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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /data11/genetics/InterProScan/iprscan/data/smart.HMMs
Sequence file:            /cdna4/rodent/full/goal/mbg/mbg05988/w3open/interpro/cnk_1/seq.in
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  mKIAA0307  ( 725 res)   mbg05988

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
PAS      PAS domain                                      84.7    1.1e-20   2
HLH      helix loop helix domain                         63.3    3.1e-14   1
PAC      Motif C-terminal to PAS motifs (likely to co    30.6    0.00022   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
HLH        1/1      82   135 ..     1    61 []    63.3  3.1e-14
PAS        1/2     150   217 ..     1    68 []    43.2  3.4e-08
PAS        2/2     338   404 ..     1    68 []    41.5  1.1e-07
PAC        1/1     411   454 ..     1    43 []    30.6  0.00022

Alignments of top-scoring domains:
HLH: domain 1 of 1, from 82 to 135: score 63.3, E = 3.1e-14
                   *->narERrlrRRekiNeqafdeLrslvPtlpkgggnskKlsKasiLrlA
                      +++ER  rRR+k+ + ++ eL+++vPt+    +  +K++K++iLr+A
   mKIAA0307    82    SEIER--RRRNKMTQ-YITELSDMVPTCS---ALARKPDKLTILRMA 122  

                   ieYIrksLqeqlqe<-*
                   ++++ ks++    +   
   mKIAA0307   123 VSHM-KSMRGTGNK    135  

PAS: domain 1 of 2, from 150 to 217: score 43.2, E = 3.4e-08
                   *->erlraileslpdgiivld.ldGrilyaNpaaeellGyspeeliGksl
                      e  + ile+++ +++v+  ++Gr++y++++++  l++++ e+ G +l
   mKIAA0307   150    ELKHLILEAADGFLFVVAaETGRVIYVSDSVTPVLNQPQSEWFGSTL 196  

                   lelihpedrlleevqe.lqrlla<-*
                   +e +hp+d   e ++e+l ++ +   
   mKIAA0307   197 YEQVHPDDV--EKLREqLCTSEN    217  

PAS: domain 2 of 2, from 338 to 404: score 41.5, E = 1.1e-07
                   *->erlraileslpdgiivldldGrilyaNpaaeellGyspeeliGksll
                       +  +  +   +++ +++ dG i++++p++    Gy p++l+Gk++l
   mKIAA0307   338    CMDMSGMSVPTEFLSRHNSDGIITFVDPRCISVIGYQPQDLLGKDIL 384  

                   elihpedrlleevqe.lqrlla<-*
                   e++hped+   +++e++q++++   
   mKIAA0307   385 EFCHPEDQ--SHLREsFQQVVK    404  

PAC: domain 1 of 1, from 411 to 454: score 30.6, E = 0.00022
                   *->tveyrlrrkdGsliwvlvsaspird.edgevegilgvvrDITer<-*
                      +v yr+r+k+ ++  +++s   + ++ ++e+e+++++++++ +    
   mKIAA0307   411    SVMYRFRTKNREWLLIRTSSFTFQNpYSDEIEYVICTNTNVKQL    454  

//