Protein Info for IAI47_08840 in Pantoea sp. MT58

Annotation: ribonuclease D

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 50 100 150 200 250 300 373 PF01612: DNA_pol_A_exo1" amino acids 4 to 167 (164 residues), 151.2 bits, see alignment E=3.9e-48 TIGR01388: ribonuclease D" amino acids 5 to 364 (360 residues), 468.8 bits, see alignment E=6.8e-145 PF00570: HRDC" amino acids 213 to 279 (67 residues), 54 bits, see alignment E=2.1e-18 PF21293: RNAseD_HRDC_C" amino acids 301 to 363 (63 residues), 101.8 bits, see alignment E=2.1e-33

Best Hits

Swiss-Prot: 68% identical to RND_SERP5: Ribonuclease D (rnd) from Serratia proteamaculans (strain 568)

KEGG orthology group: K03684, ribonuclease D [EC: 3.1.13.5] (inferred from 98% identity to pva:Pvag_1574)

MetaCyc: 67% identical to RNase D (Escherichia coli K-12 substr. MG1655)
Ribonuclease D. [EC: 3.1.13.5]; 3.1.13.5 [EC: 3.1.13.5]; 3.1.13.5 [EC: 3.1.13.5]

Predicted SEED Role

"Ribonuclease D (EC 3.1.26.3)" in subsystem Experimental tye or tRNA processing (EC 3.1.26.3)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 3.1.26.3

Use Curated BLAST to search for 3.1.13.5 or 3.1.26.3

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 (373 amino acids)

>IAI47_08840 ribonuclease D (Pantoea sp. MT58)
MNYSLIDQDDQLADVCQKARQQAAVALDTEFVRTRTYYPQLGLIQLFDDHQLVLIDPLNI
RDWSPFIALLTDTRVTKFLHAGGEDLEVFLHRFGVLPTPMIDTQILAAFSGQPLSWGFAS
MVAHFTQVELDKSESRTDWLARPLTQRQCEYAAADVHYLLPIARQLMINTEEAGNMAAAL
SECDNLCQRRLDSLSPDEAWRDITNAWQLRPRQLAALQRLAAWRLKLAREKDMAVNFVVR
EEHLWKVARFMPGSLGELDHLGLSGHEIRFHGKTLVALVAEAEALDESELPAPLGNLIDH
PDYKQVFKAMKALVQQVSEQSGFSQELLASRRQINQVLSQHWGLKPQGRKPELLTGWRGE
LLKPGIEEILAGC