Support Vector Machine GPCR Subfamily Classification Results for gi|4505513|ref|NP_000904.1|

>gi|4505513|ref|NP_000904.1| opiate receptor-like 1; opioid receptor-like 1 [Homo sapiens] MEPLFPAPFWEVIYGSHLQGNLSLLSPNHSLLPPHLLLNASHGAFLPLGLKVTIVGLYLAVCVGGLLGNC LVMYVILRHTKMKTATNIYIFNLALADTLVLLTLPFQGTDILLGFWPFGNALCKTVIAIDYYNMFTSTFT LTAMSVDRYVAICHPIRALDVRTSSKAQAVNVAIWALASVVGVPVAIMGSAQVEDEEIECLVEIPTPQDY WGPVFAICIFLFSFIVPVLVISVCYSLMIRRLRGVRLLSGSREKDRNLRRITRLVLVVVAVFVGCWTPVQ VFVLAQGLGVQPSSETAVAILRFCTALGYVNSCLNPILYAFLDENFKACFRKFCCASALRRDVQVSDRVR SIAKDVALACKTSETVPRPA


Here is a list of Class A Rhodopsin like subfamilies with support vector machine models and the score this sequence received with respect to each model.

1.1296972 Peptide GPCRDB Peptide
  0.86031514 Opioid GPCRDB Opioid
   1.0006664 Opioid type X GPCRDB Opioid type X
  -1.0103626 Opioid type M
  -1.2083615 Opioid type K
  -1.2514162 Opioid type D
 -0.92726845Galanin
 -0.9679292Chemokine
 -1.0041766Tachykinin
 -1.0103285Neuromedin U
 -1.0281699Endothelin
 -1.0403824Somatostatin
 -1.0606883Thrombin
 -1.0613241Angiotensin
 -1.0709577Fmet-leu-phe
 -1.0727257C5a anaphylatoxin
 -1.0736908CCK
 -1.0883653Bombesin
 -1.0917382Urotensin II
 -1.1111138Melanocortin
 -1.1476619Neuropeptide Y
 -1.1492795APJ like
 -1.1554074GPR37 / endothelin B-like
 -1.1572315Interleukin-8
 -1.1838621Adrenomedullin (G10D)
 -1.1854334Chemokine receptor-like
 -1.2056528Bradykinin
 -1.20626Vasopressin-like
 -1.22051Orexin & neuropeptide FF
 -1.2457405Neurotensin
 -1.2619889Proteinase activated
-0.9118788Thyrotropin-releasing hormone & Secretagogue
-0.97612697Nucleotide-like
-0.9870318Gonadotropin-releasing hormone
-0.9946029Class A Orphan/other
-1.033536Melatonin
-1.0346361Prostanoid
-1.0706726Hormone protein
-1.0793235Olfactory
-1.0889174Cannabis
-1.1511078Platelet activating factor
-1.1622427Viral
-1.2363477(Rhod)opsin
-1.2882835Lysosphingolipid & LPA (EDG)
-1.9005353Amine




HOW TO INTERPRET THE SCORES:

Subfamily Scoring:

The support vector machine for each subfamily is trained to score positive examples (members of the subfamily) as 1.0 and negative examples (non-members) as -1.0

If this sequence receives a negative score with respect to a subfamily, it is probably not a member of the subfamily.

If this sequence receives a positive score with respect to a subfamily, it is probably in the subfamily.

In general, the score's distance from zero gives you the confidence level of the prediction. Positive scores greater than +1.0 mean a classifier has strongly accepted your sequence. Negative scores less than -1.0 mean a classifier has strongly rejected your sequence. For a more detailed evaluation of scores and confidence levels, take a look at Classification Statistics.
SOME ADDITIONAL INFORMATION:

There were 19 Class B Secretin like and 11 Class C Metabotropic glutamate / pheromone and 2 Class D Fungal pheromone and 5 Frizzled/Smoothened family and 4 Nematode chemoreceptors and 4 Vomeronasal receptors (V1R & V3R) and 84 Class A Rhodopsin like subfamilies whose classifiers were not run, because the families or subfamilies that contain them were rejected by classifiers higher in the hierarchy. For example, if the Amine receptor classifier scores this sequence negatively, it will not be checked with respect to the subfamilies of Amine receptors (Histamine, Serotonin, Dopamine, Octopamine and Acetylcholine (muscarinic) receptors).

Not all subfamilies have models yet. This sequence may be in a subfamily that has not yet been modeled.

Please cite: R. Karchin, K. Karplus and D. Haussler "Classifying G-Protein Coupled Receptors with Support Vector Machines" Bioinformatics 2002 in press [postscript, pdf]