Protein Info for Shew_2822 in Shewanella loihica PV-4

Annotation: polynucleotide phosphorylase/polyadenylase (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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 TIGR03591: polyribonucleotide nucleotidyltransferase" amino acids 9 to 690 (682 residues), 1086.2 bits, see alignment E=0 PF01138: RNase_PH" amino acids 14 to 143 (130 residues), 105 bits, see alignment E=1.2e-33 amino acids 323 to 455 (133 residues), 93.1 bits, see alignment E=5.7e-30 PF03725: RNase_PH_C" amino acids 147 to 209 (63 residues), 45.2 bits, see alignment E=2.2e-15 PF03726: PNPase" amino acids 240 to 319 (80 residues), 80.9 bits, see alignment E=2.3e-26 PF00013: KH_1" amino acids 555 to 613 (59 residues), 42.7 bits, see alignment 1.1e-14 PF00575: S1" amino acids 618 to 689 (72 residues), 70.8 bits, see alignment E=3e-23

Best Hits

Swiss-Prot: 100% identical to PNP_SHELP: Polyribonucleotide nucleotidyltransferase (pnp) from Shewanella loihica (strain ATCC BAA-1088 / PV-4)

KEGG orthology group: K00962, polyribonucleotide nucleotidyltransferase [EC: 2.7.7.8] (inferred from 100% identity to slo:Shew_2822)

MetaCyc: 72% 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)

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 A3QGU0 at UniProt or InterPro

Protein Sequence (700 amino acids)

>Shew_2822 polynucleotide phosphorylase/polyadenylase (RefSeq) (Shewanella loihica PV-4)
MNPIVKSFEYGQHTVTLETGVIARQADAAVLASMGDTTVLVTVVGKKAEEPGRDFFPLTV
NYQEKTYAAGKIPGGFFKREGRPSEGETLTARLIDRPIRPLFPNGFKNEVQVIITVVSVD
PEISPEVISMIGTSAALSISGIPFNGPLGSARVGYVDGEYILNPTVSQLENSQLELSVAG
TENAVLMVESEADALPEEVMLGAVVYGHEQQQVVIQAIKELKAEVNKPMWDWTAPVQNEE
LVAKVKDLAEAGLTEAYQIVVKQDRYAQVDVVKTAAKEALLAENPDADAREIDGLLGSLE
KKVVRSRIIAGNPRIDGREPDMVRALSVMAGVLPRTHGSALFTRGETQALVTCTLGTERD
AQKIDSIMGEQTSRFMLHYNFPPYSVGETGMVGSPKRREIGHGKLAWRGIHAVMPTAEEF
PYSIRVVSEITESNGSSSMASVCGTSLALMDAGVPIKTSVAGIAMGLVKEGDDFVVLSDI
LGDEDHLGDMDFKVAGTRDGVTALQMDIKIEGITKEIMQIALQQAYGARVHILNVMDQAI
SGHRAEISDHAPRITTLKINPEKIRDVIGKGGATIRALTEETGTTIELEDDGTVKIASAN
GDATKEAIRRIQEITAEVEVGTVYNGKVVRIVDFGAFVTILPGKDGLVHISQIAEERVAN
VSDYLEVGQEVKVKVMEVDRQGRVRLSMKEAQPKEEAASE