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UniProtKB - Q86TM6 (SYVN1_HUMAN)

Entry version 167 (02 Dec 2020)
Sequence version 2 (20 Mar 2007)
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Protein

E3 ubiquitin-protein ligase synoviolin

Gene

SYVN1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation (PubMed:12459480, PubMed:12646171, PubMed:12975321, PubMed:14593114, PubMed:16289116, PubMed:16847254, PubMed:17059562, PubMed:17141218, PubMed:17170702, PubMed:22607976, PubMed:26471130, PubMed:28827405). Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins (PubMed:12459480, PubMed:12646171, PubMed:12975321, PubMed:14593114, PubMed:16289116, PubMed:16847254, PubMed:17059562, PubMed:17141218, PubMed:17170702, PubMed:22607976, PubMed:26471130, PubMed:28842558). Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Protects neurons from apoptosis induced by polyglutamine-expanded huntingtin (HTT) or unfolded GPR37 by promoting their degradation (PubMed:17141218). Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis (PubMed:17170702). Mediates the ubiquitination and subsequent degradation of cytoplasmic NFE2L1 (By similarity). During the early stage of B cell development, required for degradation of the pre-B cell receptor (pre-BCR) complex, hence supporting further differentiation into mature B cells (By similarity).By similarity13 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.6 Publications
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi291Zinc 1Combined sources1 Publication1
Metal bindingi294Zinc 1Combined sources1 Publication1
Metal bindingi307Zinc 2Combined sources1 Publication1
Metal bindingi309Zinc 2Combined sources1 Publication1
Metal bindingi312Zinc 1Combined sources1 Publication1
Metal bindingi315Zinc 1Combined sources1 Publication1
Metal bindingi326Zinc 2Combined sources1 Publication1
Metal bindingi329Zinc 2Combined sources1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri291 – 330RING-type; atypicalPROSITE-ProRule annotationAdd BLAST40

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionTransferase
Biological processStress response, Ubl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

Pathway Commons web resource for biological pathway data

More...PathwayCommonsi		Q86TM6

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-HSA-381038, XBP1(S) activates chaperone genes
R-HSA-5358346, Hedgehog ligand biogenesis
R-HSA-5362768, Hh mutants that don't undergo autocatalytic processing are degraded by ERAD
R-HSA-901032, ER Quality Control Compartment (ERQC)

SIGNOR Signaling Network Open Resource

More...SIGNORi		Q86TM6

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...UniPathwayi		UPA00143

Protein family/group databases

Transport Classification Database

More...TCDBi		3.A.16.1.4, the endoplasmic reticular retrotranslocon (er-rt) family

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
E3 ubiquitin-protein ligase synoviolin (EC:2.3.2.276 Publications)
Alternative name(s):
RING-type E3 ubiquitin transferase synoviolin1 Publication
Synovial apoptosis inhibitor 1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:SYVN1
Synonyms:HRD1, KIAA1810
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 11

Organism-specific databases

Eukaryotic Pathogen and Host Database Resources

More...EuPathDBi		HostDB:ENSG00000162298.16

Human Gene Nomenclature Database

More...HGNCi		HGNC:20738, SYVN1

Online Mendelian Inheritance in Man (OMIM)

More...MIMi		608046, gene

neXtProt; the human protein knowledge platform

More...neXtProti		NX_Q86TM6

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini1 – 4CytoplasmicCurated4
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei5 – 25HelicalSequence analysisAdd BLAST21
Topological domaini26 – 41LumenalCuratedAdd BLAST16
Transmembranei42 – 62HelicalSequence analysisAdd BLAST21
Topological domaini63 – 98CytoplasmicCuratedAdd BLAST36
Transmembranei99 – 119HelicalSequence analysisAdd BLAST21
Topological domaini120 – 140LumenalCuratedAdd BLAST21
Transmembranei141 – 161HelicalSequence analysisAdd BLAST21
Topological domaini162 – 169CytoplasmicCurated8
Transmembranei170 – 190HelicalSequence analysisAdd BLAST21
Topological domaini191 – 224LumenalCuratedAdd BLAST34
Transmembranei225 – 245HelicalSequence analysisAdd BLAST21
Topological domaini246 – 617CytoplasmicCuratedAdd BLAST372

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section provides information on the disease(s) associated with genetic variations in a given protein. The information is extracted from the scientific literature and diseases that are also described in the <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim">OMIM</a> database are represented with a <a href="http://www.uniprot.org/diseases">controlled vocabulary</a> in the following way:<p><a href='/help/involvement_in_disease' target='_top'>More...</a></p>Involvement in diseasei

In certain aggressive cases of activated B cell-like diffuse large B-cell lymphoma (ABC-DLBCL), plays a role in the degradation of misfolded N-terminal mutated PRDM1 proteins.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi294C → A: No effect on interaction with FAM8A1, HERPUD1, OS9, SEL1L and UBE2J1. 1 Publication1
Mutagenesisi329C → S: Abolishes E3 ligase activity. 1 Publication1
Mutagenesisi503R → L: Loss of interaction with FAM8A1, HERPUD1, OS9 and UBE2J1, impaired degradation of immature core-glycosylated basigin/CD147. 1 Publication1

Organism-specific databases

DisGeNET

More...DisGeNETi		84447

Open Targets

More...OpenTargetsi		ENSG00000162298

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...PharmGKBi		PA128394735

Miscellaneous databases

Pharos NIH Druggable Genome Knowledgebase

More...Pharosi		Q86TM6, Tbio

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...BioMutai		SYVN1

Domain mapping of disease mutations (DMDM)

More...DMDMi		134035039

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002805481 – 617E3 ubiquitin-protein ligase synoviolinAdd BLAST617

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei613PhosphoserineCombined sources1

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

Not N-glycosylated.
Auto-ubiquitinated.3 Publications

Keywords - PTMi

Phosphoprotein, Ubl conjugation

Proteomic databases

Encyclopedia of Proteome Dynamics

More...EPDi		Q86TM6

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		Q86TM6

MassIVE - Mass Spectrometry Interactive Virtual Environment

More...MassIVEi		Q86TM6

MaxQB - The MaxQuant DataBase

More...MaxQBi		Q86TM6

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		Q86TM6

PeptideAtlas

More...PeptideAtlasi		Q86TM6

PRoteomics IDEntifications database

More...PRIDEi		Q86TM6

ProteomicsDB: a multi-organism proteome resource

More...ProteomicsDBi		69713 [Q86TM6-1]
69714 [Q86TM6-2]
69715 [Q86TM6-3]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		Q86TM6

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...PhosphoSitePlusi		Q86TM6

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Ubiquitously expressed, with highest levels in liver and kidney (at protein level). Up-regulated in synovial tissues from patients with rheumatoid arthritis (at protein level).3 Publications

<p>This subsection of the 'Expression' section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

By endoplasmic reticulum stress-inducing agents such as thapsigargin, tunicamycin or brefeldin A, but not by heat shock.2 Publications

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...Bgeei		ENSG00000162298, Expressed in right lobe of liver and 207 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		Q86TM6, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		Q86TM6, HS

Organism-specific databases

Human Protein Atlas

More...HPAi		ENSG00000162298, Low tissue specificity

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer (PubMed:16289116).

Interacts with p53/TP53 (PubMed:17170702).

Interacts with HTT (PubMed:17141218).

Component of the HRD1 complex, which comprises at least SYNV1/HRD1, DERL1/2, FAM8A1, HERPUD1/HERP, OS9, SEL1L and UBE2J1 (PubMed:16289116, PubMed:16186509, PubMed:18264092, PubMed:26471130, PubMed:28827405). FAM8A1 is stabilized by interaction with SYNV1, which prevents its proteasomal degradation. OS9 and UBE2J1 recruitment to the complex may be mediated by SEL1L (PubMed:28827405). SYNV1 assembles with SEL1L and FAM8A1 through its transmembrane domains, but interaction with its cytoplasmic domain is required to confer stability to FAM8A1 and enhance recruitment of HERPUD1 (PubMed:28827405). The HRD1 complex also associates with VIMP and may transfer misfolded proteins from the endoplasmic reticulum to VCP (PubMed:16289116). May form a complex with ERLEC1; HSPA5; OS9 AND SEL1L (PubMed:18502753, PubMed:18264092).

Interacts with VCP (PubMed:16289116, PubMed:16186510).

Interacts with UBXN6 (PubMed:18656546).

Interacts with BAG6 (PubMed:21636303).

Interacts with NFE2L1 (By similarity).

Interacts (via N-terminus) with components of the pre-B cell receptor, including IGLL1 and VPREB1 (By similarity).

Interacts with CREB3L3; this interaction leads to CREB3L3 ubiquitination and proteasomal degradation (By similarity).

By similarity11 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Hide details

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...BioGRIDi		124085, 205 interactors

CORUM comprehensive resource of mammalian protein complexes

More...CORUMi		Q86TM6

Database of interacting proteins

More...DIPi		DIP-43982N

Protein interaction database and analysis system

More...IntActi		Q86TM6, 29 interactors

Molecular INTeraction database

More...MINTi		Q86TM6

STRING: functional protein association networks

More...STRINGi		9606.ENSP00000366395

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...RNActi		Q86TM6, protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1617
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		Q86TM6

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 251Involved in FAM8A1 interaction1 PublicationAdd BLAST251
Regioni1 – 84Necessary and sufficient for SEL1L interaction1 PublicationAdd BLAST84
Regioni236 – 270Interaction with p53/TP531 PublicationAdd BLAST35
Regioni480 – 535HAF-H domain; necessary to form higher-order Hrd1 complexes1 PublicationAdd BLAST56

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi339 – 478Pro-richAdd BLAST140

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The RING-type zinc finger is required for E3 ligase activity.

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the HRD1 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri291 – 330RING-type; atypicalPROSITE-ProRule annotationAdd BLAST40

Keywords - Domaini

Transmembrane, Transmembrane helix, Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0802, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00940000157743

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_009169_3_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q86TM6

Identification of Orthologs from Complete Genome Data

More...OMAi		MPGAYGM

Database of Orthologous Groups

More...OrthoDBi		897451at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q86TM6

TreeFam database of animal gene trees

More...TreeFami		TF318635

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.30.40.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR032832, E3_lig_synoviolin/Hrd1
IPR001841, Znf_RING
IPR013083, Znf_RING/FYVE/PHD

The PANTHER Classification System

More...PANTHERi		PTHR22763:SF173, PTHR22763:SF173, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF13639, zf-RING_2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00184, RING, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50089, ZF_RING_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (3+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry describes 3 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 4 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q86TM6-1) [UniParc]FASTAAdd to basket
Also known as: b, long

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MFRTAVMMAA SLALTGAVVA HAYYLKHQFY PTVVYLTKSS PSMAVLYIQA 
        60         70         80         90        100
FVLVFLLGKV MGKVFFGQLR AAEMEHLLER SWYAVTETCL AFTVFRDDFS 
       110        120        130        140        150
PRFVALFTLL LFLKCFHWLA EDRVDFMERS PNISWLFHCR IVSLMFLLGI 
       160        170        180        190        200
LDFLFVSHAY HSILTRGASV QLVFGFEYAI LMTMVLTIFI KYVLHSVDLQ 
       210        220        230        240        250
SENPWDNKAV YMLYTELFTG FIKVLLYMAF MTIMIKVHTF PLFAIRPMYL 
       260        270        280        290        300
AMRQFKKAVT DAIMSRRAIR NMNTLYPDAT PEELQAMDNV CIICREEMVT 
       310        320        330        340        350
GAKRLPCNHI FHTSCLRSWF QRQQTCPTCR MDVLRASLPA QSPPPPEPAD 
       360        370        380        390        400
QGPPPAPHPP PLLPQPPNFP QGLLPPFPPG MFPLWPPMGP FPPVPPPPSS 
       410        420        430        440        450
GEAVAPPSTS AAALSRPSGA ATTTAAGTSA TAASATASGP GSGSAPEAGP 
       460        470        480        490        500
APGFPFPPPW MGMPLPPPFA FPPMPVPPAG FAGLTPEELR ALEGHERQHL 
       510        520        530        540        550
EARLQSLRNI HTLLDAAMLQ INQYLTVLAS LGPPRPATSV NSTEETATTV 
       560        570        580        590        600
VAAASSTSIP SSEATTPTPG ASPPAPEMER PPAPESVGTE EMPEDGEPDA 
       610 
AELRRRRLQK LESPVAH
Length:617
Mass (Da):67,685
Last modified:March 20, 2007 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iB8A6BACBAF9673C1
GO
Isoform 2 (identifier: Q86TM6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     127-177: Missing.
     411-411: Missing.

Show »
Length:565
Mass (Da):61,732
Checksum:i8C2226662D099D15
GO
Isoform 3 (identifier: Q86TM6-3) [UniParc]FASTAAdd to basket
Also known as: a, short

The sequence of this isoform differs from the canonical sequence as follows:
     411-411: Missing.

Show »
Length:616
Mass (Da):67,614
Checksum:i3D035485BDF67376
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
E9PMA1E9PMA1_HUMAN
RING-type E3 ubiquitin transferase
SYVN1
236Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
E9PK19E9PK19_HUMAN
RING-type E3 ubiquitin transferase
SYVN1
237Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
H0YCR6H0YCR6_HUMAN
RING-type E3 ubiquitin transferase
SYVN1
149Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
E9PN88E9PN88_HUMAN
RING-type E3 ubiquitin transferase
SYVN1
149Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence BAB47439 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti145M → I in BAC24801 (PubMed:12459480).Curated1
Sequence conflicti145M → I in AAL26903 (PubMed:14593114).Curated1
Sequence conflicti545E → G in BAC57449 (PubMed:12975321).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_023777127 – 177Missing in isoform 2. 1 PublicationAdd BLAST51
Alternative sequenceiVSP_023778411Missing in isoform 2 and isoform 3. 4 Publications1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
AB085847 mRNA Translation: BAC24801.1
AB024690 mRNA Translation: BAC57449.1
AF317634 mRNA Translation: AAL26903.1
AB058713 mRNA Translation: BAB47439.1 Different initiation.
AL834262 mRNA Translation: CAD38937.1
BC030530 mRNA Translation: AAH30530.1

The Consensus CDS (CCDS) project

More...CCDSi		CCDS31605.1 [Q86TM6-1]
CCDS8097.1 [Q86TM6-3]

NCBI Reference Sequences

More...RefSeqi		NP_115807.1, NM_032431.2 [Q86TM6-3]
NP_757385.1, NM_172230.2 [Q86TM6-1]
XP_011543605.1, XM_011545303.2 [Q86TM6-1]

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENST00000294256; ENSP00000294256; ENSG00000162298 [Q86TM6-3]
ENST00000307289; ENSP00000302035; ENSG00000162298 [Q86TM6-2]
ENST00000377190; ENSP00000366395; ENSG00000162298 [Q86TM6-1]
ENST00000526060; ENSP00000436984; ENSG00000162298 [Q86TM6-3]

Database of genes from NCBI RefSeq genomes

More...GeneIDi		84447

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		hsa:84447

UCSC genome browser

More...UCSCi		uc001odb.4, human [Q86TM6-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB085847 mRNA Translation: BAC24801.1
AB024690 mRNA Translation: BAC57449.1
AF317634 mRNA Translation: AAL26903.1
AB058713 mRNA Translation: BAB47439.1 Different initiation.
AL834262 mRNA Translation: CAD38937.1
BC030530 mRNA Translation: AAH30530.1
CCDSiCCDS31605.1 [Q86TM6-1]
CCDS8097.1 [Q86TM6-3]
RefSeqiNP_115807.1, NM_032431.2 [Q86TM6-3]
NP_757385.1, NM_172230.2 [Q86TM6-1]
XP_011543605.1, XM_011545303.2 [Q86TM6-1]

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
6A3ZNMR-A279-334[»]
SMRiQ86TM6
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi124085, 205 interactors
CORUMiQ86TM6
DIPiDIP-43982N
IntActiQ86TM6, 29 interactors
MINTiQ86TM6
STRINGi9606.ENSP00000366395

Protein family/group databases

TCDBi3.A.16.1.4, the endoplasmic reticular retrotranslocon (er-rt) family

PTM databases

iPTMnetiQ86TM6
PhosphoSitePlusiQ86TM6

Polymorphism and mutation databases

BioMutaiSYVN1
DMDMi134035039

Proteomic databases

EPDiQ86TM6
jPOSTiQ86TM6
MassIVEiQ86TM6
MaxQBiQ86TM6
PaxDbiQ86TM6
PeptideAtlasiQ86TM6
PRIDEiQ86TM6
ProteomicsDBi69713 [Q86TM6-1]
69714 [Q86TM6-2]
69715 [Q86TM6-3]

Protocols and materials databases

Antibodypedia a portal for validated antibodies

More...Antibodypediai		1694, 370 antibodies

The DNASU plasmid repository

More...DNASUi		84447

Genome annotation databases

EnsembliENST00000294256; ENSP00000294256; ENSG00000162298 [Q86TM6-3]
ENST00000307289; ENSP00000302035; ENSG00000162298 [Q86TM6-2]
ENST00000377190; ENSP00000366395; ENSG00000162298 [Q86TM6-1]
ENST00000526060; ENSP00000436984; ENSG00000162298 [Q86TM6-3]
GeneIDi84447
KEGGihsa:84447
UCSCiuc001odb.4, human [Q86TM6-1]

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		84447
DisGeNETi84447
EuPathDBiHostDB:ENSG00000162298.16

GeneCards: human genes, protein and diseases

More...GeneCardsi		SYVN1
HGNCiHGNC:20738, SYVN1
HPAiENSG00000162298, Low tissue specificity
MIMi608046, gene
neXtProtiNX_Q86TM6
OpenTargetsiENSG00000162298
PharmGKBiPA128394735

Human Unidentified Gene-Encoded large proteins database

More...HUGEi		Search...

GenAtlas: human gene database

More...GenAtlasi		Search...

Phylogenomic databases

eggNOGiKOG0802, Eukaryota
GeneTreeiENSGT00940000157743
HOGENOMiCLU_009169_3_0_1
InParanoidiQ86TM6
OMAiMPGAYGM
OrthoDBi897451at2759
PhylomeDBiQ86TM6
TreeFamiTF318635

Enzyme and pathway databases

UniPathwayiUPA00143
PathwayCommonsiQ86TM6
ReactomeiR-HSA-381038, XBP1(S) activates chaperone genes
R-HSA-5358346, Hedgehog ligand biogenesis
R-HSA-5362768, Hh mutants that don't undergo autocatalytic processing are degraded by ERAD
R-HSA-901032, ER Quality Control Compartment (ERQC)
SIGNORiQ86TM6

Miscellaneous databases

BioGRID ORCS database of CRISPR phenotype screens

More...BioGRID-ORCSi		84447, 202 hits in 863 CRISPR screens

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

More...ChiTaRSi		SYVN1, human

The Gene Wiki collection of pages on human genes and proteins

More...GeneWikii		SYVN1

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

More...GenomeRNAii		84447
PharosiQ86TM6, Tbio

Protein Ontology

More...PROi		PR:Q86TM6
RNActiQ86TM6, protein

The Stanford Online Universal Resource for Clones and ESTs

More...SOURCEi		Search...

Gene expression databases

BgeeiENSG00000162298, Expressed in right lobe of liver and 207 other tissues
ExpressionAtlasiQ86TM6, baseline and differential
GenevisibleiQ86TM6, HS

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR032832, E3_lig_synoviolin/Hrd1
IPR001841, Znf_RING
IPR013083, Znf_RING/FYVE/PHD
PANTHERiPTHR22763:SF173, PTHR22763:SF173, 1 hit
PfamiView protein in Pfam
PF13639, zf-RING_2, 1 hit
SMARTiView protein in SMART
SM00184, RING, 1 hit
PROSITEiView protein in PROSITE
PS50089, ZF_RING_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSYVN1_HUMAN
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q86TM6
Secondary accession number(s): Q8N3K3
, Q8N6E8, Q96JL5, Q96PK3
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 20, 2007
Last sequence update: March 20, 2007
Last modified: December 2, 2020
This is version 167 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families
  5. Human chromosome 11
    Human chromosome 11: entries, gene names and cross-references to MIM
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