Protein Info for DvMF_0925 in Desulfovibrio vulgaris Miyazaki F

Annotation: ribonuclease R (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

1 100 200 300 400 500 600 700 800 900 1037 TIGR02063: ribonuclease R" amino acids 18 to 711 (694 residues), 674.2 bits, see alignment E=2.4e-206 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 72 to 707 (636 residues), 544.2 bits, see alignment E=4.1e-167 PF08206: OB_RNB" amino acids 80 to 138 (59 residues), 54.1 bits, see alignment 2e-18 PF00773: RNB" amino acids 256 to 582 (327 residues), 351.5 bits, see alignment E=9.7e-109 PF00575: S1" amino acids 629 to 709 (81 residues), 31.4 bits, see alignment 4.2e-11

Best Hits

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 100% identity to dvm:DvMF_0925)

Predicted SEED Role

"3'-to-5' exoribonuclease RNase R" in subsystem RNA processing and degradation, bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.1.-.-

Use Curated BLAST to search for 3.1.-.-

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

See B8DP48 at UniProt or InterPro

Protein Sequence (1037 amino acids)

>DvMF_0925 ribonuclease R (RefSeq) (Desulfovibrio vulgaris Miyazaki F)
MTKKKREESYVLPDANDLATLFREAHRPLKIDALMRMLGLHRRMKKELEDRLDDLVRQGR
IIRLRGGAWGLVEQLRLVTGTLSIQRSGMGFVLPEEKGRDDIYVHPYQMGDAWHGDKVVV
ALLPGRHGKNPEGRIVRVLERGRKEIPARVVRRMGRHSLLCRPADPRMAVSFVVDMSAVE
EKAEKGDLVVAAPGEKVEDGLWAATGLAVLGADDNVLVQERLVKINHDVPGDFPPEVLEE
ARDLPAVPGRDDMEGRIDLRHLEFVTIDGAKARDFDDAVYVEEQGTGYRLWVAIADVAHY
VRPGSAMDREAQARSNSYYFPQSVEPMLPEALSNGLCSLNPRVPRLAMVAETFFYADGTP
GRSKFYAAIIESKARLTYGQVNRAIIEKDEKERRLLTPVLPLLERAEALARLLNAKRSER
GSLDFDLPEPEVIFNIYGETVDIGRKVRHFGHQIIEEFMIAANEAVARFLTEKNARFLYR
VHPEPDTEKLEGLFKVLGRTSLAQHLPGKASAKALQGVLQAAKGSDQEFLVNRMALRTMM
QARYAPDHEGHFGLASECYCHFTSPIRRYADLVVHRALRRTLGLPVNGPLPGERALLTIA
DTLNTNERVAMEAEREILKRITVLFLSERVGEEFTGVISGIIDFGFFVEFNEVMAEGMVR
LSSLDDDYYGYLPERQELVGERTGRSFRLGQTVTVRLAEVNVARLEVNLALAGPDAVAST
GVRKERRERRDYGGRSGRDARGGRGARPGERSGERSGRPEGRDARTGIRQADSVAAAPAG
AGAIDDRAARKARARAATDAGLDDPMPTPIPEPLENAPRRARKTSQHGKERVAAEPASDR
MDGAAKKADSVFGQAPAKPDQASRGRGGDAKARTRGDKDPSPVKSGGKERAGDGEKSLAK
SPAKSKDSGVAATHAKAGADAVKAGAASDRPVPGTEAAGTTAKRGNAPNAPTRPGNAGTS
GPDKPGPDTSGRDKSGRGKATGNGSAKGAQSAKGKRASAKAEPAGTESPRAESPRTGAPG
PKSPKPAPAKAPKDGKG