Protein Info for PP_4708 in Pseudomonas putida KT2440

Annotation: Polyribonucleotide nucleotidyltransferase

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 50 100 150 200 250 300 350 400 450 500 550 600 650 701 TIGR03591: polyribonucleotide nucleotidyltransferase" amino acids 9 to 692 (684 residues), 1057.4 bits, see alignment E=0 PF01138: RNase_PH" amino acids 15 to 144 (130 residues), 98.5 bits, see alignment E=1e-31 amino acids 325 to 457 (133 residues), 100.1 bits, see alignment E=3.3e-32 PF03725: RNase_PH_C" amino acids 147 to 211 (65 residues), 52.9 bits, see alignment E=7.5e-18 amino acids 461 to 529 (69 residues), 28 bits, see alignment E=4.3e-10 PF03726: PNPase" amino acids 242 to 321 (80 residues), 84 bits, see alignment E=2.1e-27 PF00013: KH_1" amino acids 559 to 614 (56 residues), 50.8 bits, see alignment 2.8e-17 PF00575: S1" amino acids 620 to 691 (72 residues), 61.5 bits, see alignment E=2e-20

Best Hits

Swiss-Prot: 100% identical to PNP_PSEPK: Polyribonucleotide nucleotidyltransferase (pnp) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K00962, polyribonucleotide nucleotidyltransferase [EC: 2.7.7.8] (inferred from 100% identity to ppu:PP_4708)

MetaCyc: 64% identical to polynucleotide phosphorylase (Escherichia coli K-12 substr. MG1655)
Exoribonuclease II. [EC: 3.1.13.1]; Polyribonucleotide nucleotidyltransferase. [EC: 3.1.13.1, 2.7.7.8]

Predicted SEED Role

"Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8)" in subsystem Bacterial RNA-metabolizing Zn-dependent hydrolases or Polyadenylation bacterial (EC 2.7.7.8)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.1.13.1

Use Curated BLAST to search for 2.7.7.8 or 3.1.13.1

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 Q88DW0 at UniProt or InterPro

Protein Sequence (701 amino acids)

>PP_4708 Polyribonucleotide nucleotidyltransferase (Pseudomonas putida KT2440)
MNPVIKTFQFGQSTVTLETGRIARQATGAVLVTVDNDVTVLVTVVGAKQADPGKGFFPLS
VHYQEKTYAAGKIPGGFFKREGRPSEKETLTSRLIDRPIRPLFPEGFMNEVQVVCTVVST
SKKTDPDIAAMIGTSAALAISGIPFEGPIGAARVAFHESTGYLLNPTYEQLAASSLDMVV
AGTSDAVLMVESEAQELTEDQMLGAVLFAHDEFQAVIQAVKELAAEAGKPTWDWKPAVAN
TELFNAIRAEFGEAVSQGYTITVKADRYARLGELRDQAVAKFSGEEGQPSASEVKEIFGE
IEYRTVRENIVNGKPRIDGRDNKTVRPLNIEVGVLPKTHGSALFTRGETQALVVATLGTA
RDAQLLDTLEGEKKDPFMLHYNFPPFSVGECGRMGGAGRREIGHGRLARRSVQAMLPAAD
VFPYTIRVVSEITESNGSSSMASVCGASLALMDAGVPMKAPVAGIAMGLVKEGDKFAVLT
DILGDEDHLGDMDFKVAGTAKGVTALQMDIKINGITEEIMEIALGQALEARLNILGQMNQ
VIGQSRTELSANAPTMIAMKIDTDKIRDVIGKGGATIRAICEETKASIDIEDDGSIKIFG
ETKEAADAAKQRILGITAEAEIGKIYVGKVERIVDFGAFVNILPGKDGLVHISMLSDARV
EKVTDILKEGQEVEVLVLDVDNRGRIKLSIKDVPAAKASGV