Protein Info for AMB_RS13930 in Magnetospirillum magneticum AMB-1

Annotation: RNase J family beta-CASP ribonuclease

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 50 100 150 200 250 300 350 400 450 500 549 TIGR00649: beta-CASP ribonuclease, RNase J family" amino acids 8 to 541 (534 residues), 404.9 bits, see alignment E=2.4e-125 PF00753: Lactamase_B" amino acids 23 to 180 (158 residues), 51.7 bits, see alignment E=2.8e-17 PF12706: Lactamase_B_2" amino acids 30 to 164 (135 residues), 40.2 bits, see alignment E=7.3e-14 PF22505: RNase_J_b_CASP" amino acids 222 to 345 (124 residues), 124.8 bits, see alignment E=4.5e-40 PF07521: RMMBL" amino acids 350 to 402 (53 residues), 41.8 bits, see alignment 2.2e-14 PF17770: RNase_J_C" amino acids 449 to 547 (99 residues), 43.5 bits, see alignment E=1.3e-14

Best Hits

Swiss-Prot: 47% identical to RNJ_SINM2: Ribonuclease J (rnj) from Sinorhizobium meliloti (strain Sm2011 / Rm2011 / 2011)

KEGG orthology group: K07021, (no description) (inferred from 100% identity to mag:amb2771)

Predicted SEED Role

"Metallo-beta-lactamase family protein, RNA-specific" in subsystem Bacterial RNA-metabolizing Zn-dependent hydrolases

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 Q2W3K0 at UniProt or InterPro

Protein Sequence (549 amino acids)

>AMB_RS13930 RNase J family beta-CASP ribonuclease (Magnetospirillum magneticum AMB-1)
MSQGELLFLPLGGVGEIGMNLALYGYDGKWLMVDCGVSFGDETMPMVDVVMADPAWIEER
RDKLAGIVITHGHEDHLGAVQYLWDRLRCPVWATPFSASILKNKLHETGLQAQVPLNVVE
LGSRFKVGPFEIEMISITHSIPEPNLLAIRTPLGTVVHTGDWKFDPDPLLGLPTDTEALR
RVGKEGVLALIGDSTNVFTKGHSGSESEVRGSLIELLGRFDGRIAVSCFATNVARLESIT
VAAMANDRSVALVGRSLWRIDKAARENGYLADLPPFLTEHDAGYLPKDKVVYICTGSQGE
PRAALARIASGDHPHVHLGKGDVCIFSSRIIPGNEKDIFKLQNDLVRQGVEVVTEKDEFV
HVSGHPARQEMEEMYRLLRPRVAVPVHGEARHLQEHARLARACGVEEAIETSNGAMLRLA
PGPVEVIDHVPTGKLCVDGPRIVRLDSEILRNRRRMVFNGSAVVTVVLDKVGKLLGDPQL
TALGLLDAGHEAEEHDAVVEAVRDAIEELPQKVRRDDAVVREAARLAVRRSLRDTHGKKP
ITEVHLVRV