Protein Info for GFF2381 in Variovorax sp. SCN45

Annotation: Ribonuclease PH (EC 2.7.7.56)

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 50 100 150 200 244 TIGR01966: ribonuclease PH" amino acids 6 to 240 (235 residues), 393.3 bits, see alignment E=1.5e-122 PF01138: RNase_PH" amino acids 14 to 144 (131 residues), 99.5 bits, see alignment E=2.1e-32 PF03725: RNase_PH_C" amino acids 163 to 228 (66 residues), 53.5 bits, see alignment E=1.9e-18

Best Hits

Swiss-Prot: 74% identical to RNPH_BURCM: Ribonuclease PH (rph) from Burkholderia ambifaria (strain ATCC BAA-244 / AMMD)

KEGG orthology group: K00989, ribonuclease PH [EC: 2.7.7.56] (inferred from 97% identity to vpe:Varpa_4957)

Predicted SEED Role

"Ribonuclease PH (EC 2.7.7.56)" in subsystem Heat shock dnaK gene cluster extended or tRNA processing (EC 2.7.7.56)

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 2.7.7.56

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 (244 amino acids)

>GFF2381 Ribonuclease PH (EC 2.7.7.56) (Variovorax sp. SCN45)
MTAFTRSGGRAADQLRPVRITRGFTIHAEGSVLIEFGQTRVLCTASVEEKVPPHKKGSGE
GWVTAEYGMLPRATHTRSSREAAKGKQTGRTQEIQRLIGRSMRAVFDLAALGERTIHLDC
DVLQADGGTRTAAITGAFVAAQDAVNKLIAAGTLAASPIKGHVAAISVGIVEGTPLLDLE
YTEDSACDTDMNVVMTGAGHFVEVQGTAEGVAFTRDEMNSLLGLAEKGIGELVTLQKQAL
LAAN