Protein Info for DZA65_RS12530 in Dickeya dianthicola ME23

Annotation: 16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 450 482 PF17125: Methyltr_RsmF_N" amino acids 9 to 103 (95 residues), 84.5 bits, see alignment E=1.5e-27 TIGR00446: NOL1/NOP2/sun family putative RNA methylase" amino acids 42 to 311 (270 residues), 335.2 bits, see alignment E=1.2e-104 PF13847: Methyltransf_31" amino acids 120 to 260 (141 residues), 27.1 bits, see alignment E=7.6e-10 PF01189: Methyltr_RsmB-F" amino acids 121 to 310 (190 residues), 160 bits, see alignment E=1.5e-50 PF21150: YebU_pre-PUA_dom" amino acids 330 to 407 (78 residues), 131 bits, see alignment E=2.9e-42 PF13636: Methyltranf_PUA" amino acids 424 to 471 (48 residues), 41.2 bits, see alignment 3.4e-14

Best Hits

Swiss-Prot: 73% identical to RSMF_PECAS: Ribosomal RNA small subunit methyltransferase F (rsmF) from Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)

KEGG orthology group: K11392, ribosomal RNA small subunit methyltransferase F [EC: 2.1.1.-] (inferred from 95% identity to ddd:Dda3937_03780)

MetaCyc: 65% identical to 16S rRNA m5C1407 methyltransferase (Escherichia coli K-12 substr. MG1655)
RXN-11593 [EC: 2.1.1.178]

Predicted SEED Role

"Ribosomal RNA small subunit methyltransferase F (EC 2.1.1.-)" (EC 2.1.1.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.1.1.-

Use Curated BLAST to search for 2.1.1.- or 2.1.1.178

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A0A385Y335 at UniProt or InterPro

Protein Sequence (482 amino acids)

>DZA65_RS12530 16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF (Dickeya dianthicola ME23)
MAKPIPASLTPDFLTAMQAIMPAHLSMEAFIDVCQRPLRRSIRVNTLKISVPDFLALVAP
YGWELEAVPWCDEGFWLLNADEEAMRLGNALEHLAGLFYIQEASSMLPVSALLMGDDAPA
RVLDMAAAPGSKTTQIAARLNNQGLIVANEYSASRVKVLHANLHRCGVSNTALTHFDGRV
FGNALPETFDAILLDAPCSGEGVVRKDPAAMSHWSLESIADIAATQRELILSAFHALKPG
GVLIYSTCTLNHQENQQVCRWLMQQFPAACEVESLKDLFPQAHRALTEDGFLHVFPQIYD
SEGFFVARLRKTAAVPPLAAPDYKLGKLPFSPVNHKDAQLIRQSAQRLGLQWSEQQLQLW
QRDDEIWLFPAALQPMLGKMRFSRIGVKLAERFAKGYRWQHEAVVALGHPDSANTYALSA
EQVVDWFRGKDIYPPSPVSHDEILLTWQQTTLGLTKRVGQRLKNTLPRDLVRDGANHVPT
IG