hmmpfam - search one or more sequences against HMM database
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file:                 /db/iprscan/data/Pfam.bin
Sequence file:            /db/iprscan/tmp/20080810/iprscan-20080810-22011665/chunk_1/iprscan-20080810-22011665.nocrc
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Query sequence: fk00577
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
PF00076.12.ls RNA recognition motif. (a.k.a. RRM, RBD, or    187.2    3.7e-53   3
PF00076.12.fs RNA recognition motif. (a.k.a. RRM, RBD, or    185.7    1.1e-52   3

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
PF00076.12.fs   1/3      77   143 ..     1    67 [.    45.7  4.7e-12
PF00076.12.ls   1/3      77   151 ..     1    74 []    44.5  3.2e-10
PF00076.12.fs   2/3     168   235 ..     1    70 [.    55.9  6.2e-15
PF00076.12.ls   2/3     168   239 ..     1    74 []    56.7  7.3e-14
PF00076.12.fs   3/3     461   532 ..     1    74 []    84.0  8.3e-23
PF00076.12.ls   3/3     461   532 ..     1    74 []    86.0  1.1e-22

Alignments of top-scoring domains:
PF00076.12.fs: domain 1 of 3, from 77 to 143: score 45.7, E = 4.7e-12
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                       fVg  p+  +e+dL++lF+++G + +i++ rD +++  +skG++FV
     fk00577    77    MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 123  

                   eFedeedAekAldalnGkel<-*
                   +F +  +A +A  al+++++   
     fk00577   124 TFYTRKAALEAQNALHNMKV    143  

PF00076.12.ls: domain 1 of 3, from 77 to 151: score 44.5, E = 3.2e-10
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                       fVg  p+  +e+dL++lF+++G + +i++ rD +++  +skG++FV
     fk00577    77    MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 123  

                   eFedeedAekAldalnG.kelggrelrv<-*
                   +F +  +A +A  al++ k l g    +   
     fk00577   124 TFYTRKAALEAQNALHNmKVLPGMHHPI    151  

PF00076.12.fs: domain 2 of 3, from 168 to 235: score 55.9, E = 6.2e-15
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                      lf+g +++ +te d++ +Fs fG+ie+++i r      g s+G+aFV
     fk00577   168    LFIGMISKKCTENDIRVMFSSFGQIEECRILRG---PDGLSRGCAFV 211  

                   eFedeedAekAldalnG.kelggr<-*
                   +F++   A+ A++a++  ++ +g+   
     fk00577   212 TFTTRAMAQTAIKAMHQaQTMEGC    235  

PF00076.12.ls: domain 2 of 3, from 168 to 239: score 56.7, E = 7.3e-14
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                      lf+g +++ +te d++ +Fs fG+ie+++i r      g s+G+aFV
     fk00577   168    LFIGMISKKCTENDIRVMFSSFGQIEECRILRG---PDGLSRGCAFV 211  

                   eFedeedAekAldalnG.kelggrelrv<-*
                   +F++   A+ A++a++  ++ +g+       
     fk00577   212 TFTTRAMAQTAIKAMHQaQTMEGCSSPM    239  

PF00076.12.fs: domain 3 of 3, from 461 to 532: score 84.0, E = 8.3e-23
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                      lf+  Lp++  ++dL ++F +fG ++s+k+++D  ++t+ sk f+FV
     fk00577   461    LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID--KQTNLSKCFGFV 505  

                   eFedeedAekAldalnGkelggrelrv<-*
                    ++++ +A++A++++nG+++g ++l+v   
     fk00577   506 SYDNPVSAQAAIQSMNGFQIGMKRLKV    532  

PF00076.12.ls: domain 3 of 3, from 461 to 532: score 86.0, E = 1.1e-22
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                      lf+  Lp++  ++dL ++F +fG ++s+k+++D  ++t+ sk f+FV
     fk00577   461    LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID--KQTNLSKCFGFV 505  

                   eFedeedAekAldalnGkelggrelrv<-*
                    ++++ +A++A++++nG+++g ++l+v   
     fk00577   506 SYDNPVSAQAAIQSMNGFQIGMKRLKV    532  

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