3ML4 | pdb_00003ml4

Crystal structure of a complex between Dok7 PH-PTB and the MuSK juxtamembrane region

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Ribosomal_L20	e3ml4D1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: Ribosomal_L20	ECOD (develop294)
D	CBS	e3ml4D2	A: alpha bundles	X: Thioredoxin-like	H: ClpP/crotonase	T: ClpP/crotonase	F: CBS	ECOD (develop294)
C	CBS	e3ml4C1	A: alpha bundles	X: Thioredoxin-like	H: ClpP/crotonase	T: ClpP/crotonase	F: CBS	ECOD (develop294)
B	Ribosomal_L20	e3ml4B1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: Ribosomal_L20	ECOD (develop294)
B	LAP1_C	e3ml4B2	A: alpha bundles	X: DP domain	H: DP domain	T: DP domain	F: LAP1_C	ECOD (develop294)
A	Peptidase_S51	e3ml4A1	A: alpha bundles	X: Cystatin-like	H: Cytochrome b5-like heme/steroid binding domain	T: Cytochrome b5-like heme/steroid binding domain	F: Peptidase_S51	ECOD (develop294)
A	CBS	e3ml4A2	A: alpha bundles	X: Thioredoxin-like	H: ClpP/crotonase	T: ClpP/crotonase	F: CBS	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
C	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02174	PTB domain (IRS-1 type) (IRS)	PTB domain (IRS-1 type)		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	Muscle, skeletal receptor tyrosine-protein kinase	molecular transducer activity catalytic activity, acting on a protein kinase activity protein kinase activity signaling receptor activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein tyrosine kinase activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity catalytic activity binding molecular transducer activity catalytic activity, acting on a protein kinase activity protein kinase activity signaling receptor activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein tyrosine kinase activity transmembrane receptor protein tyrosine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity catalytic activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding protein binding Wnt-protein binding PDZ domain binding protein domain specific binding kinase binding enzyme binding protein kinase binding	regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process cellular component organization localization neuromuscular junction development receptor clustering synapse organization cellular component organization or biogenesis intracellular protein localization regulation of skeletal muscle acetylcholine-gated channel clustering regulation of receptor clustering regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process cellular component organization localization neuromuscular junction development receptor clustering synapse organization cellular component organization or biogenesis intracellular protein localization regulation of skeletal muscle acetylcholine-gated channel clustering regulation of receptor clustering postsynaptic membrane organization regulation of protein localization to membrane positive regulation of cellular process membrane organization regulation of biological process postsynapse organization positive regulation of receptor clustering skeletal muscle acetylcholine-gated channel clustering biological regulation positive regulation of protein localization to membrane localization within membrane protein localization to membrane positive regulation of skeletal muscle acetylcholine-gated channel clustering cell junction organization regulation of cellular localization macromolecule localization positive regulation of protein localization cellular process regulation of biosynthetic 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 positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process neuron apoptotic process positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process positive regulation of neuron apoptotic process programmed cell death regulation of neuron apoptotic process behavior multicellular organismal process system process learning or memory nervous system process cognition memory response to electrical stimulus response to stimulus response to abiotic stimulus RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription regulation of growth regulation of cellular component organization regulation of developmental process developmental growth cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly regulation of synaptic assembly at neuromuscular junction anatomical structure development regulation of synapse structure or activity regulation of biological quality regulation of synapse assembly regulation of neuromuscular junction development system development developmental process regulation of developmental growth growth nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization synaptic assembly at neuromuscular junction synapse assembly regulation of protein modification process positive regulation of protein metabolic process positive regulation of protein modification process protein metabolic process prenylation protein modification process regulation of protein metabolic process regulation of protein geranylgeranylation positive regulation of protein geranylgeranylation protein geranylgeranylation macromolecule modification protein prenylation cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction positive regulation of signal transduction signaling regulation of small GTPase mediated signal transduction regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling Rac protein signal transduction positive regulation of intracellular signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction regulation of response to stimulus regulation of cell communication positive regulation of small GTPase mediated signal transduction positive regulation of signaling cellular developmental process cell differentiation cell surface receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of phosphorylation regulation of protein phosphorylation positive regulation of phosphate metabolic process phosphate-containing compound metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of metabolic process negative regulation of biological process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of cellular process negative regulation of macromolecule metabolic process positive regulation of neuromuscular junction development positive regulation of nervous system development positive regulation of developmental process positive regulation of developmental growth positive regulation of synaptic assembly at neuromuscular junction positive regulation of multicellular organismal process positive regulation of synapse assembly positive regulation of cellular component organization regulation of nervous system development regulation of multicellular organismal process regulation of multicellular organismal development positive regulation of cellular component biogenesis positive regulation of cell junction assembly positive regulation of growth modulation of chemical synaptic transmission synaptic signaling trans-synaptic signaling positive regulation of synaptic transmission, cholinergic cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling synaptic transmission, cholinergic regulation of synaptic transmission, cholinergic long-term synaptic potentiation regulation of synaptic plasticity	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane protein-containing complex cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane protein-containing complex receptor complex neuromuscular junction cell projection
A, B, C, D	Protein Dok-7	binding phospholipid binding lipid binding phosphatidylinositol binding protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity protein binding kinase binding enzyme binding protein kinase binding	cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling Rac protein signal transduction biological regulation positive regulation of intracellular signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction regulation of response to stimulus regulation of cell communication cellular process positive regulation of small GTPase mediated signal transduction positive regulation of signaling cell surface receptor signaling pathway enzyme-linked receptor protein signaling pathway cellular component organization cell junction organization neuromuscular junction development synapse organization cellular component organization or biogenesis positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification positive regulation of macromolecule metabolic process phosphorus metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process regulation of molecular function positive regulation of kinase activity regulation of protein tyrosine kinase activity regulation of kinase activity macromolecule modification regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process peptidyl-tyrosine modification positive regulation of molecular function positive regulation of protein modification process positive regulation of peptidyl-tyrosine phosphorylation protein metabolic process positive regulation of protein kinase activity positive regulation of protein tyrosine kinase activity regulation of peptidyl-tyrosine phosphorylation positive regulation of catalytic activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of phosphorylation peptidyl-tyrosine phosphorylation localization cellular localization receptor clustering macromolecule localization intracellular protein localization localization within membrane protein localization to membrane	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle neuromuscular junction synapse cell junction cell periphery postsynapse postsynaptic membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle neuromuscular junction synapse cell junction cell periphery postsynapse postsynaptic membrane membrane plasma membrane plasma membrane region synaptic membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F, G, H	IPR036790	Frizzled cysteine-rich domain superfamily	Homologous Superfamily
E, F, G, H	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
E, F, G, H	IPR008266	Tyrosine-protein kinase, active site	Active Site
E, F, G, H	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
E, F, G, H	IPR000719	Protein kinase domain	Domain
E, F, G, H	IPR003599	Immunoglobulin domain subtype	Domain
E, F, G, H	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
E, F, G, H	IPR007110	Immunoglobulin-like domain	Domain
E, F, G, H	IPR020067	Frizzled domain	Domain
E, F, G, H	IPR017441	Protein kinase, ATP binding site	Binding Site
E, F, G, H	IPR003598	Immunoglobulin subtype 2	Domain
E, F, G, H	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
E, F, G, H	IPR013098	Immunoglobulin I-set	Domain
E, F, G, H	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
E, F, G, H	IPR050122	Receptor Tyrosine Kinase	Family
A, B, C, D	IPR001849	Pleckstrin homology domain	Domain
A, B, C, D	IPR037748	Dok-7, PTB domain	Domain
A, B, C, D	IPR002404	IRS-type PTB domain	Domain
A, B, C, D	IPR037747	Dok-7, PH domain	Domain
A, B, C, D	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR037746	Protein Dok-7	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
E, F, G, H	PTR	Parent Component: TYR RESID: AA0039 PSI-MOD : O4'-phospho-L-tyrosine MOD:00048
A, B, C, D	MSE	Parent Component: MET RESID: AA0039