Protein Info for Sama_0485 in Shewanella amazonensis SB2B

Annotation: MiaB-like putative RNA modifying enzyme YliG (RefSeq)

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 50 100 150 200 250 300 350 400 450 493 TIGR01125: ribosomal protein S12 methylthiotransferase RimO" amino acids 57 to 485 (429 residues), 593.4 bits, see alignment E=3e-182 TIGR00089: radical SAM methylthiotransferase, MiaB/RimO family" amino acids 58 to 486 (429 residues), 348.1 bits, see alignment E=7e-108 PF00919: UPF0004" amino acids 58 to 141 (84 residues), 73.2 bits, see alignment E=2.2e-24 PF04055: Radical_SAM" amino acids 193 to 371 (179 residues), 89.7 bits, see alignment E=3.7e-29 PF18693: TRAM_2" amino acids 427 to 489 (63 residues), 79.9 bits, see alignment E=1.9e-26

Best Hits

Swiss-Prot: 100% identical to RIMO_SHEAM: Ribosomal protein S12 methylthiotransferase RimO (rimO) from Shewanella amazonensis (strain ATCC BAA-1098 / SB2B)

KEGG orthology group: K14441, ribosomal protein S12 methylthiotransferase [EC: 2.-.-.-] (inferred from 100% identity to saz:Sama_0485)

MetaCyc: 74% 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

See A1S2T9 at UniProt or InterPro

Protein Sequence (493 amino acids)

>Sama_0485 MiaB-like putative RNA modifying enzyme YliG (RefSeq) (Shewanella amazonensis SB2B)
MHRAQRSKSNPSRNIGTRTLNKTVETFDPKQTTTLETPAKTLAAEAKASDGTIQGNRIGF
VSLGCPKNLVDSERILTQLRIDGYEVTNSYDNADLVIVNTCGFIDAAVEESLDAVREALE
ENGKVIVTGCLGAKENQIREVHPDVLEITGPHSYEAVLNHVHKYVPKPEHNPFTSLIPQT
GVKLTPKHYAYLKISEGCDNRCTFCIIPALRGDLDSRGVGSVLDEAKRLVESGVQEILVV
SQDTSAYGKDKDGRTDFWNGMPVKQDITSLARQLGKMGAWVRLHYVYPYPWVDDLIPLMA
EGLILPYLDLPLQHASPRVLKMMKRPGRVDRQLDAIKKWREICPDLVIRSTFIVGFPGET
EEDFEMLLDFLREARLDRVGCFKYSEVDGAVANTLAELISEEVKEDRYERFMEVQAEISA
ERLARLVGRELDILIDDVDEEGAIGRSYADAPEIDGMVFINGETELTPGDMVRARIVASD
EHDLWAELVALED