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:            hmm3/seq/K04B12.1
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Query:  K04B12.1  CE16224  locus:plx-2  status:Partially_confirmed TR:O45657 protein_id:CAB05755.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
TIG          IPT/TIG domain                             188.7    9.3e-53   5
PSI          Plexin repeat                              104.7    2.8e-33   3
ubiquitin    Ubiquitin family                             6.3          3   1
granulin     Granulin                                     5.4        2.6   1
BPD_transp_2 Branched-chain amino acid transport syst     4.6        4.6   1
Sema         Sema domain                                  3.7        4.4   1
E1_dehydrog  Dehydrogenase E1 component                   3.4        5.7   1
Prox1        Homeobox prospero-like protein (PROX1)       0.4        6.9   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
granulin       1/1     111   120 ..    34    43 .]     5.4      2.6
Sema           1/1     281   306 ..   229   254 ..     3.7      4.4
PSI            1/3     486   528 ..     1    67 []    47.0  3.6e-14
TIG            1/5     506   563 ..    54   105 .]    -2.0  6.4e+02
Prox1          1/1     587   599 ..  1535  1547 .]     0.4      6.9
PSI            2/3     617   657 ..     1    67 []    39.8  8.9e-12
PSI            3/3     747   788 ..     1    67 []    34.1  6.7e-10
TIG            2/5     790   878 ..     1   105 []    70.2  2.9e-17
TIG            3/5     880   965 ..     1   105 []    86.6  5.2e-22
TIG            4/5     968  1064 ..     1   105 []    44.0  3.1e-10
TIG            5/5    1069  1110 ..    15    68 ..     6.6      3.2
BPD_transp_2   1/1    1154  1172 ..   302   323 .]     4.6      4.6
E1_dehydrog    1/1    1198  1226 ..   299   327 .]     3.4      5.7
ubiquitin      1/1    1498  1512 ..    63    78 ..     6.3        3

Alignments of top-scoring domains:
granulin: domain 1 of 1, from 111 to 120: score 5.4, E = 2.6
                   *->CdadggrClq<-*
                      C+adg++Cl+
    K04B12.1   111    CSADGKSCLK    120

Sema: domain 1 of 1, from 281 to 306: score 3.7, E = 4.4
                   *->iysRVaRvCknDvGGrrylelnkWTT<-*
                      +++R++R+C nD  +++y e+ + ++
    K04B12.1   281    MTTRLIRFCRNDTKFESYSEIELQCR    306

PSI: domain 1 of 3, from 486 to 528: score 47.0, E = 3.6e-14
                   *->nCsqhrqsCssClsapdpmgCgWCssrkrCtrreaygpsfpygeCsr
                      +Cs+h +sC++Cl + dp  C+WC+ ++ Ct+++          C++
    K04B12.1   486    TCSHH-SSCTECLVSVDP-LCQWCHPTQSCTTSA---------RCTS 521

                   gekpedNswlgwsqsqeqCp<-*
                   ++             ++qCp
    K04B12.1   522 PV-------------TSQCP    528

TIG: domain 1 of 5, from 506 to 563: score -2.0, E = 6.4e+02
                   *->pCdvissssstqivCktPpva.pgpsppv...........vtvsvdg
                      +C++++s+  t+ +C++P  ++  ++   + ++  + ++++ +s++
    K04B12.1   506    WCHPTQSCT-TSARCTSPVTSqCPIVDGDpipsivsvnssTPISFNI 551

                   ggsgdgrssspvtFtYv<-*
                   ++      ++pv FtY+
    K04B12.1   552 HH-----LPPPVGFTYR    563

Prox1: domain 1 of 1, from 587 to 599: score 0.4, E = 6.9
                   *->EiFKSPNfLeeLl<-*
                      EiF SPN  e Ll
    K04B12.1   587    EIFTSPNTFEILL    599

PSI: domain 2 of 3, from 617 to 657: score 39.8, E = 8.9e-12
                   *->nCsqhrqsCssClsapdpmgCgWCssrkrCtrreaygpsfpygeCsr
                      +Cs + ++CssC+s+++  +C+WCs++++C++            C+
    K04B12.1   617    DCSGY-GTCSSCMSSEY--NCAWCSGLHKCSN-----------SCGA 649

                   gekpedNswlgwsqsqeqCp<-*
                    e            +++ C+
    K04B12.1   650 LE------------KSKACV    657

PSI: domain 3 of 3, from 747 to 788: score 34.1, E = 6.7e-10
                   *->nCsqhrqsCssClsapdpmgCgWCssrkrCtrreaygpsfpygeCsr
                      +C  ++++CssCl+ ++ + CgWC++  +C++           eC++
    K04B12.1   747    SCTNLASDCSSCLALSPSLSCGWCNR--QCSH-----------ECHE 780

                   gekpedNswlgwsqsqeqCp<-*
                   ++            +++ C
    K04B12.1   781 SK------------ATAVCD    788

TIG: domain 2 of 5, from 790 to 878: score 70.2, E = 2.9e-17
                   *->PvItsisPssgplsGGteiTitGsnlgsgsrPrirkntfededikVt
                      P+I +++P+sgp++GGt i i G +lg         +++ed ++k++
    K04B12.1   790    PRIDKFEPTSGPIEGGTIIKIYGNDLG---------MSVEDVRGKIY 827

                   fggtpvpCdvissssstqivCktPpva.pgpsppvvtvsvdgggsgdgrs
                   ++g    C+++  + s++i C + ++ + gp    +++sv+++    ++
    K04B12.1   828 VAGSR--CNIVEYHVSNMIACQVDKGVsSGP----IRISVGRAT--VAVA 869

                   sspvtFtYv<-*
                    s++ +++v
    K04B12.1   870 ESSELYSFV    878

TIG: domain 3 of 5, from 880 to 965: score 86.6, E = 5.2e-22
                   *->PvItsisPssgplsGGteiTitGsnlgsgsrPrirkntfededikVt
                       +I s +P++gp+sGGt+iT+ G+nl sgs            +++Vt
    K04B12.1   880    TSIFSAYPLYGPISGGTRITLYGQNLSSGS------------QTSVT 914

                   fggtpvpCdvissssstqivCktPpva.pgpsppvvtvsvdgggsgdgrs
                   +gg p  C + +++sst ++C tP++++ g+s   v v+vd+++     +
    K04B12.1   915 VGGMP--CPIERVNSSTVLTCLTPSGTrIGKSAR-VVVHVDHSQ-----T 956

                   sspvtFtYv<-*
                   +  ++F+Y+
    K04B12.1   957 QLDQPFEYR    965

TIG: domain 4 of 5, from 968 to 1064: score 44.0, E = 3.1e-10
                   *->PvItsisPssgplsGGteiTitGsnlgsgsrPrirkntfededikVt
                      P+I+si+P +++++GG  ++++G  l++++            + k +
    K04B12.1   968    PSISSIFPMTSFKAGGRIVYVQGNSLNTVQ------------TAKLF 1002

                   fggtpv..........pCdvissssstqivCktPpva.pgpsppvvtvsv
                   + + p+++    ++  pC++i+s+    ++C tP+  +  +     +v++
    K04B12.1  1003 LISSPTppfyiisdlaPCHIINSTL---MTCMTPKILeTIT----RRVEY 1045

                   dggg.sgdgrssspvtFtYv<-*
                   ++++    + +++ ++F+ v
    K04B12.1  1046 TRQPmG-IYPNPTLSPFKGV    1064

	[output cut off at A = 10 top alignments]


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