3KUZ | pdb_00003kuz

Crystal structure of the ubiquitin like domain of PLXNC1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3kuza1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3kuza2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3kuzb1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3kuzb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Spt4	e3kuzA1	A: a/b three-layered sandwiches	X: Cystatin-like	H: NTF2-like	T: NTF2-like	F: Spt4	ECOD (v294.1)
B	adh_short	e3kuzB1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: adh_short	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
B	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF20170	Plexin cytoplasmic RhoGTPase-binding domain (Plexin_RBD)	Plexin cytoplasmic RhoGTPase-binding domain	This entry represents the RhoGTPase-binding domain found in the cytoplasmic domain of plexins [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Plexin-C1	protein binding binding signaling receptor binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity semaphorin receptor activity	multicellular organismal process positive regulation of nervous system development axonogenesis regulation of cellular process cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation multicellular organismal process positive regulation of nervous system development axonogenesis regulation of cellular process cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development positive regulation of cell projection organization system development developmental process regulation of biological process regulation of cell projection organization positive regulation of cell development nervous system development generation of neurons positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process regulation of developmental process plasma membrane bounded cell projection morphogenesis positive regulation of biological process cell development cell morphogenesis cellular component organization regulation of nervous system development neurogenesis positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process cellular component organization or biogenesis positive regulation of axonogenesis regulation of anatomical structure morphogenesis positive regulation of cellular process regulation of multicellular organismal development plasma membrane bounded cell projection organization biological regulation axon development cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis neuron development cellular process regulation of plasma membrane bounded cell projection organization cellular component disassembly regulation of synapse pruning cell junction disassembly synapse pruning regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization regulation of biological quality regulation of cell motility regulation of locomotion regulation of cell migration cell migration cell motility locomotion regulation of cell shape regulation of cell morphogenesis cellular response to stimulus cell surface receptor signaling pathway response to stimulus semaphorin-plexin signaling pathway signaling cell communication signal transduction cell adhesion cellular component biogenesis cellular component assembly cell junction assembly synapse assembly regulation of cell adhesion negative regulation of cellular process negative regulation of biological process negative regulation of cell adhesion	cellular anatomical structure membrane cell periphery plasma membrane protein-containing complex semaphorin receptor complex signaling receptor complex cerebellar climbing fiber to Purkinje cell synapse neuron to neuron synapse synapse cell junction asymmetric synapse glutamatergic synapse excitatory synapse cellular anatomical structure membrane cell periphery plasma membrane protein-containing complex semaphorin receptor complex signaling receptor complex cerebellar climbing fiber to Purkinje cell synapse neuron to neuron synapse synapse cell junction asymmetric synapse glutamatergic synapse excitatory synapse asymmetric, glutamatergic, excitatory synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002909	IPT domain	Domain
A, B	IPR016201	PSI domain	Domain
A, B	IPR008936	Rho GTPase activation protein	Homologous Superfamily
A, B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, B	IPR002165	Plexin repeat	Repeat
A, B	IPR041853	Plexin-C1, Sema domain	Domain
A, B	IPR031148	Plexin family	Family
A, B	IPR046800	Plexin, cytoplasmic RhoGTPase-binding domain	Domain
A, B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B	IPR013548	Plexin, cytoplasmic RasGAP domain	Domain
A, B	IPR036352	Sema domain superfamily	Homologous Superfamily
A, B	IPR001627	Sema domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O60486	endometriosis pancreatic ductal adenocarcinoma Sjogren syndrome adrenal cortex carcinoma chronic obstructive pulmonary disease Endometrioma glioblastoma invasive ductal breast carcinoma malignant mesothelioma osteosarcoma psoriasis tuberculosis atypical teratoid rhabdoid tumor Crohn disease head and neck cancer endometriosis pancreatic ductal adenocarcinoma Sjogren syndrome adrenal cortex carcinoma chronic obstructive pulmonary disease Endometrioma glioblastoma invasive ductal breast carcinoma malignant mesothelioma osteosarcoma psoriasis tuberculosis atypical teratoid rhabdoid tumor Crohn disease head and neck cancer large cell medulloblastoma malignant pancreatic neoplasm ovarian cancer sarcoidosis ulcerative colitis B-cell chronic lymphocytic leukemia diabetes mellitus gastric carcinoma interstitial cystitis lung cancer medulloblastoma

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.