9ME8 | pdb_00009me8

Co-crystal structure of maltose binding protein (MBP)-human SENP3 fusion protein in complex with PELP1 peptide

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02902	Ulp1 protease family, C-terminal catalytic domain (Peptidase_C48)	Ulp1 protease family, C-terminal catalytic domain	This domain contains the catalytic triad Cys-His-Asn.	Domain
A	PF19722	Sentrin-specific protease 3/5 N-terminal (SENP3_5_N)	Sentrin-specific protease 3/5 N-terminal	Sentrin/SUMO-specific proteases (SENPs) reversibly regulate the covalent modification of proteins by SUMO. SENP3 and 5 share considerable sequence homology and exhibit similar substrate specificity, as they are active against SUMO-2 and SUMO-3 but le ...	Sentrin/SUMO-specific proteases (SENPs) reversibly regulate the covalent modification of proteins by SUMO. SENP3 and 5 share considerable sequence homology and exhibit similar substrate specificity, as they are active against SUMO-2 and SUMO-3 but less so for SUMO-1. They are more closely related than to SENP1/2. This entry covers the N-terminal domain of SENP5, which contains a conserved region directly preceding the catalytic domain, which is shared with SENP3. This domain is responsible for the subcellular localisation [1]. SENP3 and 5 colocalise in the nucleolus and their depletion causes defects in ribosome biogenesis [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Proline-, glutamic acid- and leucine-rich protein 1	SUMO binding protein binding binding ubiquitin-like protein binding chromatin binding RNA binding nucleic acid binding	cellular response to stimulus response to stimulus response to endogenous stimulus response to estrogen cellular response to estrogen stimulus cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular process cellular response to hormone stimulus ribonucleoprotein complex biogenesis RNA metabolic process primary metabolic process cellular response to stimulus response to stimulus response to endogenous stimulus response to estrogen cellular response to estrogen stimulus cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular process cellular response to hormone stimulus ribonucleoprotein complex biogenesis RNA metabolic process primary metabolic process rRNA processing gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process cellular component organization or biogenesis RNA processing rRNA metabolic process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of biological process biological regulation regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane euchromatin chromatin chromosome cytoplasm nucleoplasm protein-containing complex histone methyltransferase complex catalytic complex nuclear protein-containing complex MLL1/2 complex transferase complex MLL1 complex methyltransferase complex
A	Maltose/maltodextrin-binding periplasmic protein,Sentrin-specific protease 3	cysteine-type peptidase activity ubiquitin-like protein peptidase activity peptidase activity cysteine-type deubiquitinase activity catalytic activity, acting on a protein hydrolase activity catalytic activity deubiquitinase activity deSUMOylase activity	cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair nucleobase-containing compound metabolic process cellular response to stress response to stress regulation of response to stress negative regulation of double-strand break repair negative regulation of cellular process cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair nucleobase-containing compound metabolic process cellular response to stress response to stress regulation of response to stress negative regulation of double-strand break repair negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process recombinational repair regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination DNA repair negative regulation of macromolecule metabolic process double-strand break repair regulation of biological process negative regulation of response to stimulus negative regulation of metabolic process DNA recombination biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination DNA damage response regulation of response to stimulus metabolic process cellular process negative regulation of DNA metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process peptidyl-lysine modification protein desumoylation protein modification by small protein removal macromolecule modification peptidyl-amino acid modification protein metabolic process protein modification process post-translational protein modification protein modification by small protein conjugation or removal proteolysis	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cytoplasm nuclear body nucleoplasm protein-containing complex histone methyltransferase complex catalytic complex nuclear protein-containing complex MLL1/2 complex transferase complex MLL1 complex methyltransferase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR016024	Armadillo-type fold	Homologous Superfamily
B	IPR012583	Pre-rRNA-processing protein RIX1, N-terminal	Domain
B	IPR012980	PELP1, middle domain	Domain
B	IPR011989	Armadillo-like helical	Homologous Superfamily
A	IPR045577	Sentrin-specific protease 3/5, conserved domain	Domain
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A	IPR003653	Ulp1 protease family, C-terminal catalytic domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q8IZL8	allergic rhinitis large cell medulloblastoma malignant mesothelioma osteosarcoma atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma rheumatoid arthritis glioblastoma malignant glioma nasal cavity disease sinusitis
A	Pharos: Q9H4L4	atrial fibrillation esophageal squamous cell carcinoma melanoma triple-negative breast carcinoma brain glioma glioblastoma metabolic syndrome X uterine corpus leiomyoma cutaneous melanoma IgA glomerulonephritis skin basal cell carcinoma

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.