Protein Info for mRNA_1182 in Rhodosporidium toruloides IFO0880

Name: 9550
Annotation: K12816 CDC40, PRP17 pre-mRNA-processing factor 17

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 50 100 150 200 250 300 350 400 450 500 550 600 647 PF00400: WD40" amino acids 349 to 387 (39 residues), 26.8 bits, see alignment 7.2e-10 amino acids 392 to 430 (39 residues), 22.6 bits, see alignment 1.6e-08 amino acids 574 to 603 (30 residues), 12.1 bits, see alignment (E = 3.2e-05) amino acids 615 to 647 (33 residues), 12.7 bits, see alignment (E = 2.1e-05)

Best Hits

Predicted SEED Role

"High-affnity carbon uptake protein Hat/HatR" in subsystem CO2 uptake, carboxysome or Carboxysome

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 (647 amino acids)

>mRNA_1182 K12816 CDC40, PRP17 pre-mRNA-processing factor 17 (Rhodosporidium toruloides IFO0880)
MALVDYGSDSDGEQAQQYPHKQLPGVQDDATADIDDGEDDFNPQDAFGLARISEAEKQAA
GGAGQAQAGPAAAGPSKSSAPEVISAHLPTSNTLVTRPTDNVIYYNASYTDLTRPVQGPA
NPWNDGRLEKQNVLTGHVEQQHFSDLTFNEQQRSFHVLGYAANPSLAIDGGYVGDVRKAY
EQGGTLISDVRPSRSQVKATRRKRKAKGRLGEFDDPDAEEEQEEEEVDEVGADGEVRQVK
RKKEKPQREYLGPWAGWEGEKIEVVAPTEEEYEEQEAAGGPLLNKQERRKKLLEDAGRKE
IGFGEEKSVFHGKETRDYLGRTYLHVPNDLDGVNLRGEPGSQESFAPKRCIHTWSGHTKG
VSRIQLFPGSGHLILSGSLDTRIKLWDVYREGKCLRTFMGHSKAVHDVTFDNAGAQFMSA
AFDRQMKLWDTETGQCKQAFSNGQIPYCIRFHPEQQSTFLAGMSNKKIVQYDIRSGEITQ
EYDRHLGPVNTITFVDENRRFITTSDDKKMCVWDFDIPVPIKLIQDPSMHSMPATGLSPD
GKWLAATSLDNQVVIFAADTFKQNRKKHFGGYEVSGYACEPRFSPDGRFLSSGDGQGNMV
FWDWKTGRIASRLHRAHKQVIISHAWLPHETSKVVTSSWDGLIKLWD