4RCA

Crystal structure of human PTPdelta and human Slitrk1 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)
B	d4rcab_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	automated matches	automated matches	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)
B	SCOP2 Family	Ngr ectodomain-like	8073300	4002278	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	L domain-like	8073301	3001010	SCOP2 (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	I-set	e4rcaA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set	ECOD (1.6)
A	I-set_2	e4rcaA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_2	ECOD (1.6)
B	LRR_8_1	e4rcaB1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_8_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13927	Immunoglobulin domain (Ig_3)	Immunoglobulin domain	This family contains immunoglobulin-like domains.	Domain
A	PF07679	Immunoglobulin I-set domain (I-set)	Immunoglobulin I-set domain		Domain
B	PF13855	Leucine rich repeat (LRR_8)	Leucine rich repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Receptor-type tyrosine-protein phosphatase delta	phosphoric ester hydrolase activity phosphoprotein phosphatase activity non-membrane spanning protein tyrosine phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity protein binding binding signaling receptor binding histone modifying activity histone phosphatase activity phosphoric ester hydrolase activity phosphoprotein phosphatase activity non-membrane spanning protein tyrosine phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity protein binding binding signaling receptor binding histone modifying activity histone phosphatase activity histone H2AXY142 phosphatase activity molecular transducer activity signaling receptor activity transmembrane receptor protein phosphatase activity transmembrane signaling receptor activity transmembrane receptor protein tyrosine phosphatase activity cell adhesion molecule binding protein tyrosine phosphatase activity, metal-dependent	positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development regulation of multicellular organismal process regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of synapse assembly regulation of biological quality positive regulation of cellular process system development developmental process regulation of multicellular organismal development regulation of biological process positive regulation of cellular component biogenesis biological regulation nervous system development regulation of cellular component biogenesis regulation of cell junction assembly positive regulation of cell junction assembly regulation of synapse organization cell junction organization positive regulation of multicellular organismal process cellular process synapse assembly positive regulation of synapse assembly cellular response to endogenous stimulus cellular response to growth factor stimulus cellular response to platelet-derived growth factor stimulus response to stimulus response to endogenous stimulus response to growth factor response to platelet-derived growth factor membrane organization presynapse organization membrane biogenesis presynaptic membrane assembly membrane assembly presynaptic membrane organization presynapse assembly cell adhesion cell-cell adhesion synaptic membrane adhesion cell-cell adhesion via plasma-membrane adhesion molecules response to decreased oxygen levels cellular response to stimulus cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to chemical stimulus cellular response to stress response to hypoxia response to stress response to chemical response to oxygen levels response to abiotic stimulus regulation of response to stimulus immune response immune system process regulation of immune response regulation of immune system process heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules cellular developmental process generation of neurons neurogenesis neuron differentiation cell differentiation signaling signal transduction cell communication trans-synaptic signaling synaptic signaling trans-synaptic signaling by trans-synaptic complex cell-cell signaling cell surface receptor signaling pathway via STAT negative regulation of signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication negative regulation of cellular process regulation of receptor signaling pathway via JAK-STAT negative regulation of receptor signaling pathway via JAK-STAT regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction regulation of cell communication negative regulation of receptor signaling pathway via STAT regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT modulation of chemical synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of postsynaptic specialization assembly regulation of excitatory synapse assembly postsynaptic density organization regulation of postsynaptic density organization postsynapse organization organelle assembly postsynaptic specialization assembly postsynapse assembly regulation of postsynapse organization regulation of organelle organization excitatory synapse assembly organelle organization regulation of organelle assembly postsynaptic specialization organization postsynaptic density assembly regulation of postsynaptic density assembly phosphate-containing compound metabolic process metabolic process phosphorus metabolic process cell surface receptor protein tyrosine phosphatase signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of dendritic spine morphogenesis cell projection organization positive regulation of dendritic spine development regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell morphogenesis regulation of cell development cell projection morphogenesis neuron projection morphogenesis regulation of dendrite morphogenesis positive regulation of cell projection organization dendritic spine morphogenesis dendritic spine development dendritic spine organization regulation of cell projection organization positive regulation of cell development positive regulation of cell morphogenesis regulation of dendrite development regulation of neuron projection development plasma membrane bounded cell projection morphogenesis cell development regulation of dendritic spine development cell morphogenesis dendrite development positive regulation of neuron projection development positive regulation of cell differentiation positive regulation of neurogenesis regulation of anatomical structure morphogenesis plasma membrane bounded cell projection organization dendrite morphogenesis positive regulation of dendrite morphogenesis cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis neuron development regulation of dendritic spine morphogenesis neuron projection organization regulation of plasma membrane bounded cell projection organization	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell periphery plasma membrane membrane presynapse extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell periphery plasma membrane membrane presynapse synapse cell junction presynaptic membrane plasma membrane region synaptic membrane glutamatergic synapse neuron to neuron synapse hippocampal mossy fiber to CA3 synapse Schaffer collateral - CA1 synapse
B	SLIT and NTRK-like protein 1	-	biosynthetic process metabolic process cellular process macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development biosynthetic process metabolic process cellular process macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development regulation of multicellular organismal process regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of synapse assembly regulation of biological quality positive regulation of cellular process system development developmental process regulation of multicellular organismal development regulation of biological process positive regulation of cellular component biogenesis biological regulation nervous system development regulation of cellular component biogenesis regulation of cell junction assembly positive regulation of cell junction assembly regulation of synapse organization cell junction organization positive regulation of multicellular organismal process synapse assembly positive regulation of synapse assembly amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process catechol-containing compound metabolic process norepinephrine metabolic process biogenic amine metabolic process cell adhesion cell-cell adhesion synaptic membrane adhesion cell-cell adhesion via plasma-membrane adhesion molecules localization import into cell transport endocytosis establishment of localization vesicle-mediated transport regulation of presynapse assembly regulation of presynapse organization presynapse organization presynapse assembly behavior adult behavior cellular developmental process developmental growth cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell growth cell morphogenesis neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation neuron projection extension plasma membrane bounded cell projection organization developmental cell growth growth developmental growth involved in morphogenesis generation of neurons anatomical structure morphogenesis neuron development axonogenesis regulation of cell differentiation regulation of neurogenesis regulation of cell development positive regulation of cell projection organization regulation of cell projection organization positive regulation of cell development regulation of neuron projection development positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis positive regulation of axonogenesis regulation of anatomical structure morphogenesis axon development cell morphogenesis involved in neuron differentiation regulation of plasma membrane bounded cell projection organization vocalization behavior multicellular organism growth homeostatic process	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region extracellular region GABA-ergic synapse glutamatergic synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR003598	Immunoglobulin subtype 2	Domain
A	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR013098	Immunoglobulin I-set	Domain
A	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A	IPR050713	Receptor-type Tyrosine-protein Phosphatases/Ushers	Family
A	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A	IPR003961	Fibronectin type III	Domain
A	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR045905	Receptor-type tyrosine-protein phosphatase delta, PTPase domain, repeat 1	Domain
A	IPR036116	Fibronectin type III superfamily	Homologous Superfamily
B	IPR001611	Leucine-rich repeat	Repeat
B	IPR003591	Leucine-rich repeat, typical subtype	Repeat
B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
B	IPR000483	Cysteine-rich flanking region, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P23468	restless legs syndrome breast carcinoma colorectal cancer breast cancer Liver Cirrhosis, Experimental malignant colon neoplasm malignant mesothelioma acute myeloid leukemia ovarian cancer attention deficit hyperactivity disorder, inattentive type psoriasis type 2 diabetes mellitus facioscapulohumeral muscular dystrophy interstitial cystitis lung adenocarcinoma restless legs syndrome breast carcinoma colorectal cancer breast cancer Liver Cirrhosis, Experimental malignant colon neoplasm malignant mesothelioma acute myeloid leukemia ovarian cancer attention deficit hyperactivity disorder, inattentive type psoriasis type 2 diabetes mellitus facioscapulohumeral muscular dystrophy interstitial cystitis lung adenocarcinoma malignant ependymoma maturity-onset diabetes of the young non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia atypical teratoid rhabdoid tumor ulcerative colitis Down syndrome glioblastoma large cell medulloblastoma lung cancer malignant glioma medulloblastoma osteosarcoma pituitary cancer subependymal giant cell astrocytoma colorectal carcinoma Emery-Dreifuss muscular dystrophy hydrolethalus syndrome
B	Pharos: Q96PX8	Tourette syndrome trichotillomania astrocytic tumor glioblastoma malignant glioma pilocytic astrocytoma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor large cell medulloblastoma medulloblastoma primitive neuroectodermal tumor Gilles de la Tourette syndrome malignant ependymoma oligodendroglioma psoriasis

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.