Protein Info for ABCV34_RS14230 in Castellaniella sp019104865 MT123

Annotation: 30S ribosomal protein S12 methylthiotransferase RimO

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 50 100 150 200 250 300 350 400 440 PF00919: UPF0004" amino acids 6 to 82 (77 residues), 65.3 bits, see alignment E=6.1e-22 TIGR01125: ribosomal protein S12 methylthiotransferase RimO" amino acids 6 to 437 (432 residues), 582.6 bits, see alignment E=5.7e-179 TIGR00089: radical SAM methylthiotransferase, MiaB/RimO family" amino acids 6 to 437 (432 residues), 347.2 bits, see alignment E=1.3e-107 PF04055: Radical_SAM" amino acids 143 to 320 (178 residues), 83.3 bits, see alignment E=3.5e-27 PF18693: TRAM_2" amino acids 377 to 440 (64 residues), 71.7 bits, see alignment E=6.9e-24

Best Hits

Swiss-Prot: 78% identical to RIMO_BORPA: Ribosomal protein S12 methylthiotransferase RimO (rimO) from Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

KEGG orthology group: K14441, ribosomal protein S12 methylthiotransferase [EC: 2.-.-.-] (inferred from 82% identity to put:PT7_2563)

MetaCyc: 69% identical to ribosomal protein S12 methylthiotransferase RimO (Escherichia coli K-12 substr. MG1655)
RXN0-6366 [EC: 2.8.4.4]

Predicted SEED Role

"Ribosomal protein S12p Asp88 (E. coli) methylthiotransferase" in subsystem Ribosomal protein S12p Asp methylthiotransferase

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.-.-.-

Use Curated BLAST to search for 2.-.-.- or 2.8.4.4

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Search 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

Find the best match in UniProt

Protein Sequence (440 amino acids)

>ABCV34_RS14230 30S ribosomal protein S12 methylthiotransferase RimO (Castellaniella sp019104865 MT123)
MSQSPRVGFVSLGCPKALVDSERILTQLRMDGYTISADYDGADVVVVNTCGFIDSAKAES
LDAIGEAIVENGKVIVTGCLGVEADMIRDVHPAVLAVTGPQQYEQVVRAVHEAAPHERDH
DPYTDLVPPQGIRLTPRHYAYLKISEGCNHNCSFCIIPSMRGRLVSRPIGDVLGEARRLV
DAGVKELLVISQDTSAYGVDIKYRTGFWDGRPVKTRLTELAQALGEFGVWVRMHYVYPYP
HVDELIPLMAEGRILPYLDIPFQHASPRILKAMKRPAFEDRTLARIRQWREACPDMTLRS
TFIVGFPGETEDDFQYLLDWMSEAQLDRVGCFQYSPVEGAKANELPDAVPDEVKAERWER
FMAHQQAISTQRLAAKIGRTLTVLVDEVDDQGGATARSMADAPEIDGSVLLRDAAGRAPG
DLIQVRIEDADEYDLYGVPV