iUUCD 2.0 - integrated annotations for ubiquitin and ubiquitin-like conjugation database

Protein
Gene
Annotation
Details
Classification
Domain Profile
Function
Protein Sequence
Nucleotide Sequence
Keyword
GO
Orthology
TOP

Basic Information

Integrated Annotations

Tag

Content

UUCD2 ID

IUUC-Hsa-046671

Ensembl Protein ID

ENSP00000369213.2

UniProt Accession

O95786; A2RU81; Q5HYE1; Q5VYT1; Q9NT04; DDX58_HUMAN

Genbank Protein ID

AAD19826.1; CAH71251.1; CAH71251.1; CAH72600.1; CAH72600.1; EAW58548.1; AAI32787.1; AAI36611.1; CAI46068.1; CAB70840.1

Protein Name

Probable ATP-dependent RNA helicase DDX58; DEAD box protein 58; RIG-I-like receptor 1; Retinoic acid-inducible gene 1 protein; Retinoic acid-inducible gene I protein

Genbank Nucleotide ID

AF038963; AL353671; AL161783; AL161783; AL353671; CH471071; BC132786; BC136610; BX647917; AL137608

Gene Name

DDX58

Ensembl Information

Ensembl Gene ID	Ensembl Transcript ID	Ensembl Protein ID
ENSG00000107201.9	ENST00000379883.2	ENSP00000369213.2

Annotation

Cancer Mutation
TCGA	ICGC	COSMIC	CGAP
IntOGen
Single Nucleotide Polymorphisms (SNP)
dbSNP
mRNA Expression
GEO	ArrayExpress	TCGA	ICGC
COSMIC	THPA	HPM
DNA & RNA Element
UTRdb	AREsite	circBase	circRNADb
CircNet	miRTarBase	microRNA	TRANSFAC
RepTar	SomamiR	miRcode	RAID2
Protein-protein Interaction
IID	iRefIndex	PINA	HINT
Mentha	InWeb_IM
Protein 3D Structure
PDB	MMDB
Disease-associated Information
ClinVar	GWASdb	OMIM
Drug and target
TTD
Post-translational Modifications (PTMs)
CPLM	dbPAF	PhosphositePlus	dbPTM
HPRD	UniProt	PHOSIDA	BioGRID
mUbiSiDa
DNA Methylation
TCGA	ICGC	COSMIC
Protein Expression/Proteomics
THPA	HPM	GPMDB

Status

Reviewed

Details

Family	Domain	References (PMIDs)
UBD/CARD	CARD	20403326

Classification

Family	E-value	Score	Start	End
UBD/CARD	6.00e-59	198.2	1	74

Active Site

Position(s)	Description	Evidence
N/A	N/A	N/A

Domain Profile

UBD/CARD

   S: 1    tdeeyrlllstlqdrvrklLdvtdvldkylseflleeekelilaaaetkgnmqaaelLLktL..vqkegWfrefl 73
           +++e+r++l+++qd++rk+Ld+t++l+ y++++++eee+++i+a++++kg+m+aa+l+Lk+L  +q+egWfr+fl
   Q: 1    MTTEQRRSLQAFQDYIRKTLDPTYILS-YMAPWFREEEVQYIQAEKNNKGPMEAATLFLKFLleLQEEGWFRGFL 74
           689************************.*********************************************96 PP

Organism

Homo sapiens

Functional Description
(View)

Innate immune receptor which acts as a cytoplasmic sensor of viral nucleic acids and plays a major role in sensing viral infection and in the activation of a cascade of antiviral responses including the induction of type I interferons and proinflammatory cytokines. Its ligands include: 5'-triphosphorylated ssRNA and dsRNA and short dsRNA (<1 kb in length). In addition to the 5'-triphosphate moiety, blunt-end base pairing at the 5'-end of the RNA is very essential. Overhangs at the non-triphosphorylated end of the dsRNA RNA have no major impact on its activity. A 3'overhang at the 5'triphosphate end decreases and any 5'overhang at the 5' triphosphate end abolishes its activity. Upon ligand binding it associates with mitochondria antiviral signaling protein (MAVS/IPS1) which activates the IKK-related kinases: TBK1 and IKBKE which phosphorylate interferon regulatory factors: IRF3 and IRF7 which in turn activate transcription of antiviral immunological genes, including interferons (IFNs); IFN-alpha and IFN-beta. Detects both positive and negative strand RNA viruses including members of the families Paramyxoviridae: Human respiratory syncytial virus and measles virus (MeV), Rhabdoviridae: vesicular stomatitis virus (VSV), Orthomyxoviridae: influenza A and B virus, Flaviviridae: Japanese encephalitis virus (JEV), hepatitis C virus (HCV), dengue virus (DENV) and west Nile virus (WNV). It also detects rotavirus and reovirus. Also involved in antiviral signaling in response to viruses containing a dsDNA genome such as Epstein-Barr virus (EBV). Detects dsRNA produced from non-self dsDNA by RNA polymerase III, such as Epstein-Barr virus-encoded RNAs (EBERs). May play important roles in granulocyte production and differentiation, bacterial phagocytosis and in the regulation of cell migration.

Protein Sequence
(Fasta)

MTTEQRRSLQ AFQDYIRKTL DPTYILSYMA PWFREEEVQY IQAEKNNKGP MEAATLFLKF 60
LLELQEEGWF RGFLDALDHA GYSGLYEAIE SWDFKKIEKL EEYRLLLKRL QPEFKTRIIP 120

It may take some time, please wait.

Nucleotide Sequence
(Fasta)

TAGTTATTAA AGTTCCTATG CAGCTCCGCC TCGCGTCCGG CCTCATTTCC TCGGAAAATC 60
CCTGCTTTCC CCGCTCGCCA CGCCCTCCTC CTACCCGGCT TTAAAGCTAG TGAGGCACAG 120

It may take some time, please wait.

Sequence Source

Ensembl

Keyword

KW-0002--3D-structure
KW-0007--Acetylation
KW-0025--Alternative splicing
KW-0051--Antiviral defense
KW-0067--ATP-binding
KW-0965--Cell junction
KW-1003--Cell membrane
KW-0966--Cell projection
KW-0181--Complete proteome
KW-0963--Cytoplasm
KW-0206--Cytoskeleton
KW-0225--Disease mutation
KW-0347--Helicase
KW-0945--Host-virus interaction
KW-0378--Hydrolase
KW-0391--Immunity
KW-0399--Innate immunity
KW-1017--Isopeptide bond
KW-0472--Membrane
KW-0479--Metal-binding
KW-0547--Nucleotide-binding
KW-0597--Phosphoprotein
KW-0621--Polymorphism
KW-1185--Reference proteome
KW-0677--Repeat
KW-0694--RNA-binding
KW-0796--Tight junction
KW-0832--Ubl conjugation
KW-0862--Zinc

Interpro

IPR031964--CARD_dom
IPR011545--DEAD/DEAH_box_helicase_dom
IPR011029--DEATH-like_dom
IPR014001--Helicase_ATP-bd
IPR001650--Helicase_C
IPR027417--P-loop_NTPase
IPR021673--RLR_CTR

PROSITE

PS51192--HELICASE_ATP_BIND_1
PS51194--HELICASE_CTER
PS51789--RLR_CTR

Pfam

PF16739--CARD_2
PF00270--DEAD
PF00271--Helicase_C
PF11648--RIG-I_C-RD

SMART

SM00487--DEXDc
SM00490--HELICc

Gene Ontology

GO:0015629--C:actin cytoskeleton
GO:0005923--C:bicellular tight junction
GO:0005737--C:cytoplasm
GO:0005829--C:cytosol
GO:0032587--C:ruffle membrane
GO:0005524--F:ATP binding
GO:0003690--F:double-stranded DNA binding
GO:0003725--F:double-stranded RNA binding
GO:0004386--F:helicase activity
GO:0042802--F:identical protein binding
GO:0003727--F:single-stranded RNA binding
GO:0031625--F:ubiquitin protein ligase binding
GO:0008270--F:zinc ion binding
GO:0039528--P:cytoplasmic pattern recognition receptor signaling pathway in response to virus
GO:0009597--P:detection of virus
GO:0045087--P:innate immune response
GO:0032480--P:negative regulation of type I interferon production
GO:0002230--P:positive regulation of defense response to virus by host
GO:0010628--P:positive regulation of gene expression
GO:0032725--P:positive regulation of granulocyte macrophage colony-stimulating factor production
GO:0032727--P:positive regulation of interferon-alpha production
GO:0032728--P:positive regulation of interferon-beta production
GO:0032755--P:positive regulation of interleukin-6 production
GO:0032757--P:positive regulation of interleukin-8 production
GO:0051091--P:positive regulation of sequence-specific DNA binding transcription factor activity
GO:0042993--P:positive regulation of transcription factor import into nucleus
GO:0045944--P:positive regulation of transcription from RNA polymerase II promoter
GO:0016579--P:protein deubiquitination
GO:0030334--P:regulation of cell migration
GO:0034344--P:regulation of type III interferon production
GO:0043330--P:response to exogenous dsRNA
GO:0009615--P:response to virus
GO:0039529--P:RIG-I signaling pathway

KEGG

hsa:23586

Orthology

iUUCD ID	Species	Identity	E-value	Score
IUUC-Aml-001898	Ailuropoda melanoleuca	79.70	0.00e+00	1493.00
IUUC-Apl-003966	Anas platyrhynchos	54.52	0.00e+00	927.00
IUUC-Aca-004499	Anolis carolinensis	46.94	0.00e+00	819.00
IUUC-Ame-011950	Astyanax mexicanus	44.17	0.00e+00	705.00
IUUC-Bta-012489	Bos taurus	80.11	0.00e+00	1460.00
IUUC-Cel-018230	Caenorhabditis elegans	29.08	6.00e-71	263.00
IUUC-Cja-018716	Callithrix jacchus	94.27	0.00e+00	1751.00
IUUC-Cfa-020269	Canis familiaris	81.70	0.00e+00	1544.00
IUUC-Cpo-022507	Cavia porcellus	77.23	0.00e+00	1448.00
IUUC-Csa-024209	Chlorocebus sabaeus	96.54	0.00e+00	1799.00
IUUC-Cho-025104	Choloepus hoffmanni	74.37	0.00e+00	1190.00
IUUC-Cin-025792	Ciona intestinalis	31.47	4.00e-79	289.00
IUUC-Cgl-026385	Colletotrichum gloeosporioides	25.42	8.00e-23	103.00
IUUC-Dno-028954	Dasypus novemcinctus	79.08	0.00e+00	1436.00
IUUC-Eca-034039	Equus caballus	82.16	0.00e+00	1541.00
IUUC-Eeu-035009	Erinaceus europaeus	70.02	0.00e+00	930.00
IUUC-Fca-036169	Felis catus	82.49	0.00e+00	1560.00
IUUC-Fal-037579	Ficedula albicollis	54.94	0.00e+00	932.00
IUUC-Fso-038398	Fusarium solani	26.64	6.00e-25	110.00
IUUC-Ggo-045318	Gorilla gorilla	95.85	0.00e+00	1656.00
IUUC-Itr-047996	Ictidomys tridecemlineatus	79.52	0.00e+00	1459.00
IUUC-Lch-050461	Latimeria chalumnae	49.73	0.00e+00	877.00
IUUC-Loc-052582	Lepisosteus oculatus	48.61	0.00e+00	856.00
IUUC-Laf-054324	Loxodonta africana	79.34	0.00e+00	1453.00
IUUC-Mcc-055390	Macaca mulatta	95.78	0.00e+00	1780.00
IUUC-Meu-056365	Macropus eugenii	55.94	0.00e+00	632.00
IUUC-Mpo-057328	Magnaporthe poae	26.67	1.30e+00	29.30
IUUC-Mvi-060497	Microbotryum violaceum	24.57	1.00e-24	109.00
IUUC-Mmr-061407	Microcebus murinus	86.18	0.00e+00	1633.00
IUUC-Mmu-063939	Mus musculus	77.08	0.00e+00	1428.00
IUUC-Mpu-066226	Mustela putorius furo	79.88	0.00e+00	1409.00
IUUC-Mlu-068092	Myotis lucifugus	81.63	0.00e+00	1487.00
IUUC-Nfi-068405	Neosartorya fischeri	25.00	8.00e-27	116.00
IUUC-Opr-070246	Ochotona princeps	69.32	0.00e+00	694.00
IUUC-Oan-072742	Ornithorhynchus anatinus	61.81	0.00e+00	986.00
IUUC-Ocu-073959	Oryctolagus cuniculus	76.78	0.00e+00	1457.00
IUUC-Oga-089173	Otolemur garnettii	84.45	0.00e+00	1567.00
IUUC-Oar-089369	Ovis aries	79.35	0.00e+00	1420.00
IUUC-Ptr-091032	Pan troglodytes	100.00	0.00e+00	1826.00
IUUC-Pan-092383	Papio anubis	96.22	0.00e+00	1784.00
IUUC-Psi-093432	Pelodiscus sinensis	56.47	0.00e+00	1059.00
IUUC-Pma-094367	Petromyzon marinus	42.66	1.00e-117	416.00
IUUC-Pab-098416	Pongo abelii	98.74	0.00e+00	1698.00
IUUC-Pca-101006	Procavia capensis	77.72	0.00e+00	637.00
IUUC-Pva-102966	Pteropus vampyrus	83.33	0.00e+00	1548.00
IUUC-Pgr-103529	Puccinia graminis	27.39	9.00e-29	123.00
IUUC-Rno-105059	Rattus norvegicus	76.35	0.00e+00	913.00
IUUC-Ssl-108450	Sclerotinia sclerotiorum	27.55	1.00e-04	43.90
IUUC-Sar-113202	Sorex araneus	68.54	0.00e+00	1044.00
IUUC-Ssc-116120	Sus scrofa	78.71	0.00e+00	1423.00
IUUC-Tgu-117314	Taeniopygia guttata	53.01	0.00e+00	942.00
IUUC-Tsy-119453	Tarsius syrichta	84.84	0.00e+00	904.00
IUUC-Tre-122194	Trichoderma reesei	27.14	1.00e-20	95.90
IUUC-Ttr-128421	Tursiops truncatus	78.32	0.00e+00	1224.00
IUUC-Vpa-130602	Vicugna pacos	78.88	0.00e+00	1398.00

Created Date

25-Jun-2017

Functional Description

Protein Fasta Sequence

Nucleotide Fasta Sequence