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 (cytosine(48)-C(5))-methyltransferase

Gene

trm4

Organism
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes AdoMet-dependent formation of m5C in tRNA. Cytidine residue at either position 40 or position 48 is likely to be methylated.1 Publication

Catalytic activityi

S-adenosyl-L-methionine + cytosine(48) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(48) in tRNA precursor.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei115 – 1151S-adenosyl-L-methionine
Binding sitei120 – 1201S-adenosyl-L-methionine
Binding sitei142 – 1421S-adenosyl-L-methionine
Binding sitei163 – 1631S-adenosyl-L-methionine
Binding sitei169 – 1691S-adenosyl-L-methionine
Binding sitei189 – 1891S-adenosyl-L-methionine
Active sitei212 – 2121NucleophileCurated

GO - Molecular functioni

  • RNA binding Source: UniProtKB-KW
  • tRNA (cytosine-5-)-methyltransferase activity Source: UniProtKB

GO - Biological processi

  • rRNA processing Source: InterPro
  • tRNA methylation Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

RNA-binding, S-adenosyl-L-methionine

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (cytosine(48)-C(5))-methyltransferase (EC:2.1.1.-)
Alternative name(s):
aTrm4
tRNA (cytosine-5-)-methyltransferase Trm4
Gene namesi
Name:trm4
Ordered Locus Names:MJ0026
OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Taxonomic identifieri243232 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
Proteomesi
  • UP000000805 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 274274tRNA (cytosine(48)-C(5))-methyltransferasePRO_0000211821Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi243232.MJ_0026.

Structurei

Secondary structure

1
274
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi11 – 155Combined sources
Turni17 – 193Combined sources
Helixi22 – 309Combined sources
Turni31 – 333Combined sources
Beta strandi35 – 384Combined sources
Beta strandi44 – 496Combined sources
Helixi58 – 614Combined sources
Beta strandi64 – 674Combined sources
Helixi71 – 733Combined sources
Helixi74 – 796Combined sources
Beta strandi86 – 894Combined sources
Helixi96 – 1049Combined sources
Turni105 – 1073Combined sources
Beta strandi109 – 1168Combined sources
Helixi118 – 13013Combined sources
Beta strandi135 – 1417Combined sources
Helixi143 – 15210Combined sources
Beta strandi157 – 1648Combined sources
Helixi167 – 1693Combined sources
Helixi180 – 1834Combined sources
Helixi185 – 1873Combined sources
Helixi190 – 20011Combined sources
Beta strandi201 – 21212Combined sources
Helixi216 – 2183Combined sources
Helixi220 – 22910Combined sources
Beta strandi231 – 2366Combined sources
Beta strandi248 – 2503Combined sources
Beta strandi257 – 2593Combined sources
Beta strandi266 – 2738Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3A4TX-ray2.30A/B1-274[»]
3AJDX-ray1.27A1-274[»]
ProteinModelPortaliQ60343.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ60343.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni91 – 977S-adenosyl-L-methionine binding

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiarCOG00973. Archaea.
COG0144. LUCA.
InParanoidiQ60343.
OMAiPPNEPFF.
PhylomeDBiQ60343.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR001678. MeTrfase_RsmB/NOP2.
IPR011023. Nop2p.
IPR023267. RCMT.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00446. nop2p. 1 hit.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q60343-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMIVYKGEKM QFIRVNTLKI NPEVLKKRLE NKGVVLEKTF LDYAFEVKKS
60 70 80 90 100
PFSIGSTPEY LFGYYMPQSI SSMIPPIVLN PREDDFILDM CAAPGGKTTH
110 120 130 140 150
LAQLMKNKGT IVAVEISKTR TKALKSNINR MGVLNTIIIN ADMRKYKDYL
160 170 180 190 200
LKNEIFFDKI LLDAPCSGNI IKDKNRNVSE EDIKYCSLRQ KELIDIGIDL
210 220 230 240 250
LKKDGELVYS TCSMEVEENE EVIKYILQKR NDVELIIIKA NEFKGINIKE
260 270
GYIKGTLRVF PPNEPFFIAK LRKI
Length:274
Mass (Da):31,490
Last modified:November 1, 1997 - v1
Checksum:iF7396827523369CF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB98007.1.
PIRiB64303.

Genome annotation databases

EnsemblBacteriaiAAB98007; AAB98007; MJ_0026.
KEGGimja:MJ_0026.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB98007.1.
PIRiB64303.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3A4TX-ray2.30A/B1-274[»]
3AJDX-ray1.27A1-274[»]
ProteinModelPortaliQ60343.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243232.MJ_0026.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB98007; AAB98007; MJ_0026.
KEGGimja:MJ_0026.

Phylogenomic databases

eggNOGiarCOG00973. Archaea.
COG0144. LUCA.
InParanoidiQ60343.
OMAiPPNEPFF.
PhylomeDBiQ60343.

Miscellaneous databases

EvolutionaryTraceiQ60343.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR001678. MeTrfase_RsmB/NOP2.
IPR011023. Nop2p.
IPR023267. RCMT.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00446. nop2p. 1 hit.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTRM4_METJA
AccessioniPrimary (citable) accession number: Q60343
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: May 11, 2016
This is version 90 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Methanococcus jannaschii
    Methanococcus jannaschii: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.