic cell cycle phase transition multicellular organismal movement musculoskeletal movement feeding behavior translational initiation regulation of translational initiation negative regulation of translational initiation nucleobase-containing compound metabolic process positive regulation of metabolic process 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 positive regulation of nucleobase-containing compound metabolic process positive regulation of mRNA metabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process nucleic acid catabolic process catabolic process positive regulation of biological process RNA metabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process RNA destabilization regulation of catabolic process mRNA metabolic process nucleic acid metabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process multicellular organism growth developmental growth growth post-embryonic development	somatodendritic compartment cell body perikaryon neuronal cell body cellular anatomical entity intracellular anatomical structure cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle cytoplasm supramolecular complex non-membrane-bounded organelle somatodendritic compartment cell body perikaryon neuronal cell body cellular anatomical entity intracellular anatomical structure cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle cytoplasm supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule membrane membrane-bounded organelle vesicle cell projection proximal dendrite dendrite dendritic tree neuron projection plasma membrane bounded cell projection cytosol protein-containing complex Golgi apparatus intracellular membrane-bounded organelle endomembrane system endosome intracellular vesicle cytoplasmic vesicle endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR019770	Eukaryotic translation initiation factor 4E (eIF-4E), conserved site	Conserved Site
A, C	IPR023398	Translation Initiation factor eIF- 4e-like	Homologous Superfamily
A, C	IPR001040	Translation Initiation factor eIF- 4e	Family
B, D	IPR035445	GYF-like domain superfamily	Homologous Superfamily
B, D	IPR051640	GRB10-interacting GYF	Family
B, D	IPR003169	GYF domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: O60573	amyotrophic lateral sclerosis breast cancer glioblastoma lymphoplasmacytic lymphoma medulloblastoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor astrocytic tumor dermatomyositis large cell medulloblastoma malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor amyotrophic lateral sclerosis breast cancer glioblastoma lymphoplasmacytic lymphoma medulloblastoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor astrocytic tumor dermatomyositis large cell medulloblastoma malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor diabetes mellitus lung cancer malignant glioma ovarian cancer plasma cell myeloma
B, D	Pharos: Q6Y7W6	Parkinson disease 11, autosomal dominant, susceptibility to Neurodevelopmental Disorders tuberculosis anorexia nervosa endogenous depression Leber congenital amaurosis 16 osteosarcoma spina bifida attention deficit hyperactivity disorder, inattentive type bipolar disorder heart disease neurodegenerative disease ovarian cancer primitive neuroectodermal tumor Tourette syndrome Parkinson disease 11, autosomal dominant, susceptibility to Neurodevelopmental Disorders tuberculosis anorexia nervosa endogenous depression Leber congenital amaurosis 16 osteosarcoma spina bifida attention deficit hyperactivity disorder, inattentive type bipolar disorder heart disease neurodegenerative disease ovarian cancer primitive neuroectodermal tumor Tourette syndrome autism spectrum disorder breast cancer intellectual disability Parkinson disease snowflake vitreoretinal degeneration

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.