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Protein

tRNA (guanine-N(1)-)-methyltransferase

Gene

trmD

Organism
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Specifically methylates guanosine-37 in various tRNAs.By similarity

Catalytic activityi

S-adenosyl-L-methionine + guanine(37) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(37) in tRNA.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei86S-adenosyl-L-methionine1
Binding sitei113S-adenosyl-L-methionine; via amide nitrogen1
Active sitei169Proton acceptorSequence analysis1

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BRENDAi2.1.1.228. 2529.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (guanine-N(1)-)-methyltransferase (EC:2.1.1.228)
Alternative name(s):
M1G-methyltransferase
tRNA [GM37] methyltransferase
Gene namesi
Name:trmD
Ordered Locus Names:HI_0202
OrganismiHaemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
Taxonomic identifieri71421 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeHaemophilus
Proteomesi
  • UP000000579 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000603851 – 246tRNA (guanine-N(1)-)-methyltransferaseAdd BLAST246

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi71421.HI0202.

Structurei

Secondary structure

1246
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi1 – 6Combined sources6
Helixi10 – 13Combined sources4
Helixi14 – 17Combined sources4
Helixi20 – 27Combined sources8
Beta strandi30 – 36Combined sources7
Helixi38 – 41Combined sources4
Helixi64 – 78Combined sources15
Beta strandi83 – 88Combined sources6
Beta strandi91 – 93Combined sources3
Helixi96 – 102Combined sources7
Beta strandi106 – 111Combined sources6
Helixi120 – 126Combined sources7
Beta strandi128 – 136Combined sources9
Beta strandi139 – 141Combined sources3
Helixi142 – 153Combined sources12
Turni157 – 159Combined sources3
Helixi164 – 166Combined sources3
Turni170 – 172Combined sources3
Beta strandi173 – 175Combined sources3
Beta strandi185 – 187Combined sources3
Helixi194 – 197Combined sources4
Helixi201 – 219Combined sources19
Helixi221 – 225Combined sources5
Helixi231 – 245Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UAJX-ray1.85A1-246[»]
1UAKX-ray2.05A1-246[»]
1UALX-ray1.80A1-246[»]
1UAMX-ray2.20A1-246[»]
3AXZX-ray2.25A1-246[»]
4MCBX-ray1.94A/B1-246[»]
4MCCX-ray1.95A/B1-246[»]
4MCDX-ray1.55A1-246[»]
4YPWX-ray2.31A1-246[»]
4YPXX-ray1.89A1-246[»]
4YPYX-ray1.90A1-246[»]
4YPZX-ray1.84A1-246[»]
4YQ0X-ray1.76A1-246[»]
4YQ1X-ray2.00A1-246[»]
4YQ2X-ray2.65A1-246[»]
4YQ3X-ray2.49A1-246[»]
4YQ4X-ray1.89A1-246[»]
4YQ5X-ray1.76A1-246[»]
4YQ6X-ray1.90A1-246[»]
4YQ7X-ray1.80A1-246[»]
4YQ8X-ray1.94A1-246[»]
4YQ9X-ray1.64A1-246[»]
4YQAX-ray1.55A1-246[»]
4YQBX-ray2.10A1-246[»]
4YQCX-ray1.89A1-246[»]
4YQDX-ray1.45A1-246[»]
4YQGX-ray1.86A1-246[»]
4YQIX-ray1.92A1-246[»]
4YQJX-ray1.94A1-246[»]
4YQKX-ray1.83A1-246[»]
4YQLX-ray2.40A1-246[»]
4YQNX-ray2.20A1-246[»]
4YQOX-ray1.68A1-246[»]
4YQPX-ray2.60A1-246[»]
4YQQX-ray1.78A1-246[»]
4YQRX-ray1.70A1-246[»]
4YQSX-ray1.90A1-246[»]
4YQTX-ray1.60A1-246[»]
4YVGX-ray1.55A1-246[»]
4YVHX-ray1.60A1-246[»]
4YVIX-ray3.01A/B1-246[»]
4YVJX-ray2.90A/B1-246[»]
4YVKX-ray3.00A/B1-246[»]
5D9FX-ray1.91A1-246[»]
ProteinModelPortaliP43912.
SMRiP43912.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP43912.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni133 – 138S-adenosyl-L-methionine binding6

Sequence similaritiesi

Belongs to the RNA methyltransferase TrmD family.Curated

Phylogenomic databases

eggNOGiENOG4105D6X. Bacteria.
COG0336. LUCA.
KOiK00554.
OMAiYKGVDQR.
PhylomeDBiP43912.

Family and domain databases

Gene3Di1.10.1270.20. 1 hit.
3.40.1280.10. 1 hit.
HAMAPiMF_00605. TrmD. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR002649. tRNA_m1G_MeTrfase_bac.
IPR023148. tRNA_m1G_MeTrfase_C.
IPR029026. tRNA_m1G_MTases_N.
IPR016009. tRNA_MeTrfase_TRMD/TRM10.
[Graphical view]
PfamiPF01746. tRNA_m1G_MT. 1 hit.
[Graphical view]
PIRSFiPIRSF000386. tRNA_mtase. 1 hit.
SUPFAMiSSF75217. SSF75217. 1 hit.
TIGRFAMsiTIGR00088. trmD. 1 hit.

Sequencei

Sequence statusi: Complete.

P43912-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWIGVISLFP EMFKAITEFG VTGRAVKHNL LKVECWNPRD FTFDKHKTVD
60 70 80 90 100
DRPYGGGPGM LMMVQPLRDA IHTAKAAAGE GAKVIYLSPQ GRKLDQGGVT
110 120 130 140 150
ELAQNQKLIL VCGRYEGIDE RLIQTEIDEE WSIGDYVLTG GELPAMTLID
160 170 180 190 200
AVARFIPGVL GKQASAEEDS FADGLLDCPH YTRPEVLEGL TVPPVLMSGH
210 220 230 240
HEEIRKWRLK QSLQRTWLRR PELLEGLALT DEQRKLLKEA QAEHNS
Length:246
Mass (Da):27,543
Last modified:November 1, 1995 - v1
Checksum:iDEEF238159B1003D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42023 Genomic DNA. Translation: AAC21871.1.
PIRiC64054.
RefSeqiNP_438371.1. NC_000907.1.
WP_005661387.1. NC_000907.1.

Genome annotation databases

EnsemblBacteriaiAAC21871; AAC21871; HI_0202.
GeneIDi951111.
KEGGihin:HI0202.
PATRICi20188901. VBIHaeInf48452_0207.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42023 Genomic DNA. Translation: AAC21871.1.
PIRiC64054.
RefSeqiNP_438371.1. NC_000907.1.
WP_005661387.1. NC_000907.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UAJX-ray1.85A1-246[»]
1UAKX-ray2.05A1-246[»]
1UALX-ray1.80A1-246[»]
1UAMX-ray2.20A1-246[»]
3AXZX-ray2.25A1-246[»]
4MCBX-ray1.94A/B1-246[»]
4MCCX-ray1.95A/B1-246[»]
4MCDX-ray1.55A1-246[»]
4YPWX-ray2.31A1-246[»]
4YPXX-ray1.89A1-246[»]
4YPYX-ray1.90A1-246[»]
4YPZX-ray1.84A1-246[»]
4YQ0X-ray1.76A1-246[»]
4YQ1X-ray2.00A1-246[»]
4YQ2X-ray2.65A1-246[»]
4YQ3X-ray2.49A1-246[»]
4YQ4X-ray1.89A1-246[»]
4YQ5X-ray1.76A1-246[»]
4YQ6X-ray1.90A1-246[»]
4YQ7X-ray1.80A1-246[»]
4YQ8X-ray1.94A1-246[»]
4YQ9X-ray1.64A1-246[»]
4YQAX-ray1.55A1-246[»]
4YQBX-ray2.10A1-246[»]
4YQCX-ray1.89A1-246[»]
4YQDX-ray1.45A1-246[»]
4YQGX-ray1.86A1-246[»]
4YQIX-ray1.92A1-246[»]
4YQJX-ray1.94A1-246[»]
4YQKX-ray1.83A1-246[»]
4YQLX-ray2.40A1-246[»]
4YQNX-ray2.20A1-246[»]
4YQOX-ray1.68A1-246[»]
4YQPX-ray2.60A1-246[»]
4YQQX-ray1.78A1-246[»]
4YQRX-ray1.70A1-246[»]
4YQSX-ray1.90A1-246[»]
4YQTX-ray1.60A1-246[»]
4YVGX-ray1.55A1-246[»]
4YVHX-ray1.60A1-246[»]
4YVIX-ray3.01A/B1-246[»]
4YVJX-ray2.90A/B1-246[»]
4YVKX-ray3.00A/B1-246[»]
5D9FX-ray1.91A1-246[»]
ProteinModelPortaliP43912.
SMRiP43912.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi71421.HI0202.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC21871; AAC21871; HI_0202.
GeneIDi951111.
KEGGihin:HI0202.
PATRICi20188901. VBIHaeInf48452_0207.

Phylogenomic databases

eggNOGiENOG4105D6X. Bacteria.
COG0336. LUCA.
KOiK00554.
OMAiYKGVDQR.
PhylomeDBiP43912.

Enzyme and pathway databases

BRENDAi2.1.1.228. 2529.

Miscellaneous databases

EvolutionaryTraceiP43912.

Family and domain databases

Gene3Di1.10.1270.20. 1 hit.
3.40.1280.10. 1 hit.
HAMAPiMF_00605. TrmD. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR002649. tRNA_m1G_MeTrfase_bac.
IPR023148. tRNA_m1G_MeTrfase_C.
IPR029026. tRNA_m1G_MTases_N.
IPR016009. tRNA_MeTrfase_TRMD/TRM10.
[Graphical view]
PfamiPF01746. tRNA_m1G_MT. 1 hit.
[Graphical view]
PIRSFiPIRSF000386. tRNA_mtase. 1 hit.
SUPFAMiSSF75217. SSF75217. 1 hit.
TIGRFAMsiTIGR00088. trmD. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTRMD_HAEIN
AccessioniPrimary (citable) accession number: P43912
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: November 2, 2016
This is version 121 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. Haemophilus influenzae
    Haemophilus influenzae (strain Rd): 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.