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Protein

S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase

Gene

Tyw1

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

Functioni

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).By similarity

Catalytic activityi

N1-methylguanine(37) in tRNA(Phe) + pyruvate + S-adenosyl-L-methionine = 4-demethylwyosine(37) in tRNA(Phe) + L-methionine + 5'-deoxyadenosine + CO2 + H2O.

Cofactori

[4Fe-4S] clusterBy similarityNote: Binds 1 [4Fe-4S] cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.By similarity

Pathwayi: wybutosine-tRNA(Phe) biosynthesis

This protein is involved in the pathway wybutosine-tRNA(Phe) biosynthesis, which is part of tRNA modification.
View all proteins of this organism that are known to be involved in the pathway wybutosine-tRNA(Phe) biosynthesis and in tRNA modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi405Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi409Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi412Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi77 – 81FMNPROSITE-ProRule annotation5
Nucleotide bindingi168 – 200FMNPROSITE-ProRule annotationAdd BLAST33

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLyase
Biological processtRNA processing
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, Nucleotide-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

UniPathwayi
UPA00375

Names & Taxonomyi

Protein namesi
Recommended name:
S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase (EC:4.1.3.44)
Alternative name(s):
Radical S-adenosyl methionine and flavodoxin domain-containing protein 1
tRNA wybutosine-synthesizing protein 1 homolog
tRNA-yW-synthesizing protein
Gene namesi
Name:Tyw1
Synonyms:Rsafd1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:2141161 Tyw1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002818281 – 721S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthaseAdd BLAST721

Proteomic databases

EPDiQ8BJM7
PaxDbiQ8BJM7
PeptideAtlasiQ8BJM7
PRIDEiQ8BJM7

PTM databases

iPTMnetiQ8BJM7
PhosphoSitePlusiQ8BJM7

Expressioni

Gene expression databases

BgeeiENSMUSG00000056310 Expressed in 224 organ(s), highest expression level in ear vesicle
ExpressionAtlasiQ8BJM7 baseline and differential
GenevisibleiQ8BJM7 MM

Interactioni

Protein-protein interaction databases

BioGridi221556, 2 interactors
IntActiQ8BJM7, 2 interactors
MINTiQ8BJM7
STRINGi10090.ENSMUSP00000037173

Structurei

3D structure databases

ProteinModelPortaliQ8BJM7
SMRiQ8BJM7
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini71 – 229Flavodoxin-likePROSITE-ProRule annotationAdd BLAST159

Sequence similaritiesi

Belongs to the TYW1 family.Curated

Phylogenomic databases

eggNOGiKOG1160 Eukaryota
COG0369 LUCA
COG0731 LUCA
GeneTreeiENSGT00510000047059
HOGENOMiHOG000216584
HOVERGENiHBG108623
InParanoidiQ8BJM7
KOiK15449
OMAiCGGNCKK
OrthoDBiEOG091G06T8
PhylomeDBiQ8BJM7
TreeFamiTF300773

Family and domain databases

Gene3Di3.20.20.70, 1 hit
3.40.50.360, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR001094 Flavdoxin-like
IPR008254 Flavodoxin/NO_synth
IPR029039 Flavoprotein-like_sf
IPR007197 rSAM
IPR013917 tRNA_wybutosine-synth
IPR034556 tRNA_wybutosine-synthase
PANTHERiPTHR13930 PTHR13930, 1 hit
PfamiView protein in Pfam
PF00258 Flavodoxin_1, 1 hit
PF04055 Radical_SAM, 1 hit
PF08608 Wyosine_form, 1 hit
PRINTSiPR00369 FLAVODOXIN
SFLDiSFLDG01071 tRNA_wybutosine-synthesizing, 1 hit
SFLDS00029 Radical_SAM, 1 hit
SUPFAMiSSF52218 SSF52218, 1 hit
PROSITEiView protein in PROSITE
PS50902 FLAVODOXIN_LIKE, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q8BJM7-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' 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
MGPLDVWDLS PLLSLWMNRF YIYMGCALGL TLCICVQIIK KQVTRSQEKR
60 70 80 90 100
VPGAPDSSLS PQKKQTHVSG VKIFYGSQTG TAKGFAVVLA KAVTSLDLPV
110 120 130 140 150
AIINLKEYDP DDSLIGEITS KTVCAFLVAT YTDGCPTESA EWFCKWLEES
160 170 180 190 200
ANDFRFGKTY LKGLRYAVFG LGDSAYRSHF NKVSTNVDKW LWMLGAQRVL
210 220 230 240 250
TRGEGDCNAV QSKHGSIEAD FTAWKTKFIS RLQALQRGEK KACGGNCKRG
260 270 280 290 300
KCESAQHGPG EARPHPQGEL HPGDAEEEEP CESSSEDELG TQDYQSLTSV
310 320 330 340 350
VDVEDLGNIM NPVKREKREK SHQDGKAAMQ RNPEKTEDGE GRAMITPALR
360 370 380 390 400
EALTKQGYQL IGSHSGVKLC RWTKSMLRGR GGCYKHTFYG IESHRCMEAT
410 420 430 440 450
PSLACANKCV FCWRHHTNPV GTEWRWKMDQ PELILKEAIE NHQNMIKQFK
460 470 480 490 500
GVPGLKAERF EEGMEVKHCA LSLVGEPIMY PEINRLLKLL HQHGISSFLV
510 520 530 540 550
TNAQFPEEIR KLTPVTQLYV SVDASTRDGL KKIDRPLFKD FWQRFLDSLK
560 570 580 590 600
ALSAKQQRTV YRLTLVKCWN VDELQAYAEL VSLGNPDFIE VKGVTYCGES
610 620 630 640 650
AASSLTMANV PWHEEVVRFV RELVDLLPDY EVACEHEHSN CLLIGHKKFK
660 670 680 690 700
IDGEWWTWIN YSRFQELVLQ YEESGGSKTF SSRDYMARTP QWALFGARER
710 720
GFDPKDTRYQ RKNKTKDISG C
Length:721
Mass (Da):81,599
Last modified:March 1, 2003 - v1
Checksum:iEDDC14A91335A8FE
GO
Isoform 2 (identifier: Q8BJM7-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     318-386: REKSHQDGKA...LRGRGGCYKH → TSCSALSSYS...RKWRPGRRPL
     387-721: Missing.

Note: No experimental confirmation available.
Show »
Length:386
Mass (Da):42,767
Checksum:i6985AC4AC5BBA3F8
GO

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0R4J0L2A0A0R4J0L2_MOUSE
S-adenosyl-L-methionine-dependent t...
Tyw1 mCG_7163
454Annotation score:
F6VNP0F6VNP0_MOUSE
S-adenosyl-L-methionine-dependent t...
Tyw1
234Annotation score:

Sequence cautioni

The sequence BAC32293 differs from that shown. Probable cloning artifact.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_024068318 – 386REKSH…GCYKH → TSCSALSSYSDSAMSHHNKE KSVRPPSLIQRLLQQVLSMT VGWRRRSSEDSQVQGTSSAR KWRPGRRPL in isoform 2. 1 PublicationAdd BLAST69
Alternative sequenceiVSP_024070387 – 721Missing in isoform 2. 1 PublicationAdd BLAST335

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK045279 mRNA Translation: BAC32293.1 Sequence problems.
AK082884 mRNA Translation: BAC38668.1
AK162899 mRNA Translation: BAE37105.1
BC027065 mRNA Translation: AAH27065.1
BC068126 mRNA Translation: AAH68126.1
CCDSiCCDS19712.1 [Q8BJM7-1]
RefSeqiNP_001015876.1, NM_001015876.2 [Q8BJM7-1]
NP_849228.1, NM_178897.4
XP_006504394.1, XM_006504331.2 [Q8BJM7-1]
UniGeneiMm.271296

Genome annotation databases

EnsembliENSMUST00000040213; ENSMUSP00000037173; ENSMUSG00000056310 [Q8BJM7-1]
ENSMUST00000100662; ENSMUSP00000098226; ENSMUSG00000056310 [Q8BJM7-3]
GeneIDi100929
KEGGimmu:100929
UCSCiuc008zul.2 mouse [Q8BJM7-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK045279 mRNA Translation: BAC32293.1 Sequence problems.
AK082884 mRNA Translation: BAC38668.1
AK162899 mRNA Translation: BAE37105.1
BC027065 mRNA Translation: AAH27065.1
BC068126 mRNA Translation: AAH68126.1
CCDSiCCDS19712.1 [Q8BJM7-1]
RefSeqiNP_001015876.1, NM_001015876.2 [Q8BJM7-1]
NP_849228.1, NM_178897.4
XP_006504394.1, XM_006504331.2 [Q8BJM7-1]
UniGeneiMm.271296

3D structure databases

ProteinModelPortaliQ8BJM7
SMRiQ8BJM7
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi221556, 2 interactors
IntActiQ8BJM7, 2 interactors
MINTiQ8BJM7
STRINGi10090.ENSMUSP00000037173

PTM databases

iPTMnetiQ8BJM7
PhosphoSitePlusiQ8BJM7

Proteomic databases

EPDiQ8BJM7
PaxDbiQ8BJM7
PeptideAtlasiQ8BJM7
PRIDEiQ8BJM7

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000040213; ENSMUSP00000037173; ENSMUSG00000056310 [Q8BJM7-1]
ENSMUST00000100662; ENSMUSP00000098226; ENSMUSG00000056310 [Q8BJM7-3]
GeneIDi100929
KEGGimmu:100929
UCSCiuc008zul.2 mouse [Q8BJM7-1]

Organism-specific databases

CTDi55253
MGIiMGI:2141161 Tyw1

Phylogenomic databases

eggNOGiKOG1160 Eukaryota
COG0369 LUCA
COG0731 LUCA
GeneTreeiENSGT00510000047059
HOGENOMiHOG000216584
HOVERGENiHBG108623
InParanoidiQ8BJM7
KOiK15449
OMAiCGGNCKK
OrthoDBiEOG091G06T8
PhylomeDBiQ8BJM7
TreeFamiTF300773

Enzyme and pathway databases

UniPathwayi
UPA00375

Miscellaneous databases

PROiPR:Q8BJM7
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000056310 Expressed in 224 organ(s), highest expression level in ear vesicle
ExpressionAtlasiQ8BJM7 baseline and differential
GenevisibleiQ8BJM7 MM

Family and domain databases

Gene3Di3.20.20.70, 1 hit
3.40.50.360, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR001094 Flavdoxin-like
IPR008254 Flavodoxin/NO_synth
IPR029039 Flavoprotein-like_sf
IPR007197 rSAM
IPR013917 tRNA_wybutosine-synth
IPR034556 tRNA_wybutosine-synthase
PANTHERiPTHR13930 PTHR13930, 1 hit
PfamiView protein in Pfam
PF00258 Flavodoxin_1, 1 hit
PF04055 Radical_SAM, 1 hit
PF08608 Wyosine_form, 1 hit
PRINTSiPR00369 FLAVODOXIN
SFLDiSFLDG01071 tRNA_wybutosine-synthesizing, 1 hit
SFLDS00029 Radical_SAM, 1 hit
SUPFAMiSSF52218 SSF52218, 1 hit
PROSITEiView protein in PROSITE
PS50902 FLAVODOXIN_LIKE, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiTYW1_MOUSE
AccessioniPrimary (citable) accession number: Q8BJM7
Secondary accession number(s): Q3TRC5, Q8BLG4, Q8R0C7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: March 1, 2003
Last modified: November 7, 2018
This is version 128 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  3. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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