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:                 /data11/genetics/InterProScan/iprscan/data/Pfam
Sequence file:            /cdna4/rodent/full/goal/mfj/mfj04296/w3open/interpro/cnk_1/seq.in
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Query:  mKIAA4096  ( 1264 res)   mfj04296

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N 
--------   -----------                                  -----    ------- ---
HA2        Helicase associated domain (HA2)             125.9    7.3e-34   1
DUF1605    Domain of unknown function (DUF1605)         119.1    8.3e-32   1
S1         S1 RNA binding domain                         55.8    9.2e-13   1
Helicase_C Helicase conserved C-terminal domain          52.1    1.3e-11   1
DEAD       DEAD/DEAH box helicase                        29.8    7.4e-07   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
S1           1/1     305   380 ..     1    79 []    55.8  9.2e-13
DEAD         1/1     611   769 ..     1   266 []    29.8  7.4e-07
Helicase_C   1/1     845   939 ..     1    76 []    52.1  1.3e-11
HA2          1/1    1000  1090 ..     1   124 []   125.9  7.3e-34
DUF1605      1/1    1124  1224 ..     1   140 []   119.1  8.3e-32

Alignments of top-scoring domains:
S1: domain 1 of 1, from 305 to 380: score 55.8, E = 9.2e-13
                   *->kleeGdvveGtVtrvtklfGafVdlgengv....eGfvpiSeisrdk
                      ++++Gd++ G+Vt++   fG fV+l+  g +++ eG+v+iSe+ r+ 
   mKIAA4096   305    EPAIGDIYNGKVTSIMQ-FGCFVQLE--GLrkrwEGLVHISELRREG 348  

                   eyrvedpsevlkvGdevkvkvlkvDkergriiLSik<-*
                     rv +  +v+++G++vkvkvl +  ++   +LS+k   
   mKIAA4096   349 --RVANVADVVSKGQRVKVKVLSFTGTKT--SLSMK    380  

DEAD: domain 1 of 1, from 611 to 769: score 29.8, E = 7.4e-07
                RF    xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
                   *->ptpiQaeaipaileneGfalredvlssggmdrlvlqApTGSGKTlaf
                       ++  ++ + a+   ++   +  ++        v +++TGSGKT+  
   mKIAA4096   611    IYKLKEQLVQAVH--DN---Q-ILI--------V-IGETGSGKTTQI 642  

                RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
                   llPilygqrllkgpksarggksqgggknergfkidspqalvlaPTreLae
                      +   ++    +                      +++ +  P+r  a+
   mKIAA4096   643 TQYLA--EAGYTSR----------------------GKIGCTQPRRVAAM 668  

                RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
                   QiyeelkkllkilalsplgvnellrrigtglrvavlslyGGsslkdqldk
                    +++++++ ++                     +++           q+  
   mKIAA4096   669 SVAKRVSEEFG---------------------CCLG----------QEVG 687  

                RF x xxxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
                   l.rgkres.kggpdIvvgTPgrLldllrngrinikievssertgklklkn
                   ++ ++++++++++ I ++T g+Ll+  + ++               +l +
   mKIAA4096   688 YtIRFEDCtSPETVIKYMTDGMLLRECLIDP---------------DLTQ 722  

                RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
                   lkhlkllVlDEahrlldmghgFgedleeilrrlprneplraqllgtilHq
                         + lDEah+    ++     l++ ++++ +   ++          
   mKIAA4096   723 Y---AIIMLDEAHERTIHTDVLFGLLKKTVQKRQD---MK---------- 756  

                RF xxxxxxxxxxxxxxxxxxxxx   
                   kpniQtllfSATlpprevedl<-*
                        +++ SATl  +   ++   
   mKIAA4096   757 -----LIVTSATL-DA--VKF    769  

Helicase_C: domain 1 of 1, from 845 to 939: score 52.1, E = 1.3e-11
                   *->ll.epgikvarlhGglsqeeReeilekFrsgkskvLvaTdvaarGlD
                        + p++ ++++++ l++e +++i++    g++kv++aT++a+++l+
   mKIAA4096   845    GPdVPELIILPVYSALPSEMQTRIFDPAPPGSRKVVIATNIAETSLT 891  

                   ipdvnlVInydl..................pwnpesyiQRiGRaGRaG<-
                   i ++ +V++ ++ +++  +++++ ++   +p + ++  QR+GRaGR G  
   mKIAA4096   892 IDGIYYVVDPGFvkqkvynsktgidqlvvtPISQAQAKQRAGRAGRTG   939  

                   *
                    
   mKIAA4096     -   -    

HA2: domain 1 of 1, from 1000 to 1090: score 125.9, E = 7.3e-34
                   *->aAlelLyeLgAlrDsdgeLTsplGrlmarlPldPrLgkmLvllaalf
                      +A e Ly LgAl D++g LT +lGr+ma++Pl+P L+kmL ++++ +
   mKIAA4096  1000    TAMEQLYTLGAL-DDEGLLT-RLGRRMAEFPLEPMLCKML-IMSVHL 1043 

                   gcldealiiaaiLsvrgspfvntGvDRdaqrlpldksekakrWNiSrdla
                   gc++e+l+i+++Lsv +++f++          p dk++ a+         
   mKIAA4096  1044 GCSEEMLTIVSMLSV-QNVFYR----------PKDKQALAD--------- 1073 

                   rakfegrsleksars.r.lts.lsDhlall<-*
                                ++++++ ++++Dhl+ll   
   mKIAA4096  1074 -------------QKkAkFHQtEGDHLTLL    1090 

DUF1605: domain 1 of 1, from 1124 to 1224: score 119.1, E = 8.3e-32
                   *->kQLlrilkrlglplnsssgdiellrkailaGlypNvArresdrggkg
                      kQ l+i+ r++l   s+++    ++kai++G++ N+A++++++g   
   mKIAA4096  1124    KQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEG--- 1167 

                   sYktlr.svrlpvrkkanisdvkdgeekgfktndgnVsiHPsSvLfntkk
                    Y+tl +++                           V+iHPsS Lf   +
   mKIAA4096  1168 -YRTLIdQQV--------------------------VYIHPSSALF---N 1187 

                   kppkwvvytelvetskkgdgskvYardvtaispewllllapgki<-*
                   ++p+wvvy+elv t+k      +Y+r+vt i+p wl+++ap  +   
   mKIAA4096  1188 RQPEWVVYHELVLTTK------EYMREVTTIDPRWLVEFAP-AF    1224 

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