Motif confirmation by HMMer


hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm1/seq/C35C5.4
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Query:  C35C5.4  CE18544  locus:mig-2 RAS-related protein status:Partially_confirmed TR:P90979 protein_id:CAB01691.1

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N
--------        -----------                             -----    ------- ---
ras             Ras family                              286.6    4.9e-84   1
Peptidase_M10_N Matrix metalloprotease, N-terminal do     2.6          6   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
Peptidase_M10_N   1/1     139   160 ..     1    25 [.     2.6        6
ras               1/1       9   195 .]     1   198 []   286.6  4.9e-84

Alignments of top-scoring domains:
Peptidase_M10_N: domain 1 of 1, from 139 to 160: score 2.6, E = 6
                   *->lPlssvveatgtsetdvelAerYLe<-*
                      +P+s+   + g+++ ++  A++YLe
     C35C5.4   139    SPISK---TQGMKMAQKIKAVKYLE    160

ras: domain 1 of 1, from 9 to 195: score 286.6, E = 4.9e-84
                   *->KlVliGDsGVGKSsLliRFtdnkFveeYipTIGvDFytktvevDGkt
                      K+V++GD+ VGK++ li +t+++F+ +Y+pT+ +D+y+ ++ +DG +
     C35C5.4     9    KCVVVGDGTVGKTCMLISYTTDSFPVQYVPTV-FDNYSAQMSLDGNV 54

                   vkLqIWDTAGQERFralrpaYYRgAqGfLLVYDITsrdSFenvk.kWlee
                   v L +WDTAGQE++++lrp++Y+++++f+L++++ s+ SF+nv++kW++e
     C35C5.4    55 VNLGLWDTAGQEDYDRLRPLSYPQTDVFILCFSVVSPVSFDNVAsKWIPE 104

                   ilrhadkdenvpivLVGNKcDLedded.le.lte.gqkRvVsteeGealA
                   i++h++  +  p++LVG+K DL+d+ ++ + l+ +g   ++s+ +G ++A
     C35C5.4   105 IRQHCP--D-APVILVGTKLDLRDEAEpMRaLQAeGK-SPISKTQGMKMA 150

                   kelgAlpFmETSAKtntNVeeaFeelareilkkvsevnvnldqpakkkks
                   ++++A++++E+SA+t+ +  ++Fe+++r il ++     + +++     +
     C35C5.4   151 QKIKAVKYLECSALTQQGLTQVFEDAVRSILHPK-----PQKKK-----K 190

                   kCcil<-*
                   +C+i+
     C35C5.4   191 SCNIM    195



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