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]