6QDT

Crystal structure of 14-3-3sigma in complex with a RapGef2 pT740 phosphopeptide

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
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	14-3-3 protein	8082819	3001329	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	14-3-3	e6qdtA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: 14-3-3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.190.20	Mainly Alpha	Up-down Bundle	Delta-Endotoxin	domain 1	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00244	14-3-3 protein (14-3-3)	14-3-3 protein	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	14-3-3 protein sigma	phosphoprotein binding protein binding binding phosphoserine residue binding protein phosphorylated amino acid binding enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase C inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity phosphoprotein binding protein binding binding phosphoserine residue binding protein phosphorylated amino acid binding enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase C inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity molecular sequestering activity protein sequestering activity kinase binding enzyme binding protein kinase binding cell adhesion molecule binding cadherin binding identical protein binding	regulation of biological process regulation of growth regulation of cellular process regulation of cellular component organization positive regulation of biological process biological regulation growth positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis regulation of biological process regulation of growth regulation of cellular process regulation of cellular component organization positive regulation of biological process biological regulation growth positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis positive regulation of cellular process protein localization localization cellular localization cellular macromolecule localization macromolecule localization regulation of localization regulation of protein localization negative regulation of biological process negative regulation of protein localization to plasma membrane negative regulation of cellular process regulation of protein localization to membrane negative regulation of protein localization protein localization to cell periphery protein localization to plasma membrane localization within membrane regulation of protein localization to cell periphery protein localization to membrane negative regulation of protein localization to membrane regulation of cellular localization negative regulation of protein localization to cell periphery regulation of protein localization to plasma membrane establishment of protein localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport intracellular transport protein export from nucleus establishment of localization protein transport establishment of localization in cell nuclear export intracellular protein transport epidermal cell division cell division regulation of epidermal cell division regulation of cell division developmental process establishment of skin barrier epithelium development skin development skin epidermis development epidermis development anatomical structure development animal organ development tissue development regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms negative regulation of response to biotic stimulus response to stimulus regulation of response to external stimulus response to biotic stimulus response to stress regulation of response to stress innate immune response regulation of immune system process response to external biotic stimulus negative regulation of response to stimulus immune response response to other organism defense response regulation of innate immune response negative regulation of immune response defense response to symbiont response to external stimulus regulation of response to stimulus negative regulation of immune system process immune system process defense response to other organism negative regulation of response to external stimulus negative regulation of defense response regulation of immune response negative regulation of innate immune response cell population proliferation epithelial cell proliferation keratinocyte proliferation cellular response to stimulus signaling intracellular signal transduction cell communication protein kinase A signaling signal transduction cell adhesion cell-cell adhesion regulation of cell adhesion regulation of cell-cell adhesion negative regulation of cell population proliferation regulation of stem cell proliferation negative regulation of stem cell proliferation stem cell proliferation regulation of cell population proliferation positive regulation of cell adhesion regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity regulation of primary metabolic process negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process protein metabolic process phosphorus metabolic process protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process negative regulation of molecular function primary metabolic process negative regulation of protein kinase activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process metabolic process macromolecule metabolic process negative regulation of phosphorylation regulation of metabolic process positive regulation of nucleocytoplasmic transport positive regulation of establishment of protein localization positive regulation of protein transport positive regulation of intracellular transport regulation of protein export from nucleus regulation of intracellular transport regulation of transport regulation of establishment of protein localization regulation of nucleocytoplasmic transport regulation of protein transport positive regulation of protein export from nucleus positive regulation of transport positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport cell death apoptotic signaling pathway cellular response to stress DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage apoptotic process intrinsic apoptotic signaling pathway programmed cell death multicellular organismal process keratinization epidermal cell differentiation cellular developmental process epithelial cell differentiation cell differentiation keratinocyte differentiation keratinocyte development cell development epithelial cell development regulation of keratinocyte proliferation negative regulation of keratinocyte proliferation regulation of epithelial cell proliferation negative regulation of epithelial cell proliferation cell cycle regulation of cell cycle RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process apoptotic mitochondrial changes release of cytochrome c from mitochondria organelle organization mitochondrion organization regulation of developmental process regulation of epidermal cell differentiation regulation of cell differentiation regulation of epithelial cell differentiation positive regulation of developmental process multicellular organism development positive regulation of cell differentiation regulation of multicellular organismal process regulation of multicellular organismal development positive regulation of epidermis development positive regulation of epithelial cell differentiation regulation of epidermis development positive regulation of epidermal cell differentiation	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol intracellular organelle extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol intracellular organelle nucleus intracellular membrane-bounded organelle
B	Rap guanine nucleotide exchange factor 2	binding lipid binding diacylglycerol binding protein binding WW domain binding protein domain specific binding GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity cation binding binding lipid binding diacylglycerol binding protein binding WW domain binding protein domain specific binding GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity cation binding ion binding calcium ion binding metal ion binding small molecule binding anion binding phosphatidic acid binding phospholipid binding PDZ domain binding adenyl ribonucleotide binding cyclic nucleotide binding nucleotide binding purine ribonucleotide binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding cAMP binding adenyl nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding guanyl-nucleotide exchange factor activity adrenergic receptor binding signaling receptor binding G protein-coupled receptor binding beta-1 adrenergic receptor binding	cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction Rap protein signal transduction multicellular organismal process cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction Rap protein signal transduction multicellular organismal process regulation of developmental process cellular developmental process positive regulation of biological process regulation of vasculogenesis regulation of cell differentiation vasculogenesis positive regulation of developmental process multicellular organism development tube morphogenesis positive regulation of cell differentiation cell differentiation anatomical structure development positive regulation of cellular process blood vessel development system development developmental process blood vessel morphogenesis tube development vasculature development circulatory system development anatomical structure morphogenesis positive regulation of vasculogenesis epithelium development endothelial cell differentiation endothelium development cell development tissue development epithelial cell differentiation endothelial cell development establishment of endothelial intestinal barrier epithelial cell development establishment of endothelial barrier protein localization localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane pigment metabolic process regulation of melanin biosynthetic process organic hydroxy compound metabolic process negative regulation of biological process pigment biosynthetic process negative regulation of secondary metabolite biosynthetic process melanin metabolic process secondary metabolic process secondary metabolite biosynthetic process negative regulation of cellular process regulation of biosynthetic process negative regulation of metabolic process regulation of secondary metabolite biosynthetic process regulation of secondary metabolic process biosynthetic process negative regulation of biosynthetic process negative regulation of melanin biosynthetic process organic hydroxy compound biosynthetic process phenol-containing compound metabolic process phenol-containing compound biosynthetic process metabolic process melanin biosynthetic process regulation of metabolic process cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor MAPK cascade plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly microvillus organization cellular component organization cellular component biogenesis cellular component assembly microvillus assembly cellular component organization or biogenesis cell projection assembly regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization neuron projection development neurogenesis neuron differentiation positive regulation of neuron projection development positive regulation of cell projection organization regulation of cell projection organization nervous system development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization adenylate cyclase-activating adrenergic receptor signaling pathway adenylate cyclase-activating G protein-coupled receptor signaling pathway adrenergic receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway regulation of cellular component biogenesis regulation of cell junction assembly cell junction organization cell junction assembly forebrain development central nervous system neuron development central nervous system neuron differentiation head development forebrain generation of neurons animal organ development brain development forebrain neuron development central nervous system development forebrain neuron differentiation regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process regulation of phosphate metabolic process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of transferase activity positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity primary metabolic process regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process positive regulation of protein serine/threonine kinase activity regulation of protein serine/threonine kinase activity regulation of cAMP-dependent protein kinase activity positive regulation of cAMP-dependent protein kinase activity cAMP-mediated signaling ventricular system development cellular response to nitrogen compound response to organophosphorus cellular response to organic cyclic compound cellular response to cGMP response to oxygen-containing compound response to nitrogen compound response to cGMP response to purine-containing compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to organic cyclic compound regulation of protein binding positive regulation of protein binding regulation of binding positive regulation of binding regulation of leukocyte apoptotic process dendritic cell apoptotic process positive regulation of programmed cell death positive regulation of dendritic cell apoptotic process leukocyte apoptotic process regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process regulation of dendritic cell apoptotic process apoptotic process positive regulation of leukocyte apoptotic process programmed cell death neuropeptide signaling pathway cell surface receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway brain-derived neurotrophic factor receptor signaling pathway enzyme-linked receptor protein signaling pathway nerve growth factor signaling pathway neurotrophin signaling pathway positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling positive regulation of hydrolase activity regulation of hydrolase activity regulation of GTPase activity positive regulation of GTPase activity positive regulation of locomotion regulation of cell motility regulation of neuron migration positive regulation of cell migration positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion neuron migration regulation of locomotion positive regulation of neuron migration response to cAMP cellular response to cAMP regulation of neurogenesis regulation of cell development cell projection morphogenesis neuron projection morphogenesis regulation of dendrite morphogenesis negative regulation of cellular component organization regulation of dendrite development negative regulation of multicellular organismal process plasma membrane bounded cell projection morphogenesis cell morphogenesis regulation of nervous system development negative regulation of neurogenesis dendrite development negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation negative regulation of cell projection organization regulation of anatomical structure morphogenesis regulation of multicellular organismal development negative regulation of dendrite morphogenesis negative regulation of developmental process dendrite morphogenesis cell morphogenesis involved in neuron differentiation negative regulation of cell development Ras protein signal transduction negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation regulation of synaptic plasticity trans-synaptic signaling modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of biological quality	cellular anatomical structure membrane cell-cell junction anchoring junction cell junction intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle cellular anatomical structure membrane cell-cell junction anchoring junction cell junction intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle vesicle endocytic vesicle cell projection neuron projection plasma membrane bounded cell projection perinuclear region of cytoplasm somatodendritic compartment cell body neuronal cell body cell periphery apical part of cell plasma membrane plasma membrane region apical plasma membrane protein-containing complex synapse apical junction complex bicellular tight junction tight junction endosome endomembrane system late endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR023409	14-3-3 protein, conserved site	Conserved Site
A	IPR023410	14-3-3 domain	Domain
A	IPR037435	14-3-3 protein sigma	Family
A	IPR036815	14-3-3 domain superfamily	Homologous Superfamily
A	IPR000308	14-3-3 protein	Family
B	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily
B	IPR000595	Cyclic nucleotide-binding domain	Domain
B	IPR036964	Ras guanine-nucleotide exchange factor, catalytic domain superfamily	Homologous Superfamily
B	IPR023578	Ras guanine nucleotide exchange factor domain superfamily	Homologous Superfamily
B	IPR000651	Ras-like guanine nucleotide exchange factor, N-terminal	Domain
B	IPR001895	Ras guanine-nucleotide exchange factors catalytic domain	Domain
B	IPR000159	Ras-associating domain	Domain
B	IPR036034	PDZ superfamily	Homologous Superfamily
B	IPR001478	PDZ domain	Domain
B	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily
B	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P31947	esophageal squamous cell carcinoma squamous cell carcinoma esophageal cancer Lymphatic Metastasis keloid lung adenocarcinoma malignant pancreatic neoplasm non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm sarcoidosis cystic fibrosis interstitial cystitis malignant mesothelioma oral cavity neoplasm esophageal squamous cell carcinoma squamous cell carcinoma esophageal cancer Lymphatic Metastasis keloid lung adenocarcinoma malignant pancreatic neoplasm non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm sarcoidosis cystic fibrosis interstitial cystitis malignant mesothelioma oral cavity neoplasm pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia atypical teratoid rhabdoid tumor spina bifida diabetes mellitus malignant ependymoma neoplasm of esophagus osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis breast cancer ductal breast carcinoma in situ hepatocellular carcinoma large cell medulloblastoma lung cancer malignant glioma
B	Pharos: Q9Y4G8	early myoclonic encephalopathy Myoclonic Astatic Epilepsy osteosarcoma pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma astrocytic tumor breast cancer familial infantile myoclonic epilepsy malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis atypical teratoid rhabdoid tumor cystic fibrosis early myoclonic encephalopathy Myoclonic Astatic Epilepsy osteosarcoma pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma astrocytic tumor breast cancer familial infantile myoclonic epilepsy malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis atypical teratoid rhabdoid tumor cystic fibrosis glioblastoma large cell medulloblastoma malignant glioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma Pick disease spina bifida Dravet syndrome epilepsy hereditary spastic paraplegia lung cancer malignant mesothelioma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
B	TPO	Parent Component: THR RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0038 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , O-phospho-L-threonine MOD:00047

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.