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Protein

E3 ubiquitin-protein ligase TRIM56

Gene

Trim56

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase that mediates 'Lys-63'-linked polyubiquitination of TMEM173/STING, thereby playing a key role in innate immunity. TMEM173/STING 'Lys-63'-linked ubiquitination activates the production of type I interferon IFN-beta following detection of pathogen- and host-derived double-stranded DNA.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri21 – 6040RING-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri98 – 14952B box-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri164 – 20542B box-type 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • ligase activity Source: UniProtKB-KW
  • poly(A) RNA binding Source: MGI
  • ubiquitin protein ligase activity Source: MGI
  • ubiquitin-protein transferase activity Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • defense response to virus Source: UniProtKB
  • innate immune response Source: UniProtKB
  • interferon-beta production Source: UniProtKB
  • negative regulation of viral entry into host cell Source: UniProtKB
  • negative regulation of viral release from host cell Source: UniProtKB
  • protein K63-linked ubiquitination Source: UniProtKB
  • response to type I interferon Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Antiviral defense, Immunity, Innate immunity, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase TRIM56 (EC:6.3.2.-)
Alternative name(s):
Tripartite motif-containing protein 56
Gene namesi
Name:Trim56
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:2685298. Trim56.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 734734E3 ubiquitin-protein ligase TRIM56PRO_0000056289Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei454 – 4541PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ80VI1.
MaxQBiQ80VI1.
PaxDbiQ80VI1.
PRIDEiQ80VI1.

PTM databases

iPTMnetiQ80VI1.
PhosphoSiteiQ80VI1.

Expressioni

Inductioni

By interferon.1 Publication

Gene expression databases

BgeeiQ80VI1.
CleanExiMM_TRIM56.

Interactioni

Subunit structurei

Interacts with TMEM173/STING.1 Publication

Protein-protein interaction databases

BioGridi239120. 1 interaction.
IntActiQ80VI1. 2 interactions.
MINTiMINT-4138537.
STRINGi10090.ENSMUSP00000058109.

Structurei

3D structure databases

ProteinModelPortaliQ80VI1.
SMRiQ80VI1. Positions 6-89.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili215 – 30389Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi302 – 3098Poly-Ala
Compositional biasi438 – 4436Poly-Lys

Sequence similaritiesi

Belongs to the TRIM/RBCC family.Curated
Contains 2 B box-type zinc fingers.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri21 – 6040RING-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri98 – 14952B box-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri164 – 20542B box-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Coiled coil, Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG410ITEJ. Eukaryota.
ENOG410YNG0. LUCA.
HOGENOMiHOG000154679.
HOVERGENiHBG079280.
InParanoidiQ80VI1.
KOiK12026.
OrthoDBiEOG76X5ZJ.
PhylomeDBiQ80VI1.
TreeFamiTF338323.

Family and domain databases

Gene3Di2.120.10.30. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR011042. 6-blade_b-propeller_TolB-like.
IPR027370. Znf-RING_LisH.
IPR000315. Znf_B-box.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
PfamiPF00643. zf-B_box. 1 hit.
PF13445. zf-RING_UBOX. 1 hit.
[Graphical view]
SMARTiSM00336. BBOX. 1 hit.
SM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS50119. ZF_BBOX. 1 hit.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q80VI1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNSKVSSPTL LEALSSDFLA CKICLEQLHT PKTLPCLHTY CQDCLAQLDI
60 70 80 90 100
GGQVRCPECR EIVPVPAEGV AAFKTNFFVN GLLDLVKARA PGDVHSGKPT
110 120 130 140 150
CALCPLVGGK SSGGPATARC LDCADDLCQA CADGHRCSRQ THKHRVVDLV
160 170 180 190 200
GYRAGWYDEE ARERQASQCP QHPGEALCFL CQPCSQLLCK DCRLGPHIDH
210 220 230 240 250
PCLPLAEAVR SRKPGLEELL AGVDSNLVEL EATRVAEKEA LALLREQAAS
260 270 280 290 300
VGTQVEEAAE RILKSLLAQK QEVLGQLRAL VEAAEEATRE RLTKIERQEQ
310 320 330 340 350
VAKAAAAFAR RVLSLGLEAE ILSLEGAITQ RLRQLQDAPW TSGPTRCVLP
360 370 380 390 400
QLELHPGLED KNCHLLRLIF EEPKQSPKDS GKGGAGTQGG DEAQGQGDDR
410 420 430 440 450
TKIGKQGGAQ PLTPKEGKDQ NPQEDDGVFI ERGNRPNKKK KCKGRGKSVS
460 470 480 490 500
REPSPILRPN LEGSGLLPRP VFSWSFPTRM PGDKRSPRIT GLCPYGPQEI
510 520 530 540 550
LVADEQNRVL KRFSLNGDYK GTVQVPEGCS PCSVAALQNA VAFSANAKLY
560 570 580 590 600
LVSPDGEIQW RRSLSLTQSS HAVAAMPCGD RVAVSVAGHV EVYKKDGSLA
610 620 630 640 650
TRFIPGGKAS RGQRALVFLT TSPQGNFVGS DWQQNSVVFC DGLGQVIWEY
660 670 680 690 700
KGPGLHGCQP GSVSVDKKGY IFLTLREVNK VVILDPKGSL LGDFLTAYHG
710 720 730
LEKPRVTTMV DGKYLVVSLS NGTIHVFRVR FPDS
Length:734
Mass (Da):79,513
Last modified:June 1, 2003 - v1
Checksum:i3A8192AC7E57BB3C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti5 – 51V → D in BAC29792 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK037350 mRNA. Translation: BAC29792.1.
BC045615 mRNA. Translation: AAH45615.1.
CCDSiCCDS19762.1.
RefSeqiNP_958761.1. NM_201373.4.
XP_006504504.1. XM_006504441.2.
XP_011239185.1. XM_011240883.1.
UniGeneiMm.100647.

Genome annotation databases

GeneIDi384309.
KEGGimmu:384309.
UCSCiuc009abq.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK037350 mRNA. Translation: BAC29792.1.
BC045615 mRNA. Translation: AAH45615.1.
CCDSiCCDS19762.1.
RefSeqiNP_958761.1. NM_201373.4.
XP_006504504.1. XM_006504441.2.
XP_011239185.1. XM_011240883.1.
UniGeneiMm.100647.

3D structure databases

ProteinModelPortaliQ80VI1.
SMRiQ80VI1. Positions 6-89.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi239120. 1 interaction.
IntActiQ80VI1. 2 interactions.
MINTiMINT-4138537.
STRINGi10090.ENSMUSP00000058109.

PTM databases

iPTMnetiQ80VI1.
PhosphoSiteiQ80VI1.

Proteomic databases

EPDiQ80VI1.
MaxQBiQ80VI1.
PaxDbiQ80VI1.
PRIDEiQ80VI1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi384309.
KEGGimmu:384309.
UCSCiuc009abq.2. mouse.

Organism-specific databases

CTDi81844.
MGIiMGI:2685298. Trim56.

Phylogenomic databases

eggNOGiENOG410ITEJ. Eukaryota.
ENOG410YNG0. LUCA.
HOGENOMiHOG000154679.
HOVERGENiHBG079280.
InParanoidiQ80VI1.
KOiK12026.
OrthoDBiEOG76X5ZJ.
PhylomeDBiQ80VI1.
TreeFamiTF338323.

Miscellaneous databases

ChiTaRSiTrim56. mouse.
NextBioi404511.
PROiQ80VI1.
SOURCEiSearch...

Gene expression databases

BgeeiQ80VI1.
CleanExiMM_TRIM56.

Family and domain databases

Gene3Di2.120.10.30. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR011042. 6-blade_b-propeller_TolB-like.
IPR027370. Znf-RING_LisH.
IPR000315. Znf_B-box.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
PfamiPF00643. zf-B_box. 1 hit.
PF13445. zf-RING_UBOX. 1 hit.
[Graphical view]
SMARTiSM00336. BBOX. 1 hit.
SM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS50119. ZF_BBOX. 1 hit.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Thymus.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: FVB/N.
    Tissue: Mammary tumor.
  3. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Lung, Pancreas and Spleen.
  4. "The ubiquitin ligase TRIM56 regulates innate immune responses to intracellular double-stranded DNA."
    Tsuchida T., Zou J., Saitoh T., Kumar H., Abe T., Matsuura Y., Kawai T., Akira S.
    Immunity 33:765-776(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH TMEM173, INDUCTION.

Entry informationi

Entry nameiTRI56_MOUSE
AccessioniPrimary (citable) accession number: Q80VI1
Secondary accession number(s): Q8CAY0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 21, 2004
Last sequence update: June 1, 2003
Last modified: May 11, 2016
This is version 113 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.