Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

tRNA-dihydrouridine(47) synthase [NAD(P)(+)]

Gene

DUS3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs. Specifically modifies U47 in cytoplasmic tRNAs.2 Publications

Catalytic activityi

5,6-dihydrouracil(47) in tRNA + NAD(P)+ = uracil(47) in tRNA + NAD(P)H.1 Publication

Cofactori

FMNBy similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei354 – 3541FMNBy similarity
Active sitei386 – 3861Proton donorBy similarity
Binding sitei426 – 4261FMNBy similarity
Binding sitei457 – 4571FMNBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri92 – 12231C3H1-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri134 – 16431C3H1-type 2PROSITE-ProRule annotationAdd
BLAST
Nucleotide bindingi299 – 3013FMNBy similarity
Nucleotide bindingi509 – 5113FMNBy similarity
Nucleotide bindingi534 – 5352FMNBy similarity

GO - Molecular functioni

  • flavin adenine dinucleotide binding Source: InterPro
  • metal ion binding Source: UniProtKB-KW
  • tRNA dihydrouridine synthase activity Source: SGD

GO - Biological processi

  • tRNA dihydrouridine synthesis Source: GOC
  • tRNA modification Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

Flavoprotein, FMN, Metal-binding, NAD, NADP, Zinc

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16678.
YEAST:G3O-32464-MONOMER.
BRENDAi1.3.1.89. 984.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-dihydrouridine(47) synthase [NAD(P)(+)] (EC:1.3.1.89)
Alternative name(s):
tRNA-dihydrouridine synthase 3
Gene namesi
Name:DUS3
Ordered Locus Names:YLR401C
ORF Names:L8084.19
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR401C.
SGDiS000004393. DUS3.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB-SubCell
  • nuclear periphery Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 668668tRNA-dihydrouridine(47) synthase [NAD(P)(+)]PRO_0000162155Add
BLAST

Proteomic databases

MaxQBiQ06053.
PeptideAtlasiQ06053.

PTM databases

iPTMnetiQ06053.

Interactioni

Protein-protein interaction databases

BioGridi31659. 32 interactions.
DIPiDIP-4469N.
MINTiMINT-473573.

Structurei

3D structure databases

ProteinModelPortaliQ06053.
SMRiQ06053. Positions 297-565.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the Dus family. Dus3 subfamily.Curated
Contains 2 C3H1-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri92 – 12231C3H1-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri134 – 16431C3H1-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00550000075134.
HOGENOMiHOG000240610.
InParanoidiQ06053.
KOiK05544.
OMAiMEPGICY.
OrthoDBiEOG7V76G6.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR001269. tRNA_hU_synthase.
IPR018517. tRNA_hU_synthase_CS.
IPR000571. Znf_CCCH.
[Graphical view]
PANTHERiPTHR11082. PTHR11082. 2 hits.
PfamiPF01207. Dus. 2 hits.
[Graphical view]
PROSITEiPS01136. UPF0034. 1 hit.
PS50103. ZF_C3H1. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q06053-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEQNAEKRSI VGDDNSTVKR QDTSPSKGIA HIKPEYIVPL KQNENQKVAI
60 70 80 90 100
YDEEMSSDRM TNEFAGGTNK KNKNGRGKKR GQNKNRDNRQ VKEQNVLCPR
110 120 130 140 150
LIHGDISKCS FGDNCRFVHD INLYLSTKKP EVESNIFPSC PVFNSLGFCP
160 170 180 190 200
MGFKCRFLSS HLNKEDNILI SKKEIDPDAQ TIWSVKGEVN HISPERKLDL
210 220 230 240 250
IKRRFPFTKS NEILEIIDSF QQECRDSMKP EEEVESTPQL KKQDPDVEQP
260 270 280 290 300
VAPQVEQRNK ELSEHRMKQR EVYLKYKDTR YFAQEKKPLD LYHKKIVSPL
310 320 330 340 350
TTVGNLPYRR LMRKLGADVT YSEMALAVPL IQGTNSEWAL PKAHTSEFPG
360 370 380 390 400
FGVQVACSKA WQAAKAAEAL ANSVSEISEI NLNSGCPIDL LYRQGSGSAL
410 420 430 440 450
LDNPARMIRC LNAMNYVSKD IPITVKIRTG TKEGHPIAEG LVKRLVNETD
460 470 480 490 500
VAAITLHGRS RQQRYTKSAD WDYVSQVADT LRSAEADFIE TEQGKEGRDS
510 520 530 540 550
KNRIQFVGNG DVNNFEDWYR YLNGNENIDS VMVARGALIK PWIFEEVESQ
560 570 580 590 600
QYLDKTSTER LDILRDYAQF SMEHWGTDEY GISQCRRFFC EFMSFFHRYV
610 620 630 640 650
PMGICERYPV KLNERPPNWC GRDELETLMG STDVNDWIKL SDLFFGKTDE
660
NFVFVPKHKS SSYANRDS
Length:668
Mass (Da):76,596
Last modified:April 29, 2008 - v2
Checksum:i0DA116A41699E9C9
GO

Sequence cautioni

The sequence AAB82358.1 differs from that shown. Reason: Frameshift at position 601. Curated
The sequence CAA79376.1 differs from that shown. Reason: Frameshift at positions 603, 639 and 656. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U19729 Genomic DNA. Translation: AAB82358.1. Frameshift.
Z18944 Genomic DNA. Translation: CAA79376.1. Frameshift.
BK006945 Genomic DNA. Translation: DAA09701.1.
PIRiS55957.
RefSeqiNP_013505.4. NM_001182289.3.

Genome annotation databases

EnsemblFungiiYLR401C; YLR401C; YLR401C.
GeneIDi851117.
KEGGisce:YLR401C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U19729 Genomic DNA. Translation: AAB82358.1. Frameshift.
Z18944 Genomic DNA. Translation: CAA79376.1. Frameshift.
BK006945 Genomic DNA. Translation: DAA09701.1.
PIRiS55957.
RefSeqiNP_013505.4. NM_001182289.3.

3D structure databases

ProteinModelPortaliQ06053.
SMRiQ06053. Positions 297-565.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31659. 32 interactions.
DIPiDIP-4469N.
MINTiMINT-473573.

PTM databases

iPTMnetiQ06053.

Proteomic databases

MaxQBiQ06053.
PeptideAtlasiQ06053.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR401C; YLR401C; YLR401C.
GeneIDi851117.
KEGGisce:YLR401C.

Organism-specific databases

EuPathDBiFungiDB:YLR401C.
SGDiS000004393. DUS3.

Phylogenomic databases

GeneTreeiENSGT00550000075134.
HOGENOMiHOG000240610.
InParanoidiQ06053.
KOiK05544.
OMAiMEPGICY.
OrthoDBiEOG7V76G6.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16678.
YEAST:G3O-32464-MONOMER.
BRENDAi1.3.1.89. 984.

Miscellaneous databases

PROiQ06053.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR001269. tRNA_hU_synthase.
IPR018517. tRNA_hU_synthase_CS.
IPR000571. Znf_CCCH.
[Graphical view]
PANTHERiPTHR11082. PTHR11082. 2 hits.
PfamiPF01207. Dus. 2 hits.
[Graphical view]
PROSITEiPS01136. UPF0034. 1 hit.
PS50103. ZF_C3H1. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
    Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
    , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
    Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "The yeast BDF1 gene encodes a transcription factor involved in the expression of a broad class of genes including snRNAs."
    Lygerou Z., Conesa C., Lesage P., Swanson R.N., Ruet A., Carlson M., Sentenac A., Seraphin B.
    Nucleic Acids Res. 22:5332-5340(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 504-668.
    Strain: ATCC 204508 / S288c.
  4. "A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA."
    Xing F., Martzen M.R., Phizicky E.M.
    RNA 8:370-381(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY.
  5. "Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii."
    Brachat S., Dietrich F.S., Voegeli S., Zhang Z., Stuart L., Lerch A., Gates K., Gaffney T.D., Philippsen P.
    Genome Biol. 4:R45.1-R45.13(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION OF FRAMESHIFT.
  6. "Sequencing and comparison of yeast species to identify genes and regulatory elements."
    Kellis M., Patterson N., Endrizzi M., Birren B.W., Lander E.S.
    Nature 423:241-254(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION OF FRAMESHIFT.
  7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  8. "The specificities of four yeast dihydrouridine synthases for cytoplasmic tRNAs."
    Xing F., Hiley S.L., Hughes T.R., Phizicky E.M.
    J. Biol. Chem. 279:17850-17860(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  9. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
    Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
    Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiDUS3_YEAST
AccessioniPrimary (citable) accession number: Q06053
Secondary accession number(s): D6VZ35, P39519
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: April 29, 2008
Last modified: June 8, 2016
This is version 131 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

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.