6KYH

Crystal structure of Shank3 NTD-ANK A42K mutant in complex with HRas

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth F]	SCOP2 Family	Ras-like monodomain GTPases	8099747	4004043	SCOP2 (2022-06-29)
E [auth F]	SCOP2 Superfamily	Ras-like P-loop GTPases	8099748	3002022	SCOP2 (2022-06-29)
F [auth G]	SCOP2B Superfamily	Ras-like P-loop GTPases	8099748	3002022	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Ras-like P-loop GTPases	8099748	3002022	SCOP2B (2022-06-29)
H [auth E]	SCOP2B Superfamily	Ras-like P-loop GTPases	8099748	3002022	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	Ank_2,FERM_f0	e6kyhA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: Ank_2,FERM_f0	ECOD (1.6)
B	Ank_2,FERM_f0	e6kyhB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: Ank_2,FERM_f0	ECOD (1.6)
C	Ank_2,FERM_f0	e6kyhC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: Ank_2,FERM_f0	ECOD (1.6)
D	Ank_2,FERM_f0	e6kyhD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: Ank_2,FERM_f0	ECOD (1.6)
E [auth F]	Ras	e6kyhF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
F [auth G]	Ras	e6kyhG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
G [auth H]	Ras	e6kyhH1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
H [auth E]	Ras	e6kyhE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E [auth F]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
F [auth G]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
G [auth H]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
H [auth E]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF12796	Ankyrin repeats (3 copies) (Ank_2)	Ankyrin repeats (3 copies)	-	Repeat
E [auth F], F [auth G], G [auth H], H [auth E]	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	SH3 and multiple ankyrin repeat domains protein 3	structural constituent of postsynapse structural molecule activity structural constituent of postsynaptic density structural constituent of synapse structural constituent of postsynaptic specialization SH3 domain binding protein binding binding protein domain specific binding signaling receptor complex adaptor activity protein-macromolecule adaptor activity synaptic receptor adaptor activity molecular adaptor activity signaling adaptor activity structural constituent of postsynapse structural molecule activity structural constituent of postsynaptic density structural constituent of synapse structural constituent of postsynaptic specialization SH3 domain binding protein binding binding protein domain specific binding signaling receptor complex adaptor activity protein-macromolecule adaptor activity synaptic receptor adaptor activity molecular adaptor activity signaling adaptor activity scaffold protein binding ionotropic glutamate receptor binding signaling receptor binding glutamate receptor binding cytoskeletal protein binding actin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality positive regulation of cellular process trans-synaptic signaling regulation of biological process regulation of signaling cell surface receptor signaling pathway nervous system process biological regulation cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication cellular process excitatory postsynaptic potential regulation of membrane potential positive regulation of signaling developmental process morphogenesis of embryonic epithelium embryonic epithelial tube formation epithelium development tube development embryonic morphogenesis morphogenesis of an epithelium tube formation tissue development embryo development epithelial tube formation tissue morphogenesis anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis epithelial tube morphogenesis membrane organization protein localization cellular localization postsynapse organization AMPA glutamate receptor clustering glutamate receptor clustering neurotransmitter-gated ion channel clustering localization within membrane protein localization to membrane cellular component organization localization cell junction organization receptor clustering cellular macromolecule localization macromolecule localization cellular component organization or biogenesis synapse organization postsynaptic membrane organization behavior learning learning or memory cognition exploration behavior long-term synaptic potentiation regulation of synaptic plasticity positive regulation of synaptic transmission regulation of long-term synaptic potentiation regulation of cytoskeleton organization regulation of cellular component organization regulation of actin filament-based process negative regulation of biological process regulation of actin filament bundle assembly cellular component biogenesis cellular component assembly actin filament bundle organization negative regulation of cellular process actin filament-based process negative regulation of supramolecular fiber organization regulation of actin filament organization negative regulation of cellular component organization actin cytoskeleton organization negative regulation of cytoskeleton organization actin filament organization negative regulation of actin filament bundle assembly regulation of cellular component biogenesis regulation of organelle organization organelle organization negative regulation of organelle organization regulation of actin cytoskeleton organization actin filament bundle assembly regulation of supramolecular fiber organization supramolecular fiber organization cytoskeleton organization response to peptide response to chemical response to interleukin-17 response to cytokine memory regulation of developmental process cellular developmental process cell projection organization positive regulation of dendritic spine development cell development regulation of dendritic spine development neuron projection development positive regulation of developmental process neurogenesis neuron differentiation dendrite development cell differentiation system development dendritic spine development plasma membrane bounded cell projection organization nervous system development generation of neurons neuron development regulation of behavior regulation of grooming behavior grooming behavior regulation of cellular component size homeostatic process cell volume homeostasis negative regulation of cell volume cellular homeostasis regulation of cell size regulation of anatomical structure size intracellular signal transduction intracellular signaling cassette MAPK cascade regulation of localization regulation of protein localization regulation of AMPA glutamate receptor clustering regulation of receptor clustering regulation of protein localization to membrane regulation of glutamate receptor clustering regulation of cellular localization plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis neuron projection morphogenesis dendritic spine morphogenesis dendritic spine organization dendrite morphogenesis cell morphogenesis involved in neuron differentiation neuron projection organization NMDA glutamate receptor clustering guanylate kinase-associated protein clustering cell junction assembly synapse assembly forebrain development central nervous system neuron differentiation GABAergic neuron differentiation striatum development subpallium development striatal medium spiny neuron differentiation head development forebrain generation of neurons animal organ development brain development central nervous system development telencephalon development forebrain neuron differentiation locomotory behavior regulation of synapse structure or activity regulation of cell projection organization regulation of postsynapse organization regulation of neuron projection development regulation of anatomical structure morphogenesis regulation of synapse organization regulation of dendritic spine morphogenesis regulation of plasma membrane bounded cell projection organization positive regulation of long-term synaptic potentiation synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission, glutamatergic regulation of defense response behavioral fear response defense response regulation of fear response multicellular organismal response to stress regulation of behavioral fear response behavioral defense response fear response regulation of response to stress response to stress brain morphogenesis animal organ morphogenesis positive regulation of cellular component organization regulation of synapse structural plasticity positive regulation of synapse structural plasticity postsynaptic density organization organelle assembly postsynaptic specialization assembly postsynapse assembly excitatory synapse assembly postsynaptic specialization organization postsynaptic density assembly neuromuscular process neuromuscular process controlling balance locomotory exploration behavior glutamate receptor signaling pathway positive regulation of glutamate receptor signaling pathway regulation of glutamate receptor signaling pathway locomotion biosynthetic process metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process cell population proliferation neural precursor cell proliferation biological process involved in intraspecies interaction between organisms social behavior negative regulation of signaling negative regulation of synaptic transmission negative regulation of cell communication long-term synaptic depression regulation of long-term synaptic depression associative learning positive regulation of nervous system development regulation of long-term neuronal synaptic plasticity regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of cell differentiation positive regulation of long-term neuronal synaptic plasticity positive regulation of neurogenesis regulation of neuronal synaptic plasticity regulation of multicellular organismal development positive regulation of cell development positive regulation of multicellular organismal process vocalization behavior gliogenesis glial cell proliferation	cellular anatomical structure intracellular anatomical structure cytoplasm synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection neuron spine dendritic spine somatodendritic compartment postsynapse dendrite cellular anatomical structure intracellular anatomical structure cytoplasm synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection neuron spine dendritic spine somatodendritic compartment postsynapse dendrite dendritic tree cell periphery plasma membrane membrane membrane-bounded organelle cilium ciliary membrane bounding membrane of organelle organelle plasma membrane region organelle membrane cell projection membrane excitatory synapse postsynaptic density neuron to neuron synapse postsynaptic specialization asymmetric synapse
E [auth F], F [auth G], G [auth H], H [auth E]	GTPase HRas	enzyme regulator activity enzyme activator activity phospholipase C activator activity molecular function activator activity phospholipase activator activity molecular function regulator activity lipase activator activity binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding enzyme regulator activity enzyme activator activity phospholipase C activator activity molecular function activator activity phospholipase activator activity molecular function regulator activity lipase activator activity binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GDP binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity pyrophosphatase activity GTPase activity G protein 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	positive regulation of response to wounding wound healing regulation of biological process response to stimulus biological regulation positive regulation of biological process regulation of response to wounding positive regulation of response to stimulus positive regulation of wound healing regulation of response to stimulus response to stress regulation of response to stress regulation of wound healing response to wounding positive regulation of response to wounding wound healing regulation of biological process response to stimulus biological regulation positive regulation of biological process regulation of response to wounding positive regulation of response to stimulus positive regulation of wound healing regulation of response to stimulus response to stress regulation of response to stress regulation of wound healing response to wounding regulation of biosynthetic process regulation of cellular process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process RNA metabolic process positive regulation of miRNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of RNA metabolic process regulation of miRNA metabolic process regulation of nucleobase-containing compound metabolic process miRNA metabolic process positive regulation of nucleobase-containing compound metabolic process primary metabolic process nucleic acid metabolic process positive regulation of RNA metabolic process cellular response to stimulus cell surface receptor signaling pathway signaling insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction enzyme-linked receptor protein signaling pathway cellular response to stress cellular senescence ERBB2 signaling pathway ERBB2-ERBB3 signaling pathway ERBB signaling pathway ERBB3 signaling pathway regulation of neuronal synaptic plasticity regulation of synaptic plasticity trans-synaptic signaling regulation of signaling regulation of long-term neuronal synaptic plasticity modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication regulation of biological quality positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of JNK cascade regulation of intracellular signal transduction JNK cascade intracellular signaling cassette positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade positive regulation of signaling biological process involved in interspecies interaction between organisms response to other organism defense response defense response to protozoan response to external stimulus response to biotic stimulus response to protozoan defense response to other organism response to external biotic stimulus fibroblast proliferation cell population proliferation positive regulation of DNA-templated transcription RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription protein localization regulation of localization cellular localization establishment of protein localization regulation of protein localization protein targeting positive regulation of establishment of protein localization localization regulation of protein targeting to membrane cellular macromolecule localization regulation of protein localization to membrane establishment of protein localization to membrane regulation of establishment of protein localization positive regulation of protein localization to membrane localization within membrane protein localization to membrane establishment of localization protein targeting to membrane regulation of cellular localization regulation of protein targeting macromolecule localization positive regulation of protein localization positive regulation of protein targeting to membrane regulation of cellular component organization positive regulation of cellular component organization cell projection organization ruffle organization plasma membrane bounded cell projection assembly ruffle assembly cellular component biogenesis cellular component organization cellular component assembly positive regulation of cell projection organization cellular component organization or biogenesis plasma membrane bounded cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly regulation of cellular component biogenesis positive regulation of ruffle assembly regulation of plasma membrane bounded cell projection assembly regulation of ruffle assembly cell projection assembly regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly developmental process connective tissue development adipose tissue development animal organ development anatomical structure development tissue development immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process immune response-activating cell surface receptor signaling pathway immune response T cell receptor signaling pathway immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response positive regulation of ERK1 and ERK2 cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade cell death apoptotic signaling pathway apoptotic process intrinsic apoptotic signaling pathway programmed cell death cellular response to ionizing radiation cellular response to radiation cellular response to environmental stimulus response to ionizing radiation cellular response to gamma radiation response to radiation response to abiotic stimulus cellular response to abiotic stimulus response to gamma radiation import into cell transport endocytosis vesicle-mediated transport regulation of cytoskeleton organization regulation of actin filament-based process actin cytoskeleton organization regulation of organelle organization organelle organization regulation of actin cytoskeleton organization actin filament-based process cytoskeleton organization positive regulation of cell population proliferation regulation of fibroblast proliferation regulation of cell population proliferation positive regulation of fibroblast proliferation multicellular organismal process cellular developmental process peripheral nervous system development cell development nervous system development glial cell development multicellular organism development neurogenesis Schwann cell development gliogenesis glial cell differentiation cell differentiation Schwann cell differentiation system development positive regulation of epithelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process regulation of neuron apoptotic process small GTPase-mediated signal transduction Ras protein signal transduction protein localization to synapse regulation of neurotransmitter receptor localization to postsynaptic specialization membrane regulation of protein localization to synapse neurotransmitter receptor localization to postsynaptic specialization membrane regulation of receptor localization to synapse protein localization to postsynaptic specialization membrane protein localization to cell periphery protein localization to postsynaptic membrane regulation of protein localization to cell periphery protein-containing complex localization regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to organelle protein localization to postsynapse protein localization to cell junction receptor localization to synapse oncogene-induced cell senescence cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway cellular response to endogenous stimulus response to hormone cellular response to hormone stimulus response to endogenous stimulus response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to insulin cellular response to insulin stimulus negative regulation of cell population proliferation positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains T-helper 1 type immune response adaptive immune response myelination axon ensheathment ensheathment of neurons cell cycle regulation of cell cycle negative regulation of metabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of macromolecule metabolic process regulation of small GTPase mediated signal transduction regulation of Ras protein signal transduction positive regulation of Ras protein signal transduction positive regulation of small GTPase mediated signal transduction regulation of type II interferon production type II interferon production cytokine production regulation of cytokine production regulation of multicellular organismal process positive regulation of type II interferon production positive regulation of multicellular organismal process positive regulation of cytokine production	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol synapse cell junction glutamatergic synapse membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system Golgi membrane cellular anatomical structure intracellular anatomical structure cytoplasm cytosol synapse cell junction glutamatergic synapse membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex catalytic complex GTPase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR002110	Ankyrin repeat	Repeat
A, B, C, D	IPR001452	SH3 domain	Domain
A, B, C, D	IPR051569	SH3 and multiple ankyrin repeat domains protein	Family
A, B, C, D	IPR001660	Sterile alpha motif domain	Domain
A, B, C, D	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D	IPR013761	Sterile alpha motif/pointed domain superfamily	Homologous Superfamily
A, B, C, D	IPR041489	PDZ domain 6	Domain
A, B, C, D	IPR036034	PDZ superfamily	Homologous Superfamily
A, B, C, D	IPR001478	PDZ domain	Domain
E [auth F], F [auth G], G [auth H], H [auth E]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
E [auth F], F [auth G], G [auth H], H [auth E]	IPR020849	Small GTPase, Ras-type	Family
E [auth F], F [auth G], G [auth H], H [auth E]	IPR005225	Small GTP-binding domain	Domain
E [auth F], F [auth G], G [auth H], H [auth E]	IPR001806	Small GTPase	Family

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.