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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /db/iprscan/data/Pfam.bin
Sequence file:            /db/iprscan/tmp/20080502/iprscan-20080502-15213320/chunk_1/iprscan-20080502-15213320.nocrc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query sequence: KIAA1878
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
PF05217.3.fs STOP protein                                   962.6   1.4e-286   2
PF05217.3.ls STOP protein                                   788.8   2.9e-234   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
PF05217.3.fs   1/2      15   283 ..     1   264 [.   545.7 4.4e-161
PF05217.3.ls   1/1      15   453 .]     1   661 []   788.8 2.9e-234
PF05217.3.fs   2/2     285   453 .]   492   661 .]   416.9 2.6e-122

Alignments of top-scoring domains:
PF05217.3.fs: domain 1 of 2, from 15 to 283: score 545.7, E = 4.4e-161
                   *->mAWPCitRACCiARFWnqLDKADiAvPLvFtKYsEAtEqpgappqpp
                      mAWPCitRACCiARFWnqLDKADiAvPLvFtKYsEAtE+pgappqpp
    KIAA1878    15    MAWPCITRACCIARFWNQLDKADIAVPLVFTKYSEATEHPGAPPQPP 61   

                   ap...PlPaliPrs.aAvaietqPaqgesdavaratgpapgpsGdderAA
                    p+++ +Pal+P+s +AvaietqPaqge davaratgpapgp+G++e AA
    KIAA1878    62 PPqqqAQPALAPPSaRAVAIETQPAQGELDAVARATGPAPGPTGEREPAA 111  

                   agGdaalGlaaastatsGsgPADsvmRqDYkaWKvqRPEPsCkPksEYqP
                   ++G++++G++  s++tsG  PADsvmRqDY+aWKvqRPEPsC+P+sEYqP
    KIAA1878   112 GPGRSGPGPGLGSGSTSG--PADSVMRQDYRAWKVQRPEPSCRPRSEYQP 159  

                   sDaPFEkEtqYqKDFRAWPlPkRGDHPWiPKpvqipatsagssPvLGmek
                   sDaPFE+EtqYqKDFRAWPlP+RGDHPWiPKpvqi a+s+ s+P+LG +k
    KIAA1878   160 SDAPFERETQYQKDFRAWPLPRRGDHPWIPKPVQISAASQASAPILGAPK 209  

                   rrPekqergpiqlsadardpega.ggagvpaagkasgadqrdtrrkagpa
                   rrP++qer p+q +a+ar+ e a+ggag  aagkasgad+rdtrrkagpa
    KIAA1878   210 RRPQSQERWPVQAAAEAREQEAApGGAGGLAAGKASGADERDTRRKAGPA 259  

                   wmvtrte..gheekplppaqsqtq<-*
                   wmv r+e+ ghe+ plp aq+q q   
    KIAA1878   260 WMVRRAEglGHEQTPLPAAQAQVQ    283  

PF05217.3.ls: domain 1 of 1, from 15 to 453: score 788.8, E = 2.9e-234
                   *->mAWPCitRACCiARFWnqLDKADiAvPLvFtKYsEAtEqpgappqpp
                      mAWPCitRACCiARFWnqLDKADiAvPLvFtKYsEAtE+pgappqpp
    KIAA1878    15    MAWPCITRACCIARFWNQLDKADIAVPLVFTKYSEATEHPGAPPQPP 61   

                   ap...PlPaliPrs.aAvaietqPaqgesdavaratgpapgpsGdderAA
                    p+++ +Pal+P+s +AvaietqPaqge davaratgpapgp+G++e AA
    KIAA1878    62 PPqqqAQPALAPPSaRAVAIETQPAQGELDAVARATGPAPGPTGEREPAA 111  

                   agGdaalGlaaastatsGsgPADsvmRqDYkaWKvqRPEPsCkPksEYqP
                   ++G++++G++  s++tsG  PADsvmRqDY+aWKvqRPEPsC+P+sEYqP
    KIAA1878   112 GPGRSGPGPGLGSGSTSG--PADSVMRQDYRAWKVQRPEPSCRPRSEYQP 159  

                   sDaPFEkEtqYqKDFRAWPlPkRGDHPWiPKpvqipatsagssPvLGmek
                   sDaPFE+EtqYqKDFRAWPlP+RGDHPWiPKpvqi a+s+ s+P+LG +k
    KIAA1878   160 SDAPFERETQYQKDFRAWPLPRRGDHPWIPKPVQISAASQASAPILGAPK 209  

                   rrPekqergpiqlsadardpegaggagvpaagkasgadqrdtrrkagpaw
                   rrP++qer p+q +a+ar+ e a                           
    KIAA1878   210 RRPQSQERWPVQAAAEAREQEAA--------------------------- 232  

                   mvtrtegheekplppaqsqtqeggpaagkasgadqrdtrrkagpawmvtr
                                                                     
    KIAA1878     - -------------------------------------------------- -    

                   teaqEkkrkkeeeaeadEegPkAakasdAdekdrrRkagpawmvtrtegh
                                            +++A                     
    KIAA1878   233 -------------------------PGGA--------------------- 236  

                   eekplppaqsqtqeggpaagkasgadqrdtrrkagpawmvtrtegheetp
                                 gg aagkasgad+rdtrrkagpawmv r+eg     
    KIAA1878   237 --------------GGLAAGKASGADERDTRRKAGPAWMVRRAEGL---- 268  

                   lppaqsqtqeggpaagkasgadqrdtrrkagpawmvtrtegheetplppa
                                                           ghe+tplp a
    KIAA1878   269 ----------------------------------------GHEQTPLPAA 278  

                   qsqtqeggpaagkasgaderdtrrkagpawmvrrsegheqttaahadeaG
                   q+q                                           + +G
    KIAA1878   279 QAQ------------------------------------------VQATG 286  

                   geeGkGRAvADALnRqikEEvvaagvsssYRnEFRaWiDvKPvKaiKAKa
                   +e G+GRA+ADALnRqi+EEv +a vsssYRnEFRaW+D+KPvK+iKAK+
    KIAA1878   287 PEAGRGRAAADALNRQIREEVASA-VSSSYRNEFRAWTDIKPVKPIKAKP 335  

                   qYKPPeeKmvHEtsYsAqFKGEasKPatADnKvleRRRiRsLYsEPyKEs
                   qYKPP++KmvHEtsYsAqFKGEasKP+tADnKv++RRRiRsLYsEP+KE+
    KIAA1878   336 QYKPPDDKMVHETSYSAQFKGEASKPTTADNKVIDRRRIRSLYSEPFKEP 385  

                   PKvEKPsvkssKPKKtstsqKPLkKAKDKqvAsGrAAKKKsaEsssaaKP
                   PKvEKPsv+ssKPKKts s+KP +KAKDKq  sG+AAKKKsaE +s++KP
    KIAA1878   386 PKVEKPSVQSSKPKKTSASHKPTRKAKDKQAVSGQAAKKKSAEGPSTTKP 435  

                   eDKEksKEmnnKLAEAKE<-*
                   +DKE+sKEmnnKLAEAKE   
    KIAA1878   436 DDKEQSKEMNNKLAEAKE    453  

PF05217.3.fs: domain 2 of 2, from 285 to 453: score 416.9, E = 2.6e-122
                   *->aGgeeGkGRAvADALnRqikEEvvaagvsssYRnEFRaWiDvKPvKa
                      +G+e G+GRA+ADALnRqi+EEv +a vsssYRnEFRaW+D+KPvK+
    KIAA1878   285    TGPEAGRGRAAADALNRQIREEVASA-VSSSYRNEFRAWTDIKPVKP 330  

                   iKAKaqYKPPeeKmvHEtsYsAqFKGEasKPatADnKvleRRRiRsLYsE
                   iKAK+qYKPP++KmvHEtsYsAqFKGEasKP+tADnKv++RRRiRsLYsE
    KIAA1878   331 IKAKPQYKPPDDKMVHETSYSAQFKGEASKPTTADNKVIDRRRIRSLYSE 380  

                   PyKEsPKvEKPsvkssKPKKtstsqKPLkKAKDKqvAsGrAAKKKsaEss
                   P+KE+PKvEKPsv+ssKPKKts s+KP +KAKDKq  sG+AAKKKsaE +
    KIAA1878   381 PFKEPPKVEKPSVQSSKPKKTSASHKPTRKAKDKQAVSGQAAKKKSAEGP 430  

                   saaKPeDKEksKEmnnKLAEAKE<-*
                   s++KP+DKE+sKEmnnKLAEAKE   
    KIAA1878   431 STTKPDDKEQSKEMNNKLAEAKE    453  

//