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:            hmm2/seq/C56E6.2
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Query:  C56E6.2  CE30372   GTP-binding status:Partially_confirmed TR:Q18898 protein_id:AAA81090.2

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
ras      Ras family                                     189.7    2.8e-55   2
ABC_tran ABC transporter                                  3.8          6   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
ABC_tran   1/1      52    69 ..     1    18 [.     3.8        6
ras        1/2      54   198 ..     1   153 [.   185.3  5.8e-54
ras        2/2     213   265 ..   168   198 .]     4.2      3.7

Alignments of top-scoring domains:
ABC_tran: domain 1 of 1, from 52 to 69: score 3.8, E = 6
                   *->GevlalvGpNGaGKSTLL<-*
                        +++++G +G GK++++
     C56E6.2    52    KAKVVVLGDSGVGKTSII    69

ras: domain 1 of 2, from 54 to 198: score 185.3, E = 5.8e-54
                   *->KlVliGDsGVGKSsLliRFtdn.kFveeYipTIGvDFytktvevD..
                      K+V++GDsGVGK+s+ +R+ ++ ++ +   +TIG+ F + +v  D +
     C56E6.2    54    KVVVLGDSGVGKTSIIYRHRYGaHYRPV-NATIGASFVSFDVGADyr 99

                   ..GktvkLqIWDTAGQERFralrpaYYRgAqGfLLVYDITsrdSFenvkk
                   ++  +v+Lq+WDTAGQERFr + p+Y+R+A+++L+VYD+T+r +Fe v k
     C56E6.2   100 drEDVVRLQVWDTAGQERFRCMVPMYMRNADAALIVYDVTDRNTFEDVEK 149

                   WleeilrhadkdenvpivLVGNKcDLeddedleltegqkRvVsteeGeal
                   Wl++++r  + ++   + L+GNK+DL +          kR+V+ +eG+a+
     C56E6.2   150 WLKDLDRSSGTED-ANVYLIGNKTDLVE----------KREVTEAEGKAM 188

                   AkelgAlpFmE<-*
                   A +++ ++F+E
     C56E6.2   189 AAKIN-AKFFE    198

ras: domain 2 of 2, from 213 to 265: score 4.2, E = 3.7
                   *->elareilkkvse........................vnvnldqpakk
                      el  ++l+ ++e+++++++ +  ++++ + ++++ ++n+n++ + +k
     C56E6.2   213    ELSDDVLQSRQEssekktdlqlirkekvslgddkfeDNPNIQLKIQK 259

                   kkskCcil<-*
                   +  kCc++
     C56E6.2   260 S--KCCSM    265



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