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Protein

tRNA wybutosine-synthesizing protein 3 homolog

Gene

TYW3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Probable S-adenosyl-L-methionine-dependent methyltransferase that acts as a 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 (By similarity).By similarity

Catalytic activityi

S-adenosyl-L-methionine + 7-((3S)-(3-amino-3-carboxypropyl))-4-demethylwyosine(37) in tRNA(Phe) = S-adenosyl-L-homocysteine + 7-((3S)-(3-amino-3-carboxypropyl))wyosine(37) in tRNA(Phe).

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.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

ReactomeiR-HSA-6782861. Synthesis of wybutosine at G37 of tRNA(Phe).
UniPathwayiUPA00375.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA wybutosine-synthesizing protein 3 homolog (EC:2.1.1.282)
Short name:
tRNA-yW-synthesizing protein 3
Alternative name(s):
tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase
Gene namesi
Name:TYW3
Synonyms:C1orf171
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:24757. TYW3.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142672420.

Polymorphism and mutation databases

BioMutaiTYW3.
DMDMi224471865.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 259259tRNA wybutosine-synthesizing protein 3 homologPRO_0000281842Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei25 – 251PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ6IPR3.
MaxQBiQ6IPR3.
PaxDbiQ6IPR3.
PRIDEiQ6IPR3.

PTM databases

iPTMnetiQ6IPR3.
PhosphoSiteiQ6IPR3.

Expressioni

Gene expression databases

BgeeiQ6IPR3.
CleanExiHS_TYW3.
ExpressionAtlasiQ6IPR3. baseline and differential.
GenevisibleiQ6IPR3. HS.

Organism-specific databases

HPAiHPA029641.

Interactioni

Protein-protein interaction databases

BioGridi126045. 26 interactions.
IntActiQ6IPR3. 3 interactions.
STRINGi9606.ENSP00000359904.

Structurei

3D structure databases

ProteinModelPortaliQ6IPR3.
SMRiQ6IPR3. Positions 1-188.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the TYW3 family.Curated

Phylogenomic databases

eggNOGiKOG1228. Eukaryota.
COG1590. LUCA.
GeneTreeiENSGT00390000018149.
HOGENOMiHOG000007205.
HOVERGENiHBG106708.
InParanoidiQ6IPR3.
KOiK15450.
OMAiGKWHHYA.
OrthoDBiEOG76T9T0.
PhylomeDBiQ6IPR3.
TreeFamiTF329327.

Family and domain databases

Gene3Di3.30.1960.10. 1 hit.
InterProiIPR003827. tRNA_yW-synthesising.
[Graphical view]
PfamiPF02676. TYW3. 1 hit.
[Graphical view]
SUPFAMiSSF111278. SSF111278. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q6IPR3-1) [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
MDRSAEFRKW KAQCLSKADL SRKGSVDEDV VELVQFLNMR DQFFTTSSCA
60 70 80 90 100
GRILLLDRGI NGFEVQKQNC CWLLVTHKLC VKDDVIVALK KANGDATLKF
110 120 130 140 150
EPFVLHVQCR QLQDAQILHS MAIDSGFRNS GITVGKRGKT MLAVRSTHGL
160 170 180 190 200
EVPLSHKGKL MVTEEYIDFL LNVANQKMEE NKKRIERFYN CLQHALERET
210 220 230 240 250
MTNLHPKIKE KNNSSYIHKK KRNPEKTRAQ CITKESDEEL ENDDDDDLGI

NVTIFPEDY
Length:259
Mass (Da):29,794
Last modified:March 3, 2009 - v2
Checksum:i150BA9247232324D
GO
Isoform 2 (identifier: Q6IPR3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     86-118: Missing.

Note: No experimental confirmation available.
Show »
Length:226
Mass (Da):26,104
Checksum:i06E7316CA900B780
GO

Sequence cautioni

The sequence CAI46106.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti143 – 1431A → V in AAH71765 (PubMed:15489334).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti110 – 1101R → Q.
Corresponds to variant rs11538281 [ dbSNP | Ensembl ].
VAR_031292
Natural varianti121 – 1211M → V.1 Publication
Corresponds to variant rs1133891 [ dbSNP | Ensembl ].
VAR_031293

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei86 – 11833Missing in isoform 2. 1 PublicationVSP_044477Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK098237 mRNA. Translation: BAC05267.1.
AK299849 mRNA. Translation: BAG61711.1.
AC091611 Genomic DNA. No translation available.
BC071765 mRNA. Translation: AAH71765.1.
BX647591 mRNA. Translation: CAI46106.1. Different initiation.
CCDSiCCDS53334.1. [Q6IPR3-2]
CCDS666.1. [Q6IPR3-1]
RefSeqiNP_001156388.1. NM_001162916.1. [Q6IPR3-2]
NP_612476.1. NM_138467.2. [Q6IPR3-1]
XP_006710410.1. XM_006710347.1. [Q6IPR3-1]
UniGeneiHs.348411.

Genome annotation databases

EnsembliENST00000370867; ENSP00000359904; ENSG00000162623. [Q6IPR3-1]
ENST00000457880; ENSP00000407025; ENSG00000162623. [Q6IPR3-2]
GeneIDi127253.
KEGGihsa:127253.
UCSCiuc001dgn.4. human. [Q6IPR3-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK098237 mRNA. Translation: BAC05267.1.
AK299849 mRNA. Translation: BAG61711.1.
AC091611 Genomic DNA. No translation available.
BC071765 mRNA. Translation: AAH71765.1.
BX647591 mRNA. Translation: CAI46106.1. Different initiation.
CCDSiCCDS53334.1. [Q6IPR3-2]
CCDS666.1. [Q6IPR3-1]
RefSeqiNP_001156388.1. NM_001162916.1. [Q6IPR3-2]
NP_612476.1. NM_138467.2. [Q6IPR3-1]
XP_006710410.1. XM_006710347.1. [Q6IPR3-1]
UniGeneiHs.348411.

3D structure databases

ProteinModelPortaliQ6IPR3.
SMRiQ6IPR3. Positions 1-188.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi126045. 26 interactions.
IntActiQ6IPR3. 3 interactions.
STRINGi9606.ENSP00000359904.

PTM databases

iPTMnetiQ6IPR3.
PhosphoSiteiQ6IPR3.

Polymorphism and mutation databases

BioMutaiTYW3.
DMDMi224471865.

Proteomic databases

EPDiQ6IPR3.
MaxQBiQ6IPR3.
PaxDbiQ6IPR3.
PRIDEiQ6IPR3.

Protocols and materials databases

DNASUi127253.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000370867; ENSP00000359904; ENSG00000162623. [Q6IPR3-1]
ENST00000457880; ENSP00000407025; ENSG00000162623. [Q6IPR3-2]
GeneIDi127253.
KEGGihsa:127253.
UCSCiuc001dgn.4. human. [Q6IPR3-1]

Organism-specific databases

CTDi127253.
GeneCardsiTYW3.
H-InvDBHIX0000701.
HGNCiHGNC:24757. TYW3.
HPAiHPA029641.
MIMi611245. gene.
neXtProtiNX_Q6IPR3.
PharmGKBiPA142672420.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1228. Eukaryota.
COG1590. LUCA.
GeneTreeiENSGT00390000018149.
HOGENOMiHOG000007205.
HOVERGENiHBG106708.
InParanoidiQ6IPR3.
KOiK15450.
OMAiGKWHHYA.
OrthoDBiEOG76T9T0.
PhylomeDBiQ6IPR3.
TreeFamiTF329327.

Enzyme and pathway databases

UniPathwayiUPA00375.
ReactomeiR-HSA-6782861. Synthesis of wybutosine at G37 of tRNA(Phe).

Miscellaneous databases

ChiTaRSiTYW3. human.
GenomeRNAii127253.
NextBioi82039.
PROiQ6IPR3.
SOURCEiSearch...

Gene expression databases

BgeeiQ6IPR3.
CleanExiHS_TYW3.
ExpressionAtlasiQ6IPR3. baseline and differential.
GenevisibleiQ6IPR3. HS.

Family and domain databases

Gene3Di3.30.1960.10. 1 hit.
InterProiIPR003827. tRNA_yW-synthesising.
[Graphical view]
PfamiPF02676. TYW3. 1 hit.
[Graphical view]
SUPFAMiSSF111278. SSF111278. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2), VARIANT VAL-121.
    Tissue: Brain and Uterus.
  2. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "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] (ISOFORM 1).
    Tissue: Testis.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 156-259.
    Tissue: Heart.

Entry informationi

Entry nameiTYW3_HUMAN
AccessioniPrimary (citable) accession number: Q6IPR3
Secondary accession number(s): B4DSP9
, E9PGR7, Q5HYJ0, Q8N7L1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: March 3, 2009
Last modified: April 13, 2016
This is version 97 of the entry and version 2 of the sequence. [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 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  6. 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.