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EBI 2Can Tutorials Protein Function

2Can Support Portal - Protein Function

FingerPRINTScan <<< 4/4 >>>

Finger PRINTScan results of sequence A (using advanced parameters)



The alignments of the various motifs for the different families are shown below to our query sequence.

To get more detailed results about scores for the actual separate motifs of the family fingerprints matched, rerun the program using sequence A, but this time change the 'view results' to give detailed results. 

Sn; Sequence A
, 350 bases, CC1AD4CB checksum.
Si; FASTA sequence
1TBS
1TBH RHODOPSIN       2.106609e-63
1TBH GPCRRHODOPSN    2.156553e-44
1TBH OPSIN           4.146769e-20
1TBF
2TBS
2TBT FingerPrint     No.Motifs SumId    AveId    ProfScore  Ppvalue     Evalue      GraphScan               
2TBH RHODOPSIN       6  of  6  4.9e+02  81       4693       2.6e-68     2.1e-63     IIIIII          
2TBH GPCRRHODOPSN    7  of  7  205.30   29.33    2328       2.7e-49     2.2e-44     iIiiIIi         
2TBH OPSIN           3  of  3  202.00   67.33    1456       5.2e-25     4.1e-20     III             
2TBN NRPEPTIDEYR     4  of  5  102.07   25.52    727        7.6e-08     0.0061      iIi.i           
2TBN NANEUSMPORT     2  of  8  51.33    25.66    481        4.8e-07     0.039       .I.i....        
2TBN PEROPSIN        3  of  11 105.83   35.28    725        1.1e-06     0.086       .I.I..i....     
2TBN OPSINBLUE       3  of  6  85.57    28.52    638        2.5e-06     0.2         .I.i.i          
2TBN GLYCHORMONER    2  of  8  43.63    21.82    554        2.5e-06     0.2         ...I.i..        
2TBN TMPROTEINSRG    2  of  7  39.22    19.61    307        3.3e-05     2.6         ..i...i         
2TBN NPOXDRDTASE5    2  of  8  40.83    20.42    413        0.00012     9.3         ...i..i.        
2TBF
3TBS
3TBT MotifName       No.Mots   IdScore PfScore Pvalue    Sequence                     Len  low  pos  high
3TBH RHODOPSIN       1  of  6  86.94   898     1.47e-14  GTEGPNFYVPFSNKTGVVR          19   3    3    6
3TBH RHODOPSIN       2  of  6  80.20   808     2.07e-10  SPFEAPQYYLAEPWQFS            17   22   22   25
3TBH RHODOPSIN       3  of  6  81.56   763     1.83e-13  FMVFGGFTTTLYTSLHG            17   85   85   88 
3TBH RHODOPSIN       4  of  6  73.53   643     4.86e-09  YYTPHEETNNESFVIYM            17   191  191  194
3TBH RHODOPSIN       5  of  6  83.70   878     9.33e-15  VAFYIFTHQGSDFGPIFMT          19   271  271  274
3TBH RHODOPSIN       6  of  6  81.87   703     1.04e-09  TTLCCGKNPLGDDE               14   319  319  322
3TBB
3TBH GPCRRHODOPSN    1  of  7  23.16   192     1.24e-05  MLAAYMFLLIMLGFPINFLTLYVTV    25   5    39   490
3TBH GPCRRHODOPSN    2  of  7  35.32   279     1.31e-07  LNYILLNLAVADLFMVFGGFTT       22   38   72   524
3TBH GPCRRHODOPSN    3  of  7  26.33   290     2.82e-07  ATLGGEIALWSLVVLAIERYVVV      23   81   117  576
3TBH GPCRRHODOPSN    4  of  7  26.98   291     6.24e-05  HAIMGVAFTWVMALACAAPPLV       22   117  152  612
3TBH GPCRRHODOPSN    5  of  7  30.41   378     1.11e-09  VIYMFVVHFIIPLIVIFFCYGQLV     24   167  204  657
3TBH GPCRRHODOPSN    6  of  7  33.17   479     8.52e-09  VTRMVIIMVIAFLICWLPYAGVAFY    25   219  250  908
3TBH GPCRRHODOPSN    7  of  7  29.94   419     1.00e-09  MTIPAFFAKTSAVYNPVIYIMMNKQFR  27   263  288  951
3TBB
3TBH OPSIN           1  of  3  65.79   436     3.61e-09  YVTVQHKKLRTPL                13   50   60   81
3TBH OPSIN           2  of  3  77.67   617     3.59e-08  GWSRYIPEGMQCS                13   165  174  194
3TBH OPSIN           3  of  3  58.54   403     4.00e-09  PIFMTIPAFFAKT                13   277  285  317
3TBB
3TBN NRPEPTIDEYR     1  of  5  19.23   172     1.01e-02  QHKKLRTPLNYIL                13   52   64   89
3TBN NRPEPTIDEYR     2  of  5  35.31   200     3.85e-02  TLYTSLHGYFVFG                13   82   94   119
3TBN NRPEPTIDEYR     3  of  5  21.88   150     2.18e-02  ATLGGEIALWSLVVLA             16   105  117  142
3TBN NRPEPTIDEYR     5  of  5  25.65   205     8.92e-03  VIYIMMNKQFRNCM               14   306  304  443
3TBB
3TBN NANEUSMPORT     2  of  8  30.66   324     1.38e-05  SMLAAYMFLLIMLGFPINFL         20   54   38   374
3TBN NANEUSMPORT     4  of  8  20.67   157     3.49e-02  VIYMFVVHFIIPLIVIFF           18   207  204  537
3TBB
3TBN PEROPSIN        2  of  11 33.33   230     1.11e-02  TLYVTVQHKKLR                 12   46   58   46
3TBN PEROPSIN        4  of  11 45.83   275     9.77e-03  SLHGYFVFGPTG                 12   86   98   86
3TBN PEROPSIN        7  of  11 26.67   220     9.87e-03  NESFVIYMFVVHFII              15   186  200  186
3TBB
3TBN OPSINBLUE       2  of  6  33.14   188     2.72e-02  KTGVVRSPFEAPQ                13   11   16   23
3TBN OPSINBLUE       4  of  6  26.28   219     2.67e-02  FVIYMFVVHFII                 12   198  203  210
3TBN OPSINBLUE       6  of  6  26.15   231     3.38e-03  VTTLCCGKNPLGDDE              15   312  318  325
3TBB
3TBN GLYCHORMONER    4  of  8  35.13   353     9.76e-05  CNLEGFFATLGGEIA              15   416  110  605
3TBN GLYCHORMONER    6  of  8  8.50    201     2.57e-02  AEKEVTRMVIIMVIAFLIC          19   540  246  732
3TBB
3TBN TMPROTEINSRG    3  of  7  17.00   116     5.81e-02  VVLAIERYVVVCKPMSNFRFGENHA    25   101  129  171
3TBN TMPROTEINSRG    7  of  7  22.22   191     5.65e-04  AKTSAVYNPVIYIMMNKQFRNCMV     24   259  295  340
3TBB
3TBN NPOXDRDTASE5    4  of  8  27.48   240     2.87e-03  MLAAYMFLLIMLGFPINFLTLYV      23   276  39   276
3TBN NPOXDRDTASE5    7  of  8  13.36   173     4.05e-02  VTRMVIIMVIAFLICWLPYAGV       22   500  250  549
3TBB
3TBF

This time we get details about scores for each of the motifs of the family fingerprint. A percentage identity score, a PfScore and a Pvalue are returned for each of the families component motifs. The fragment of the sequence that matches the motif is displayed and its length is listed under the 'len' parameter. The 'pos' parameter tells us at which position in our query sequence the motif is found. The 'low' parameter tells us the lowest position and 'high' tells us the highest position where this particular motif is found in the proteins that make up the family. Below we find each of the motifs of the fingerprints that have been matched aligned with our query sequence.


Reference



Scordis, P., Flower. D.R., and Attwood, T.K. (1999)
FingerPRINTScan: intelligent searching of the PRINTS motif database
Bioinformatics 1999, Vol 15 no. 10 799-806
[abstract] [full text pdf]

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