Protein Info for GFF2264 in Sphingobium sp. HT1-2

Annotation: Ribosomal protein S12p Asp88 (E. coli) methylthiotransferase (EC 2.8.4.4)

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 50 100 150 200 250 300 350 400 460 PF00919: UPF0004" amino acids 15 to 106 (92 residues), 72 bits, see alignment E=5.3e-24 TIGR00089: radical SAM methylthiotransferase, MiaB/RimO family" amino acids 15 to 457 (443 residues), 325.2 bits, see alignment E=6e-101 TIGR01125: ribosomal protein S12 methylthiotransferase RimO" amino acids 15 to 457 (443 residues), 539.6 bits, see alignment E=6.2e-166 PF04055: Radical_SAM" amino acids 150 to 334 (185 residues), 78.9 bits, see alignment E=8e-26 PF18693: TRAM_2" amino acids 390 to 458 (69 residues), 57.3 bits, see alignment E=2.2e-19

Best Hits

Swiss-Prot: 85% identical to RIMO_SPHAL: Ribosomal protein S12 methylthiotransferase RimO (rimO) from Sphingopyxis alaskensis (strain DSM 13593 / LMG 18877 / RB2256)

KEGG orthology group: K14441, ribosomal protein S12 methylthiotransferase [EC: 2.-.-.-] (inferred from 91% identity to sch:Sphch_0242)

MetaCyc: 62% 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)

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

Find the best match in UniProt

Protein Sequence (460 amino acids)

>GFF2264 Ribosomal protein S12p Asp88 (E. coli) methylthiotransferase (EC 2.8.4.4) (Sphingobium sp. HT1-2)
MCAPIMATKIPDAPKIGMVSLGCPKNLVDSERILTKLRSDGYQMSADYAGADVVLVNTCG
FLDSAKEESLEAIGEAMAENGRVIVTGCMGDEADVIRAKFPQVLAVTGAHQYEQVVNAVH
DASPPIPNAFVDLVPEGGLKLTPRHYSYLKISEGCNHRCSFCIIPSIRGDLVSRRIDAVL
REAEKLVAAGTKELLVISQDTSAYGVDTRHEPRMWKGREVRAHMTDMARELGQLRTADGV
APWVRLHYVYPYPHVDHVIPLMAEGLLTPYLDIPFQHASPSVLKAMKRPANEAKVLDRIR
KWRDICPDIAIRSSFVVGFPGETEADFQYLLDWLDEAQLDRVGAFRFEPVEGAAANDLPG
AVPEEVKEERYQRIMEKTAAISAAKLQAKVGRVMPVIIDEVGEPDEEDGSIGATARSQAD
APEIDGNVFLRDVGEGRKAGDMFDVLIEDADDHDLYGVPA