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Protein

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

Gene

TYW1B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at transcript 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 bindingi352Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi356Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi359Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi43 – 47FMNPROSITE-ProRule annotation5
Nucleotide bindingi130 – 162FMNPROSITE-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

UniPathwayiUPA00375

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 2
tRNA wybutosine-synthesizing protein 1 homolog B
Gene namesi
Name:TYW1B
Synonyms:RSAFD2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

EuPathDBiHostDB:ENSG00000277149.4
HGNCiHGNC:33908 TYW1B
neXtProtiNX_Q6NUM6

Pathology & Biotechi

Organism-specific databases

DisGeNETi441250
OpenTargetsiENSG00000277149
PharmGKBiPA164727375

Polymorphism and mutation databases

BioMutaiTYW1B

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002818271 – 668S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthaseAdd BLAST668

Proteomic databases

EPDiQ6NUM6
PeptideAtlasiQ6NUM6
PRIDEiQ6NUM6

PTM databases

iPTMnetiQ6NUM6
PhosphoSitePlusiQ6NUM6

Expressioni

Gene expression databases

BgeeiENSG00000277149
CleanExiHS_TYW1B

Organism-specific databases

HPAiHPA013568
HPA014118
HPA043136
HPA047029
HPA047052
HPA052097

Interactioni

Protein-protein interaction databases

BioGridi137301, 15 interactors
IntActiQ6NUM6, 1 interactor

Structurei

3D structure databases

ProteinModelPortaliQ6NUM6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini37 – 191Flavodoxin-likePROSITE-ProRule annotationAdd BLAST155

Sequence similaritiesi

Belongs to the TYW1 family.Curated

Phylogenomic databases

GeneTreeiENSGT00510000047059
HOGENOMiHOG000169186
HOVERGENiHBG108623
InParanoidiQ6NUM6
KOiK15449
OMAiTSYEPED
OrthoDBiEOG091G06T8

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, 3 hits
PfamiView protein in Pfam
PF00258 Flavodoxin_1, 1 hit
PF04055 Radical_SAM, 1 hit
PF08608 Wyosine_form, 1 hit
PRINTSiPR00369 FLAVODOXIN
SFLDiSFLDS00029 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

Isoform 1 (identifier: Q6NUM6-1) [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
MDPSADTWDL SSPLISLWIN RFYIYLGFAV SISLWICVQI VIEMQGFATV
60 70 80 90 100
LAEAVTSLDL PVAIINLKEY DPDDHLIEEV TSKNVCVFLV ATYTDGLPTE
110 120 130 140 150
SAEWFCKWLE EASIDFRFGK TYLKGMRDAV FGLGNSAYAS HFNKVGKNVD
160 170 180 190 200
KWLWMLGVHR VMSRGEGDCD VVKSKHGSIE ANFRAWKTKF ISQLQALQKG
210 220 230 240 250
ERKKSCGGHC KKGKCESHQH GSEEREEGSQ EQDELHHRDT KEEEPFESSS
260 270 280 290 300
EEEFGGEDHQ SLNSIVDVED LGKIMDHVKK EKREKEQQEE KSGLFRNMGR
310 320 330 340 350
NEDGERRAMI TPALREALTK QVDAPRERSL LQTHILWNES HRCMETTPSL
360 370 380 390 400
ACANKCVFCW WHHNNPVGTE WLWKMDQPEM ILKEAIENHQ NMIKQFKGVP
410 420 430 440 450
GVKAERFEEG MTVKHCALSL VGEPIMYPEI NRFLKLLHQC KISSFLVTNA
460 470 480 490 500
QFPAEIRNLE PVTQLYVSVD ASTKDSLKKI DRPLFKDFWQ QFLDSLKALA
510 520 530 540 550
VKQQRTVYRL MLVKAWNVDE LQAYAQLVSL GNPDFIEVKG VTYCRESSAS
560 570 580 590 600
SLTMAHVPWH EEVVQFVREL VDLIPEYEIA CEHEHSNCLL IAHRKFKIGG
610 620 630 640 650
EWWTWIDYNR FQELIQEYED SGGSKTFSAK DYMARTPHWA LFGANERSFD
660
PKDTRHQRKN KSKAISGC
Length:668
Mass (Da):76,946
Last modified:March 28, 2018 - v4
Checksum:i61865C282FBF1E4C
GO
Isoform 2 (identifier: Q6NUM6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-374: Missing.

Note: No experimental confirmation available.
Show »
Length:294
Mass (Da):34,090
Checksum:i36F5FD28AD572191
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti511M → T in AAH68520 (PubMed:15489334).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0560921 – 374Missing in isoform 2. 1 PublicationAdd BLAST374

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK294319 mRNA Translation: BAG57593.1
AC091738 Genomic DNA No translation available.
AC092536 Genomic DNA No translation available.
AC211469 Genomic DNA No translation available.
BC068520 mRNA Translation: AAH68520.1
BC106019 mRNA Translation: AAI06020.1
CCDSiCCDS69309.1 [Q6NUM6-1]
RefSeqiNP_001138912.2, NM_001145440.2 [Q6NUM6-1]
UniGeneiHs.488614

Genome annotation databases

EnsembliENST00000620995; ENSP00000482502; ENSG00000277149 [Q6NUM6-1]
GeneIDi441250
KEGGihsa:441250

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiTYW1B_HUMAN
AccessioniPrimary (citable) accession number: Q6NUM6
Secondary accession number(s): A0A087WZB2
, A6NG09, B4DFY2, Q3KQX2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: March 28, 2018
Last modified: May 23, 2018
This is version 108 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

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