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:            hmm5/seq/Y59H11AM.2
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Query:  Y59H11AM.2  CE25519    status:Predicted

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
Rhodanese    Rhodanese-like domain                       30.8      7e-08   1
Ribosomal_L2 Ribosomal Proteins L2, RNA binding domai     7.0        2.6   1
Sec61_beta   Sec61beta family                             5.4        7.1   1
AIRS_C       AIR synthase related protein, C-terminal     2.5        9.8   1
U79_P34      HSV U79 / HCMV P34                           2.5        5.2   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
U79_P34        1/1     116   127 ..     1    21 [.     2.5      5.2
Rhodanese      1/1       8   147 ..     1   132 []    30.8    7e-08
Ribosomal_L2   1/1     244   256 ..    69    81 .]     7.0      2.6
AIRS_C         1/1     249   270 ..     1    29 [.     2.5      9.8
Sec61_beta     1/1     244   281 ..    15    47 .]     5.4      7.1

Alignments of top-scoring domains:
U79_P34: domain 1 of 1, from 116 to 127: score 2.5, E = 5.2
                   *->MyAedrRGsPivvvRkYgTFd<-*
                      M+A           R+Y+TF+
  Y59H11AM.2   116    MAAAS---------RAYWTFR    127

Rhodanese: domain 1 of 1, from 8 to 147: score 30.8, E = 7e-08
                   *->tagelkallesapkliliDvRspef.Ge...................
                      +++++ ++ +   ++ ++D+ +  f+ + +  + + +  ++ + + +
  Y59H11AM.2     8    EPKWVVQNFG---NIRILDASWT-FkPKadiaeykakyynkfgvgmn 50

                   ...ryeyegGHIpgAvNvpleeeiealldrsgilpdieklhllkdpeela
                   + +  ey   HI gA +++    i+ +  ++ ++       +l +pee+
  Y59H11AM.2    51 elkNPEYLAEHINGAAHFN--FDIAYYPSENERF-------TLYTPEEFS 91

                   klfgelgsskdkrvivycrsgrdllrnrrsalaalllkklgypeVyiLkG
                    ++ +lg+++ +++++y r+ +   ++  + +a+++++  gy++V++L+G
  Y59H11AM.2    92 SYVKRLGVFNGDHLVIYGRGKD--GGMAAASRAYWTFRYYGYTTVSVLNG 139

                   GykeWlak<-*
                   G ++++
  Y59H11AM.2   140 GIEAFKLA    147

Ribosomal_L2: domain 1 of 1, from 244 to 256: score 7.0, E = 2.6
                   *->apeGlkvGdtivs<-*
                      a++G+kvGdt+v+
  Y59H11AM.2   244    AAKGIKVGDTVVI    256

AIRS_C: domain 1 of 1, from 249 to 270: score 2.5, E = 9.8
                   *->kpGDvlillgstgkktgrsGlhGnglslv<-*
                      k+GD ++   +       +Gl +++++l+
  Y59H11AM.2   249    KVGDTVVIGCG-------IGLSASAIWLA    270

Sec61_beta: domain 1 of 1, from 244 to 281: score 5.4, E = 7.1
                   *->dspGLkVdPvvVlvlSlgFiasViaLH.....ifaKlv<-*
                      +++G+kV+ +vV++ ++g +as i L   +++i+aKl+
  Y59H11AM.2   244    AAKGIKVGDTVVIGCGIGLSASAIWLAaarsgIVAKLY    281



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