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Protein

Multisite-specific tRNA:(cytosine-C(5))-methyltransferase trm4b

Gene

trm4b

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Functions redundantly with trm4a to methylate cytosine to m5C at several positions (48, 49, 60, 61 and 62) in tRNA(Asp).1 Publication

Catalytic activityi

S-adenosyl-L-methionine + cytosine(48) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(48) in tRNA precursor.
S-adenosyl-L-methionine + cytosine(49) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(49) in tRNA precursor.
S-adenosyl-L-methionine + cytosine(60) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(60) in tRNA precursor.
S-adenosyl-L-methionine + cytosine(61) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(61) in tRNA precursor.
S-adenosyl-L-methionine + cytosine(62) in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine(62) in tRNA precursor.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei208S-adenosyl-L-methioninePROSITE-ProRule annotation1
Binding sitei235S-adenosyl-L-methioninePROSITE-ProRule annotation1
Binding sitei270S-adenosyl-L-methioninePROSITE-ProRule annotation1
Active sitei323NucleophilePROSITE-ProRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

RNA-binding, S-adenosyl-L-methionine, tRNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Multisite-specific tRNA:(cytosine-C(5))-methyltransferase trm4b (EC:2.1.1.-)
Alternative name(s):
tRNA (cytosine-5-)-methyltransferase trm4b
Gene namesi
Name:trm4b
ORF Names:SPAC23C4.17
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome I

Organism-specific databases

EuPathDBiFungiDB:SPAC23C4.17.
PomBaseiSPAC23C4.17.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: GO_Central
  • nucleus Source: PomBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003171511 – 685Multisite-specific tRNA:(cytosine-C(5))-methyltransferase trm4bAdd BLAST685

Proteomic databases

MaxQBiO13935.
PRIDEiO13935.

Interactioni

Protein-protein interaction databases

BioGridi278407. 2 interactors.
MINTiMINT-4669132.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni167 – 173S-adenosyl-L-methionine bindingPROSITE-ProRule annotation7

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. TRM4 subfamily.PROSITE-ProRule annotation

Phylogenomic databases

HOGENOMiHOG000205147.
InParanoidiO13935.
KOiK15334.
OMAiPLERCIR.
OrthoDBiEOG092C4JQ0.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR001678. MeTrfase_RsmB/NOP2.
IPR023267. RCMT.
IPR023270. RCMT_NCL1.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
PR02011. RCMTNCL1.
SUPFAMiSSF53335. SSF53335. 3 hits.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O13935-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKRNKKVTQ GKRAYNDKSE IVLENKQFEG YYKKQNLFRG KPNDEFDSFM
60 70 80 90 100
EYMRKPLPTT FRICGYRHHA FELKNHFEKY YVPSLKNVVH EGQTIPPPTV
110 120 130 140 150
LPWYPDGLAY IVDAQKDVIR KSPPLKRLQR FLVSENEAGN INRQEAVSML
160 170 180 190 200
PPLFLDVEPH HVILDMCAAP GSKTAQLIEA VYKKANIKDA AHDSKNLKSV
210 220 230 240 250
EGLVIANDAD PKRAQMLVHQ INRLNSPNIL VVNHDASTMP NIYVKGSSPS
260 270 280 290 300
DGLNVIEEKK ILKFDRILAD VPCSGDGTFR KNLSLWREWS ANSAFSLHPL
310 320 330 340 350
QLRILIRGLQ LLKVGGCLVY STCSINPIEN EAVVTAALKA TGGAVSLVDV
360 370 380 390 400
SKKLPLLKRD PGLLSWKVLD DSLNEFQSPA ENTNDKIELT ESMWPLPEEE
410 420 430 440 450
MSKLHIERCA RLYPHMQNTG GFFVAVLQKT DPINSRSFDP KKYTASMEIL
460 470 480 490 500
PPENKRQRTE KGVDEASNST LTKSGNSYFD EEPFVYINPD DTSIKTIVDF
510 520 530 540 550
YGIDPSFPRD QFFVRNQSGI PVRSIYFACS LFKEIIEANT NRVKFVHGGV
560 570 580 590 600
RFFVKQEISQ LLKDFSLKAN KDICNFRIHS NGVNIISPFL NEKHFYDAGL
610 620 630 640 650
KDLKILVKNE YPHVEQFSES GMLKKEFEKM PLGCNILRVD AQTKDGALMD
660 670 680
MLILQPIWRS PTSCNLMLAR KEKQNLSLEL FGMDV
Length:685
Mass (Da):77,822
Last modified:April 18, 2012 - v2
Checksum:i824E4D2ACB8B1C5A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU329670 Genomic DNA. Translation: CAB16888.2.
PIRiT38272.
RefSeqiNP_593189.2. NM_001018585.2.

Genome annotation databases

EnsemblFungiiSPAC23C4.17.1; SPAC23C4.17.1:pep; SPAC23C4.17.
GeneIDi2541917.
KEGGispo:SPAC23C4.17.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU329670 Genomic DNA. Translation: CAB16888.2.
PIRiT38272.
RefSeqiNP_593189.2. NM_001018585.2.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi278407. 2 interactors.
MINTiMINT-4669132.

Proteomic databases

MaxQBiO13935.
PRIDEiO13935.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPAC23C4.17.1; SPAC23C4.17.1:pep; SPAC23C4.17.
GeneIDi2541917.
KEGGispo:SPAC23C4.17.

Organism-specific databases

EuPathDBiFungiDB:SPAC23C4.17.
PomBaseiSPAC23C4.17.

Phylogenomic databases

HOGENOMiHOG000205147.
InParanoidiO13935.
KOiK15334.
OMAiPLERCIR.
OrthoDBiEOG092C4JQ0.

Miscellaneous databases

PROiO13935.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR001678. MeTrfase_RsmB/NOP2.
IPR023267. RCMT.
IPR023270. RCMT_NCL1.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
PR02011. RCMTNCL1.
SUPFAMiSSF53335. SSF53335. 3 hits.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTRM4B_SCHPO
AccessioniPrimary (citable) accession number: O13935
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: April 18, 2012
Last modified: November 30, 2016
This is version 98 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. 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.