SYVN1

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

Catalytic activityⁱ

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
6 Publications
Manual assertion based on experiment inⁱ
- Ref.2
  "A novel mammalian endoplasmic reticulum ubiquitin ligase homologous to the yeast Hrd1."
  Nadav E., Shmueli A., Barr H., Gonen H., Ciechanover A., Reiss Y.
  Biochem. Biophys. Res. Commun. 303:91-97(2003) [PubMed] [Europe PMC] [Abstract]
  Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION, AUTOUBIQUITINATION, CATALYTIC ACTIVITY.
- Ref.3
  "Synoviolin/Hrd1, an E3 ubiquitin ligase, as a novel pathogenic factor for arthropathy."
  Amano T., Yamasaki S., Yagishita N., Tsuchimochi K., Shin H., Kawahara K., Aratani S., Fujita H., Zhang L., Ikeda R., Fujii R., Miura N., Komiya S., Nishioka K., Maruyama I., Fukamizu A., Nakajima T.
  Genes Dev. 17:2436-2449(2003) [PubMed] [Europe PMC] [Abstract]
  Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY, AUTOUBIQUITINATION, CATALYTIC ACTIVITY.
- Ref.4
  "Human HRD1 is an E3 ubiquitin ligase involved in degradation of proteins from the endoplasmic reticulum."
  Kikkert M., Doolman R., Dai M., Avner R., Hassink G., van Voorden S., Thanedar S., Roitelman J., Chau V., Wiertz E.
  J. Biol. Chem. 279:3525-3534(2004) [PubMed] [Europe PMC] [Abstract]
  Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), FUNCTION, INDUCTION BY ER STRESS, LACK OF GLYCOSYLATION, SUBCELLULAR LOCATION, TOPOLOGY, CATALYTIC ACTIVITY.
- Ref.11
  "A ubiquitin ligase HRD1 promotes the degradation of Pael receptor, a substrate of Parkin."
  Omura T., Kaneko M., Okuma Y., Orba Y., Nagashima K., Takahashi R., Fujitani N., Matsumura S., Hata A., Kubota K., Murahashi K., Uehara T., Nomura Y.
  J. Neurochem. 99:1456-1469(2006) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, PATHWAY, CATALYTIC ACTIVITY.
- Ref.13
  "Cytoplasmic destruction of p53 by the endoplasmic reticulum-resident ubiquitin ligase 'Synoviolin'."
  Yamasaki S., Yagishita N., Sasaki T., Nakazawa M., Kato Y., Yamadera T., Bae E., Toriyama S., Ikeda R., Zhang L., Fujitani K., Yoo E., Tsuchimochi K., Ohta T., Araya N., Fujita H., Aratani S., Eguchi K.
  Nakajima T.
  EMBO J. 26:113-122(2007) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, INTERACTION WITH TP53, CATALYTIC ACTIVITY.
- Ref.14
  "Ubiquitin ligase Hrd1 enhances the degradation and suppresses the toxicity of polyglutamine-expanded huntingtin."
  Yang H., Zhong X., Ballar P., Luo S., Shen Y., Rubinsztein D.C., Monteiro M.J., Fang S.
  Exp. Cell Res. 313:538-550(2007) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, INTERACTION WITH HTT, CATALYTIC ACTIVITY.
EC:2.3.2.27

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 key	Position(s)	DescriptionActions	Length
Metal bindingⁱ	291	Zinc 1Combined sources1 Publication	1
Metal bindingⁱ	294	Zinc 1Combined sources1 Publication	1
Metal bindingⁱ	307	Zinc 2Combined sources1 Publication	1
Metal bindingⁱ	309	Zinc 2Combined sources1 Publication	1
Metal bindingⁱ	312	Zinc 1Combined sources1 Publication	1
Metal bindingⁱ	315	Zinc 1Combined sources1 Publication	1
Metal bindingⁱ	326	Zinc 2Combined sources1 Publication	1
Metal bindingⁱ	329	Zinc 2Combined sources1 Publication	1

Regions

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Zinc fingerⁱ	291 – 330	RING-type; atypicalPROSITE-ProRule annotationAdd BLAST		40

GO - Molecular functionⁱ

Complete GO annotation on QuickGO ...

GO - Biological processⁱ

Complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	Transferase
Biological process	Stress response, Ubl conjugation pathway
Ligand	Metal-binding, Zinc

Enzyme and pathway databases

PathwayCommonsⁱ	Q86TM6
Reactomeⁱ	R-HSA-381038, XBP1(S) activates chaperone genes R-HSA-5358346, Hedgehog ligand biogenesis R-HSA-5362768, Hh mutants are degraded by ERAD R-HSA-901032, ER Quality Control Compartment (ERQC)
SignaLinkⁱ	Q86TM6
SIGNORⁱ	Q86TM6
UniPathwayⁱ	UPA00143

Protein family/group databases

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

TCDBⁱ

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

Names & Taxonomyⁱ

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
Gene namesⁱ	Name:SYVN1 Synonyms:HRD1, KIAA1810
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 11

Organism-specific databases

Human Gene Nomenclature Database More...HGNCⁱ	HGNC:20738, SYVN1
MIMⁱ	608046, gene
neXtProtⁱ	NX_Q86TM6
VEuPathDBⁱ	HostDB:ENSG00000162298

Topology

Feature key	Position(s)	DescriptionActions	Length
Topological domainⁱ	1 – 4	CytoplasmicCurated	4
Transmembraneⁱ	5 – 25	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	26 – 41	LumenalCuratedAdd BLAST	16
Transmembraneⁱ	42 – 62	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	63 – 98	CytoplasmicCuratedAdd BLAST	36
Transmembraneⁱ	99 – 119	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	120 – 140	LumenalCuratedAdd BLAST	21
Transmembraneⁱ	141 – 161	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	162 – 169	CytoplasmicCurated	8
Transmembraneⁱ	170 – 190	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	191 – 224	LumenalCuratedAdd BLAST	34
Transmembraneⁱ	225 – 245	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	246 – 617	CytoplasmicCuratedAdd BLAST	372

Keywords - Cellular componentⁱ

Endoplasmic reticulum, Membrane

Pathology & Biotechⁱ

Involvement in diseaseⁱ

Mutagenesis

Feature key	Position(s)	DescriptionActions	Length
Mutagenesisⁱ	294	C → A: No effect on interaction with FAM8A1, HERPUD1, OS9, SEL1L and UBE2J1. 1 Publication	1
Mutagenesisⁱ	329	C → S: Abolishes E3 ligase activity. 1 Publication	1
Mutagenesisⁱ	503	R → L: Loss of interaction with FAM8A1, HERPUD1, OS9 and UBE2J1, impaired degradation of immature core-glycosylated basigin/CD147. 1 Publication	1

Organism-specific databases

DisGeNET More...DisGeNETⁱ	84447
Open Targets More...OpenTargetsⁱ	ENSG00000162298
PharmGKBⁱ	PA128394735

Miscellaneous databases

Pharosⁱ	Q86TM6, Tbio

Pharosⁱ

Q86TM6, Tbio

Genetic variation databases

BioMutaⁱ	SYVN1
DMDMⁱ	134035039

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000280548	1 – 617	E3 ubiquitin-protein ligase synoviolinAdd BLAST		617

Amino acid modifications

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Modified residueⁱ	613	PhosphoserineCombined sources		1

Post-translational modificationⁱ

Not N-glycosylated.

Auto-ubiquitinated.3 Publications

Keywords - PTMⁱ

Phosphoprotein, Ubl conjugation

Proteomic databases

EPDⁱ	Q86TM6
jPOSTⁱ	Q86TM6
MassIVEⁱ	Q86TM6
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q86TM6
PaxDbⁱ	Q86TM6
PeptideAtlas More...PeptideAtlasⁱ	Q86TM6
PRIDEⁱ	Q86TM6
ProteomicsDBⁱ	69713 [Q86TM6-1] 69714 [Q86TM6-2] 69715 [Q86TM6-3]

PTM databases

GlyGenⁱ	Q86TM6, 1 site, 1 O-linked glycan (1 site)
iPTMnetⁱ	Q86TM6
PhosphoSitePlusⁱ	Q86TM6

Expressionⁱ

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

Inductionⁱ

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

Gene expression databases

Bgeeⁱ	ENSG00000162298, Expressed in right lobe of liver and 208 other tissues
ExpressionAtlasⁱ	Q86TM6, baseline and differential
Genevisibleⁱ	Q86TM6, HS

Organism-specific databases

Human Protein Atlas More...HPAⁱ	ENSG00000162298, Low tissue specificity

HPAⁱ

ENSG00000162298, Low tissue specificity

Interactionⁱ

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

Binary interactionsⁱ

Hide details

Q86TM6

With	#Exp.	IntAct
ERLIN1 [O75477]	2	EBI-947849,EBI-359299
ERLIN2 [O94905]	2	EBI-947849,EBI-4400770
ERN1 [O75460]	2	EBI-947849,EBI-371750
ERN1 - isoform 1 [O75460-1]	3	EBI-947849,EBI-15600828
FAM8A1 [Q9UBU6]	20	EBI-947849,EBI-6309101
SEL1L [Q9UBV2]	20	EBI-947849,EBI-358766
TP53 [P04637]	5	EBI-947849,EBI-366083
UBE2J1 [Q9Y385]	15	EBI-947849,EBI-988826
USP15 [Q9Y4E8]	8	EBI-947849,EBI-1043104

GO - Molecular functionⁱ

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

BioGRIDⁱ	124085, 293 interactors
CORUMⁱ	Q86TM6
Database of interacting proteins More...DIPⁱ	DIP-43982N
IntActⁱ	Q86TM6, 57 interactors
Molecular INTeraction database More...MINTⁱ	Q86TM6
STRINGⁱ	9606.ENSP00000366395

Miscellaneous databases

RNActⁱ	Q86TM6, protein

RNActⁱ

Q86TM6, protein

Structureⁱ

Secondary structure

Legend: HelixTurnBeta strandPDB Structure known for this area

Feature key	Position(s)	DescriptionActions	Length
Helixⁱ	281 – 285	Combined sources	5
Turnⁱ	286 – 289	Combined sources	4
Turnⁱ	292 – 295	Combined sources	4
Beta strandⁱ	299 – 304	Combined sources	6
Beta strandⁱ	310 – 312	Combined sources	3
Helixⁱ	313 – 319	Combined sources	7
Turnⁱ	320 – 322	Combined sources	3
Turnⁱ	327 – 329	Combined sources	3

Show more details

3D structure databases

SMRⁱ	Q86TM6
ModBaseⁱ	Search...
PDBe-KBⁱ	Search...

Family & Domainsⁱ

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	1 – 251	Involved in FAM8A1 interaction1 PublicationAdd BLAST	251
Regionⁱ	1 – 84	Necessary and sufficient for SEL1L interaction1 PublicationAdd BLAST	84
Regionⁱ	236 – 270	Interaction with p53/TP531 PublicationAdd BLAST	35
Regionⁱ	337 – 375	DisorderedSequence analysisAdd BLAST	39
Regionⁱ	393 – 453	DisorderedSequence analysisAdd BLAST	61
Regionⁱ	480 – 535	HAF-H domain; necessary to form higher-order Hrd1 complexes1 PublicationAdd BLAST	56
Regionⁱ	535 – 617	DisorderedSequence analysisAdd BLAST	83

Compositional bias

Feature key	Position(s)	DescriptionActions	Length
Compositional biasⁱ	339 – 375	Pro residuesSequence analysisAdd BLAST	37
Compositional biasⁱ	411 – 441	Polar residuesSequence analysisAdd BLAST	31
Compositional biasⁱ	535 – 566	Polar residuesSequence analysisAdd BLAST	32
Compositional biasⁱ	567 – 581	Pro residuesSequence analysisAdd BLAST	15
Compositional biasⁱ	598 – 617	Basic and acidic residuesSequence analysisAdd BLAST	20

Domainⁱ

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

Sequence similaritiesⁱ

Belongs to the HRD1 family.Curated

Zinc finger

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Zinc fingerⁱ	291 – 330	RING-type; atypicalPROSITE-ProRule annotationAdd BLAST		40

Keywords - Domainⁱ

Transmembrane, Transmembrane helix, Zinc-finger

Phylogenomic databases

eggNOGⁱ	KOG0802, Eukaryota
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00940000157743
HOGENOMⁱ	CLU_009169_3_0_1
InParanoidⁱ	Q86TM6
OMAⁱ	AMEGTER
Database of Orthologous Groups More...OrthoDBⁱ	897451at2759
PhylomeDBⁱ	Q86TM6
TreeFamⁱ	TF318635

Family and domain databases

Gene3Dⁱ	3.30.40.10, 1 hit
InterProⁱ	View protein in InterPro IPR032832, E3_lig_synoviolin/Hrd1 IPR001841, Znf_RING IPR013083, Znf_RING/FYVE/PHD
PANTHERⁱ	PTHR22763:SF169, PTHR22763:SF169, 1 hit
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF13639, zf-RING_2, 1 hit
SMARTⁱ	View protein in SMART SM00184, RING, 1 hit
PROSITEⁱ	View protein in PROSITE PS50089, ZF_RING_2, 1 hit

Sequences (3+)ⁱ

Sequence statusⁱ: Complete.

This entry describes 3 isoformsⁱ produced by alternative splicing. Align Add to basket

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

Isoform 1 (identifier: Q86TM6-1) [UniParc]FASTA Add to basket

Also known as: b, long

This isoform has been chosen as the 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

Checksum:ⁱB8A6BACBAF9673C1

GO

Isoform 2 (identifier: Q86TM6-2) [UniParc]FASTA Add to basket

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

« 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 EDRVDFYAIL MTMVLTIFIK YVLHSVDLQS 
       160        170        180        190        200
ENPWDNKAVY MLYTELFTGF IKVLLYMAFM TIMIKVHTFP LFAIRPMYLA 
       210        220        230        240        250
MRQFKKAVTD AIMSRRAIRN MNTLYPDATP EELQAMDNVC IICREEMVTG 
       260        270        280        290        300
AKRLPCNHIF HTSCLRSWFQ RQQTCPTCRM DVLRASLPAQ SPPPPEPADQ 
       310        320        330        340        350
GPPPAPHPPP LLPQPPNFPQ GLLPPFPPGM FPLWPPMGPF PPVPPPPSSG 
       360        370        380        390        400
EAVAPPSTSA ALSRPSGAAT TTAAGTSATA ASATASGPGS GSAPEAGPAP 
       410        420        430        440        450
GFPFPPPWMG MPLPPPFAFP PMPVPPAGFA GLTPEELRAL EGHERQHLEA 
       460        470        480        490        500
RLQSLRNIHT LLDAAMLQIN QYLTVLASLG PPRPATSVNS TEETATTVVA 
       510        520        530        540        550
AASSTSIPSS EATTPTPGAS PPAPEMERPP APESVGTEEM PEDGEPDAAE 
       560 
LRRRRLQKLE SPVAH

Show »

Length:565

Mass (Da):61,732

Checksum:ⁱ8C2226662D099D15

GO

Isoform 3 (identifier: Q86TM6-3) [UniParc]FASTA Add to basket

Also known as: a, short

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

« 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 AALSRPSGAA TTTAAGTSAT AASATASGPG SGSAPEAGPA 
       460        470        480        490        500
PGFPFPPPWM GMPLPPPFAF PPMPVPPAGF AGLTPEELRA LEGHERQHLE 
       510        520        530        540        550
ARLQSLRNIH TLLDAAMLQI NQYLTVLASL GPPRPATSVN STEETATTVV 
       560        570        580        590        600
AAASSTSIPS SEATTPTPGA SPPAPEMERP PAPESVGTEE MPEDGEPDAA 
       610 
ELRRRRLQKL ESPVAH

Show »

Length:616

Mass (Da):67,614

Checksum:ⁱ3D035485BDF67376

GO

Computationally mapped potential isoform sequencesⁱ

There are 4 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

Entry	Entry name	Protein names	Gene names	Length	Annotation

E9PMA1	E9PMA1_HUMAN	RING-type E3 ubiquitin transferase RING-type E3 ubiquitin transferase, EC 2.3.2.27	SYVN1	236	Annotation score:
E9PK19	E9PK19_HUMAN	RING-type E3 ubiquitin transferase RING-type E3 ubiquitin transferase, EC 2.3.2.27	SYVN1	237	Annotation score:
H0YCR6	H0YCR6_HUMAN	RING-type E3 ubiquitin transferase RING-type E3 ubiquitin transferase, EC 2.3.2.27	SYVN1	149	Annotation score:
E9PN88	E9PN88_HUMAN	RING-type E3 ubiquitin transferase RING-type E3 ubiquitin transferase, EC 2.3.2.27	SYVN1	149	Annotation score:

Sequence cautionⁱ

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

Experimental Info

Feature key	Position(s)	DescriptionActions	Length
Sequence conflictⁱ	145	M → I in BAC24801 (PubMed:12459480).Curated	1
Sequence conflictⁱ	145	M → I in AAL26903 (PubMed:14593114).Curated	1
Sequence conflictⁱ	545	E → G in BAC57449 (PubMed:12975321).Curated	1

Alternative sequence

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Alternative sequenceⁱVSP_023777	127 – 177	Missing in isoform 2. 1 PublicationAdd BLAST		51
Alternative sequenceⁱVSP_023778	411	Missing in isoform 2 and isoform 3. 4 Publications		1

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
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

Ensemblⁱ	ENST00000294256; ENSP00000294256; ENSG00000162298 [Q86TM6-3] ENST00000307289; ENSP00000302035; ENSG00000162298 [Q86TM6-2] ENST00000377190; ENSP00000366395; ENSG00000162298 ENST00000526060; ENSP00000436984; ENSG00000162298 [Q86TM6-3]
GeneIDⁱ	84447
KEGGⁱ	hsa:84447
MANE-Selectⁱ	ENST00000377190.8; ENSP00000366395.3; NM_172230.3; NP_757385.1
UCSC genome browser More...UCSCⁱ	uc001odb.4, human [Q86TM6-1]

Keywords - Coding sequence diversityⁱ

Alternative splicing

Similar proteinsⁱ

90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q86TM6	RING-type E3 ubiquitin transferase		PIG		728	UniRef90_Q86TM6
Synoviolin 1		MARMA		639
RING-type E3 ubiquitin transferase		MARMO		638
RING-type E3 ubiquitin transferase		AOTNA		625
RING-type E3 ubiquitin transferase		PANPA		625
+118
Q86TM6-2	Synoviolin 1		PIG		634	UniRef90_Q86TM6-2
RING-type E3 ubiquitin transferase		pale spear-nosed bat		619
Synoviolin 1		PROSS		617
RING-type E3 ubiquitin transferase		Florida manatee		614
Synoviolin 1		NEOVI		613
+74
Q86TM6-3	Synoviolin 1		MICMU		621	UniRef90_Q86TM6-3
RING-type E3 ubiquitin transferase		PANTR		619
RING-type E3 ubiquitin transferase		PONAB		617
RING-type E3 ubiquitin transferase		NOMLE		617
RING-type E3 ubiquitin transferase		MACNE		617
+52

Protein	Similar proteins		Species	Score	Length	Source
Q86TM6	RING-type E3 ubiquitin transferase		PIG		728	UniRef50_Q86TM6
Synoviolin 1		MARMA		639
RING-type E3 ubiquitin transferase		MARMO		638
RING-type E3 ubiquitin transferase		AOTNA		625
RING-type E3 ubiquitin transferase		PANPA		625
+477
Q86TM6-2	Uncharacterized protein		PIG		634	UniRef50_Q86TM6-2
RING-type E3 ubiquitin transferase		pale spear-nosed bat		619
Synoviolin 1		PROSS		617
RING-type E3 ubiquitin transferase		Florida manatee		614
Synoviolin 1		NEOVI		613
+115

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

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 entry	Method	Resolution (Å)	Chain	Positions	PDBsum
	6A3Z	NMR	-	A	279-334	[»]
SMRⁱ	Q86TM6
ModBaseⁱ	Search...
PDBe-KBⁱ	Search...

Protein-protein interaction databases

BioGRIDⁱ	124085, 293 interactors
CORUMⁱ	Q86TM6
DIPⁱ	DIP-43982N
IntActⁱ	Q86TM6, 57 interactors
MINTⁱ	Q86TM6
STRINGⁱ	9606.ENSP00000366395

Protein family/group databases

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

TCDBⁱ

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

PTM databases

GlyGenⁱ	Q86TM6, 1 site, 1 O-linked glycan (1 site)
iPTMnetⁱ	Q86TM6
PhosphoSitePlusⁱ	Q86TM6

Genetic variation databases

BioMutaⁱ	SYVN1
DMDMⁱ	134035039

Proteomic databases

EPDⁱ	Q86TM6
jPOSTⁱ	Q86TM6
MassIVEⁱ	Q86TM6
MaxQBⁱ	Q86TM6
PaxDbⁱ	Q86TM6
PeptideAtlasⁱ	Q86TM6
PRIDEⁱ	Q86TM6
ProteomicsDBⁱ	69713 [Q86TM6-1] 69714 [Q86TM6-2] 69715 [Q86TM6-3]

Protocols and materials databases

Antibodypediaⁱ	1694, 388 antibodies from 37 providers
The DNASU plasmid repository More...DNASUⁱ	84447

Genome annotation databases

Ensemblⁱ	ENST00000294256; ENSP00000294256; ENSG00000162298 [Q86TM6-3] ENST00000307289; ENSP00000302035; ENSG00000162298 [Q86TM6-2] ENST00000377190; ENSP00000366395; ENSG00000162298 ENST00000526060; ENSP00000436984; ENSG00000162298 [Q86TM6-3]
GeneIDⁱ	84447
KEGGⁱ	hsa:84447
MANE-Selectⁱ	ENST00000377190.8; ENSP00000366395.3; NM_172230.3; NP_757385.1
UCSCⁱ	uc001odb.4, human [Q86TM6-1]

Organism-specific databases

CTDⁱ	84447
DisGeNETⁱ	84447
GeneCardsⁱ	SYVN1
HGNCⁱ	HGNC:20738, SYVN1
HPAⁱ	ENSG00000162298, Low tissue specificity
MIMⁱ	608046, gene
neXtProtⁱ	NX_Q86TM6
OpenTargetsⁱ	ENSG00000162298
PharmGKBⁱ	PA128394735
VEuPathDBⁱ	HostDB:ENSG00000162298
HUGEⁱ	Search...
GenAtlas: human gene database More...GenAtlasⁱ	Search...

Phylogenomic databases

eggNOGⁱ	KOG0802, Eukaryota
GeneTreeⁱ	ENSGT00940000157743
HOGENOMⁱ	CLU_009169_3_0_1
InParanoidⁱ	Q86TM6
OMAⁱ	AMEGTER
OrthoDBⁱ	897451at2759
PhylomeDBⁱ	Q86TM6
TreeFamⁱ	TF318635

Enzyme and pathway databases

UniPathwayⁱ	UPA00143
PathwayCommonsⁱ	Q86TM6
Reactomeⁱ	R-HSA-381038, XBP1(S) activates chaperone genes R-HSA-5358346, Hedgehog ligand biogenesis R-HSA-5362768, Hh mutants are degraded by ERAD R-HSA-901032, ER Quality Control Compartment (ERQC)
SignaLinkⁱ	Q86TM6
SIGNORⁱ	Q86TM6

Miscellaneous databases

BioGRID-ORCSⁱ	84447, 223 hits in 1105 CRISPR screens
ChiTaRSⁱ	SYVN1, human
GeneWikiⁱ	SYVN1
GenomeRNAiⁱ	84447
Pharosⁱ	Q86TM6, Tbio
Protein Ontology More...PROⁱ	PR:Q86TM6
RNActⁱ	Q86TM6, protein
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSG00000162298, Expressed in right lobe of liver and 208 other tissues
ExpressionAtlasⁱ	Q86TM6, baseline and differential
Genevisibleⁱ	Q86TM6, HS

Family and domain databases

Gene3Dⁱ	3.30.40.10, 1 hit
InterProⁱ	View protein in InterPro IPR032832, E3_lig_synoviolin/Hrd1 IPR001841, Znf_RING IPR013083, Znf_RING/FYVE/PHD
PANTHERⁱ	PTHR22763:SF169, PTHR22763:SF169, 1 hit
Pfamⁱ	View protein in Pfam PF13639, zf-RING_2, 1 hit
SMARTⁱ	View protein in SMART SM00184, RING, 1 hit
PROSITEⁱ	View protein in PROSITE PS50089, ZF_RING_2, 1 hit
MobiDBⁱ	Search...

Entry informationⁱ

Entry nameⁱ	SYVN1_HUMAN
Accessionⁱ	Q86TM6Primary (citable) accession number: Q86TM6 Secondary accession number(s): Q8N3K3 , Q8N6E8, Q96JL5, Q96PK3
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	March 20, 2007
	Last sequence update:	March 20, 2007
	Last modified:	February 23, 2022
	This is version 172 of the entry and version 2 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Chordata Protein Annotation Program
Disclaimer	Any 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.

Miscellaneousⁱ

Keywords - Technical termⁱ

3D-structure, Reference proteome

Documents

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

UniProtKB

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Help

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UniProtKB - Q86TM6 (SYVN1_HUMAN)

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E3 ubiquitin-protein ligase synoviolin

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<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

<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

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<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

GO - Biological processi

Enzyme and pathway databases

Protein family/group databases

<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

Organism-specific databases

<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

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Endoplasmic reticulum

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Topology

Keywords - Cellular componenti

<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

Mutagenesis

Organism-specific databases

Miscellaneous databases

Genetic variation databases

<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

Amino acid modifications

Keywords - PTMi

Proteomic databases

PTM databases

<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

Gene expression databases

Organism-specific databases

<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

Q86TM6

GO - Molecular functioni

Protein-protein interaction databases

Miscellaneous databases

<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

3D structure databases

<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

Compositional bias

<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

Zinc finger

Keywords - Domaini

Phylogenomic databases

Family and domain databases

<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

Experimental Info

Alternative sequence

Sequence databases

Genome annotation databases

Keywords - Coding sequence diversityi

<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

3D structure databases

Protein-protein interaction databases

Protein family/group databases

PTM databases

Genetic variation databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Miscellaneous databases

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Functionⁱ

Catalytic activityⁱ

Pathwayⁱ: protein ubiquitination

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Keywords - PTMⁱ

Expressionⁱ

Interactionⁱ

GO - Molecular functionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Domainⁱ

Sequence cautionⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ