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Protein

tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6

Gene

TRMT6

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

Functioni

Substrate-binding subunit of tRNA (adenine-N(1)-)-methyltransferase, which catalyzes the formation of N(1)-methyladenine at position 58 (m1A58) in initiator methionyl-tRNA.1 Publication

GO - Molecular functioni

  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BRENDAi2.1.1.220. 2681.
ReactomeiR-HSA-6782315. tRNA modification in the nucleus and cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6
Alternative name(s):
tRNA(m1A58)-methyltransferase subunit TRM6
Short name:
tRNA(m1A58)MTase subunit TRM6
Gene namesi
Name:TRMT6
Synonyms:KIAA1153, TRM6
ORF Names:CGI-09
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 20

Organism-specific databases

HGNCiHGNC:20900. TRMT6.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162407063.

Polymorphism and mutation databases

DMDMi74753354.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 497497tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6PRO_0000233098Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei107 – 1071PhosphothreonineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9UJA5.
MaxQBiQ9UJA5.
PaxDbiQ9UJA5.
PeptideAtlasiQ9UJA5.
PRIDEiQ9UJA5.

PTM databases

iPTMnetiQ9UJA5.
PhosphoSiteiQ9UJA5.

Expressioni

Tissue specificityi

Expressed in brain, liver, testis and ovary.1 Publication

Gene expression databases

BgeeiQ9UJA5.
CleanExiHS_TRMT6.
GenevisibleiQ9UJA5. HS.

Organism-specific databases

HPAiHPA047032.
HPA050408.

Interactioni

Subunit structurei

tRNA (adenine-N(1)-)-methyltransferase is a heterodimer of TRM6 and TRM61.1 Publication

Protein-protein interaction databases

BioGridi119634. 47 interactions.
IntActiQ9UJA5. 14 interactions.
MINTiMINT-5005724.
STRINGi9606.ENSP00000203001.

Structurei

Secondary structure

1
497
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi25 – 306Combined sources
Beta strandi33 – 386Combined sources
Beta strandi44 – 463Combined sources
Beta strandi51 – 533Combined sources
Helixi54 – 563Combined sources
Beta strandi59 – 613Combined sources
Beta strandi64 – 7411Combined sources
Helixi108 – 1169Combined sources
Helixi122 – 1309Combined sources
Beta strandi132 – 1343Combined sources
Helixi135 – 1373Combined sources
Helixi140 – 15415Combined sources
Beta strandi159 – 1613Combined sources
Helixi165 – 17511Combined sources
Helixi177 – 1804Combined sources
Helixi185 – 19410Combined sources
Beta strandi202 – 2076Combined sources
Helixi212 – 22110Combined sources
Beta strandi225 – 2328Combined sources
Helixi239 – 2435Combined sources
Helixi248 – 2514Combined sources
Beta strandi254 – 2585Combined sources
Helixi259 – 2613Combined sources
Helixi262 – 2676Combined sources
Helixi342 – 36524Combined sources
Beta strandi369 – 3757Combined sources
Helixi380 – 3878Combined sources
Helixi388 – 3903Combined sources
Beta strandi396 – 4049Combined sources
Helixi405 – 41713Combined sources
Beta strandi420 – 43415Combined sources
Beta strandi441 – 4466Combined sources
Beta strandi448 – 4503Combined sources
Beta strandi452 – 4587Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5CCBX-ray2.00B1-497[»]
5CCXX-ray2.10B1-497[»]
5CD1X-ray3.60B/E1-497[»]
ProteinModelPortaliQ9UJA5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the TRM6/GCD10 family.Curated

Phylogenomic databases

eggNOGiKOG1416. Eukaryota.
ENOG410XSXD. LUCA.
GeneTreeiENSGT00390000008327.
HOGENOMiHOG000232007.
HOVERGENiHBG061231.
InParanoidiQ9UJA5.
KOiK03256.
OMAiMHAKFDS.
OrthoDBiEOG7DC24P.
PhylomeDBiQ9UJA5.
TreeFamiTF314835.

Family and domain databases

InterProiIPR017423. TRM6.
[Graphical view]
PANTHERiPTHR12945. PTHR12945. 1 hit.
PfamiPF04189. Gcd10p. 1 hit.
[Graphical view]
PIRSFiPIRSF038170. tRNA_m1A_mtfrase. 1 hit.

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9UJA5-1) [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
MEGSGEQPGP QPQHPGDHRI RDGDFVVLKR EDVFKAVQVQ RRKKVTFEKQ
60 70 80 90 100
WFYLDNVIGH SYGTAFEVTS GGSLQPKKKR EEPTAETKEA GTDNRNIVDD
110 120 130 140 150
GKSQKLTQDD IKALKDKGIK GEEIVQQLIE NSTTFRDKTE FAQDKYIKKK
160 170 180 190 200
KKKYEAIITV VKPSTRILSI MYYAREPGKI NHMRYDTLAQ MLTLGNIRAG
210 220 230 240 250
NKMIVMETCA GLVLGAMMER MGGFGSIIQL YPGGGPVRAA TACFGFPKSF
260 270 280 290 300
LSGLYEFPLN KVDSLLHGTF SAKMLSSEPK DSALVEESNG TLEEKQASEQ
310 320 330 340 350
ENEDSMAEAP ESNHPEDQET METISQDPEH KGPKERGSKK DYIQEKQRRQ
360 370 380 390 400
EEQRKRHLEA AALLSERNAD GLIVASRFHP TPLLLSLLDF VAPSRPFVVY
410 420 430 440 450
CQYKEPLLEC YTKLRERGGV INLRLSETWL RNYQVLPDRS HPKLLMSGGG
460 470 480 490
GYLLSGFTVA MDNLKADTSL KSNASTLESH ETEEPAAKKR KCPESDS
Length:497
Mass (Da):55,799
Last modified:May 1, 2000 - v1
Checksum:i920800D0722A6CBB
GO
Isoform 2 (identifier: Q9UJA5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     372-497: LIVASRFHPT...KKRKCPESDS → CVDGRRQETPQCMWALLQTDWHSLSPCL

Show »
Length:399
Mass (Da):44,963
Checksum:i28C0FB314555F56C
GO
Isoform 3 (identifier: Q9UJA5-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     344-365: QEKQRRQEEQRKRHLEAAALLS → SGKNRGRQGRSSGKDFWGCRFA
     366-497: Missing.

Note: No experimental confirmation available.
Show »
Length:365
Mass (Da):40,816
Checksum:i15B0559642D8D087
GO
Isoform 4 (identifier: Q9UJA5-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-170: Missing.

Show »
Length:327
Mass (Da):36,439
Checksum:iF01F65B739562EE6
GO

Sequence cautioni

The sequence BAA86467.1 differs from that shown. Reason: Frameshift at position 319. Curated
The sequence BAA86467.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti293 – 2931E → K.
Corresponds to variant rs6139876 [ dbSNP | Ensembl ].
VAR_053789
Natural varianti299 – 2991E → G.2 Publications
Corresponds to variant rs451571 [ dbSNP | Ensembl ].
VAR_053790
Natural varianti333 – 3331P → L.
Corresponds to variant rs35203742 [ dbSNP | Ensembl ].
VAR_053791

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 170170Missing in isoform 4. 1 PublicationVSP_054740Add
BLAST
Alternative sequencei344 – 36522QEKQR…AALLS → SGKNRGRQGRSSGKDFWGCR FA in isoform 3. 1 PublicationVSP_031100Add
BLAST
Alternative sequencei366 – 497132Missing in isoform 3. 1 PublicationVSP_031101Add
BLAST
Alternative sequencei372 – 497126LIVAS…PESDS → CVDGRRQETPQCMWALLQTD WHSLSPCL in isoform 2. 1 PublicationVSP_018025Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB032979 mRNA. Translation: BAA86467.1. Different initiation.
AF132943 mRNA. Translation: AAD27718.1. Frameshift.
AK000613 mRNA. No translation available.
AK300812 mRNA. Translation: BAG62468.1.
AL035461 Genomic DNA. Translation: CAB55274.1.
BC001262 mRNA. Translation: AAH01262.1.
CCDSiCCDS13093.1. [Q9UJA5-1]
CCDS63225.1. [Q9UJA5-4]
RefSeqiNP_001268396.1. NM_001281467.1. [Q9UJA5-4]
NP_057023.2. NM_015939.4. [Q9UJA5-1]
UniGeneiHs.128791.

Genome annotation databases

EnsembliENST00000203001; ENSP00000203001; ENSG00000089195. [Q9UJA5-1]
ENST00000453074; ENSP00000392070; ENSG00000089195. [Q9UJA5-4]
GeneIDi51605.
KEGGihsa:51605.
UCSCiuc002wmh.3. human. [Q9UJA5-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB032979 mRNA. Translation: BAA86467.1. Different initiation.
AF132943 mRNA. Translation: AAD27718.1. Frameshift.
AK000613 mRNA. No translation available.
AK300812 mRNA. Translation: BAG62468.1.
AL035461 Genomic DNA. Translation: CAB55274.1.
BC001262 mRNA. Translation: AAH01262.1.
CCDSiCCDS13093.1. [Q9UJA5-1]
CCDS63225.1. [Q9UJA5-4]
RefSeqiNP_001268396.1. NM_001281467.1. [Q9UJA5-4]
NP_057023.2. NM_015939.4. [Q9UJA5-1]
UniGeneiHs.128791.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5CCBX-ray2.00B1-497[»]
5CCXX-ray2.10B1-497[»]
5CD1X-ray3.60B/E1-497[»]
ProteinModelPortaliQ9UJA5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119634. 47 interactions.
IntActiQ9UJA5. 14 interactions.
MINTiMINT-5005724.
STRINGi9606.ENSP00000203001.

PTM databases

iPTMnetiQ9UJA5.
PhosphoSiteiQ9UJA5.

Polymorphism and mutation databases

DMDMi74753354.

Proteomic databases

EPDiQ9UJA5.
MaxQBiQ9UJA5.
PaxDbiQ9UJA5.
PeptideAtlasiQ9UJA5.
PRIDEiQ9UJA5.

Protocols and materials databases

DNASUi51605.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000203001; ENSP00000203001; ENSG00000089195. [Q9UJA5-1]
ENST00000453074; ENSP00000392070; ENSG00000089195. [Q9UJA5-4]
GeneIDi51605.
KEGGihsa:51605.
UCSCiuc002wmh.3. human. [Q9UJA5-1]

Organism-specific databases

CTDi51605.
GeneCardsiTRMT6.
HGNCiHGNC:20900. TRMT6.
HPAiHPA047032.
HPA050408.
neXtProtiNX_Q9UJA5.
PharmGKBiPA162407063.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1416. Eukaryota.
ENOG410XSXD. LUCA.
GeneTreeiENSGT00390000008327.
HOGENOMiHOG000232007.
HOVERGENiHBG061231.
InParanoidiQ9UJA5.
KOiK03256.
OMAiMHAKFDS.
OrthoDBiEOG7DC24P.
PhylomeDBiQ9UJA5.
TreeFamiTF314835.

Enzyme and pathway databases

BRENDAi2.1.1.220. 2681.
ReactomeiR-HSA-6782315. tRNA modification in the nucleus and cytosol.

Miscellaneous databases

GenomeRNAii51605.
NextBioi35475284.
PROiQ9UJA5.

Gene expression databases

BgeeiQ9UJA5.
CleanExiHS_TRMT6.
GenevisibleiQ9UJA5. HS.

Family and domain databases

InterProiIPR017423. TRM6.
[Graphical view]
PANTHERiPTHR12945. PTHR12945. 1 hit.
PfamiPF04189. Gcd10p. 1 hit.
[Graphical view]
PIRSFiPIRSF038170. tRNA_m1A_mtfrase. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of cDNA clones selected by the GeneMark analysis from size-fractionated cDNA libraries from human brain."
    Hirosawa M., Nagase T., Ishikawa K., Kikuno R., Nomura N., Ohara O.
    DNA Res. 6:329-336(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
    Tissue: Brain.
  2. "Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics."
    Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C.
    Genome Res. 10:703-713(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3), VARIANT GLY-299.
  3. "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 4), VARIANT GLY-299.
  4. "The DNA sequence and comparative analysis of human chromosome 20."
    Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E.
    , Bridgeman A.M., Brown A.J., Buck D., Burrill W.D., Butler A.P., Carder C., Carter N.P., Chapman J.C., Clamp M., Clark G., Clark L.N., Clark S.Y., Clee C.M., Clegg S., Cobley V.E., Collier R.E., Connor R.E., Corby N.R., Coulson A., Coville G.J., Deadman R., Dhami P.D., Dunn M., Ellington A.G., Frankland J.A., Fraser A., French L., Garner P., Grafham D.V., Griffiths C., Griffiths M.N.D., Gwilliam R., Hall R.E., Hammond S., Harley J.L., Heath P.D., Ho S., Holden J.L., Howden P.J., Huckle E., Hunt A.R., Hunt S.E., Jekosch K., Johnson C.M., Johnson D., Kay M.P., Kimberley A.M., King A., Knights A., Laird G.K., Lawlor S., Lehvaeslaiho M.H., Leversha M.A., Lloyd C., Lloyd D.M., Lovell J.D., Marsh V.L., Martin S.L., McConnachie L.J., McLay K., McMurray A.A., Milne S.A., Mistry D., Moore M.J.F., Mullikin J.C., Nickerson T., Oliver K., Parker A., Patel R., Pearce T.A.V., Peck A.I., Phillimore B.J.C.T., Prathalingam S.R., Plumb R.W., Ramsay H., Rice C.M., Ross M.T., Scott C.E., Sehra H.K., Shownkeen R., Sims S., Skuce C.D., Smith M.L., Soderlund C., Steward C.A., Sulston J.E., Swann R.M., Sycamore N., Taylor R., Tee L., Thomas D.W., Thorpe A., Tracey A., Tromans A.C., Vaudin M., Wall M., Wallis J.M., Whitehead S.L., Whittaker P., Willey D.L., Williams L., Williams S.A., Wilming L., Wray P.W., Hubbard T., Durbin R.M., Bentley D.R., Beck S., Rogers J.
    Nature 414:865-871(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "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: Cervix.
  6. "The bipartite structure of the tRNA m1A58 methyltransferase from S. cerevisiae is conserved in humans."
    Ozanick S., Krecic A., Andersland J., Anderson J.T.
    RNA 11:1281-1290(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBUNIT.
  7. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-107, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic kidney.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiTRM6_HUMAN
AccessioniPrimary (citable) accession number: Q9UJA5
Secondary accession number(s): B4DUV6
, Q76P92, Q9BQV5, Q9ULR7, Q9Y2Z8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 2, 2006
Last sequence update: May 1, 2000
Last modified: April 13, 2016
This is version 118 of the entry and version 1 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 20
    Human chromosome 20: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  5. 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.