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: hmm5/seq/Y55D9A.1a
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Query: Y55D9A.1a CE19234 Sec7 domain status:Partially_confirmed TR:Q9XWG7 protein_id:CAA21701.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Sec7 Sec7 domain 119.6 5.3e-32 1
PH PH domain 49.6 1.4e-12 1
AL_protease Alpha-lytic protease prodomain 5.0 7.2 1
UPF0185 Uncharacterised protein family (UPF018 3.3 7.6 1
RNA_pol_Rpb2_1 RNA polymerase beta subunit 2.3 2.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AL_protease 1/1 3 25 .. 44 68 .] 5.0 7.2
RNA_pol_Rpb2_1 1/1 174 442 .. 164 238 .] 2.3 2.8
Sec7 1/1 408 532 .. 63 222 .] 119.6 5.3e-32
PH 1/1 568 679 .. 1 85 [] 49.6 1.4e-12
UPF0185 1/1 672 698 .. 1 28 [. 3.3 7.6
Alignments of top-scoring domains:
AL_protease: domain 1 of 1, from 3 to 25: score 5.0, E = 7.2
*->tAdsGgtvaaaafaklagvaaglvr<-*
+++s + a++a+a++ g+ +++v
Y55D9A.1a 3 KVAS--SGAEEALATIDGAPRRNVK 25
RNA_pol_Rpb2_1: domain 1 of 1, from 174 to 442: score 2.3, E = 2.8
RF xxxxxxxxxx
*->ekviiaqivr.....................................
e+ i++ ++++++++ ++ ++ + ++++++++ +++++ ++
Y55D9A.1a 174 EQFIVVSNDMkspneeivakslrsamftmptdnhhhsynsspqistl 220
RF
..................................................
+++ +++++++++++ ++ +++ +++ + ++ ++++++++ +++++ ++
Y55D9A.1a 221 sphlrsngdgpsrspvyddvdddlngsldakdmsnnshqqsfrspenyse 270
RF
..................................................
++++++++ + ++++ +++ ++++ ++ +++++++++++++ +++
Y55D9A.1a 271 kdtpskhsvvtidgsgvsnhydqdgmfshvyystqdttpkhgspslrkqi 320
RF
..................................................
++++++++ ++++ + +++ + ++++++ +++ + ++ ++++ +++
Y55D9A.1a 321 fesrttpntaasnssasaspslhatsesrgatggvslrsaessnlnqtav 370
RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
.......lageLlqslfrvllkklekdvreklqkllkkkskkkelnlqrl
++++++++ ge + ++ l +l++ ++ l+++++ l l +
Y55D9A.1a 371 pststnsVGGEREAAQIARNLYELKNCTSTQVADRLNEQNEFSFLILVKY 420
RF xxxxxxxxxxxxxxxxxxxxxx
lkalvksaktitsglkeflatg<-*
l+ + s++ i ++l+efl+
Y55D9A.1a 421 LELFQFSTTRIDAALREFLSRV 442
Sec7: domain 1 of 1, from 408 to 532: score 119.6, E = 5.3e-32
*->endpfniqvLkeFvkNlfdFtglpldeALRkfLqsFrLPGEaQkIDR
e ++f+ ++L +++ lf F +++d ALR fL +L GE+ ++R
Y55D9A.1a 408 EQNEFSFLILVKYLE-LFQFSTTRIDAALREFLSRVELRGESSARER 453
ileaFSerYckcQyNpkvlsnkkgaEDdIecvqpdaDtahvLaySlIMLN
+l FS rY +c Np + + D +h+L+++l++LN
Y55D9A.1a 454 LLRVFSARYLEC--NPAIFDSL--------------DEVHTLTCALLLLN 487
TDLHNNpnVKkkeikMTledFieNlrrdlreeNEYEELGinnGgdlprel
+DLH +pn +kk MT dFi N +G ++re
Y55D9A.1a 488 SDLH-GPNMGKK---MTARDFITNIA--------------HTGCTFKREM 519
LeelYesIkneEi<-*
L+ l+ sIk++ i
Y55D9A.1a 520 LKTLFQSIKDNAI 532
PH: domain 1 of 1, from 568 to 679: score 49.6, E = 1.4e-12
*->vikeGwLlkks.............kswkkRyfvLfndvLlyykdsk.
+++G+L++k +++++++++ +++sw+ +y+ L++ vL++ +d+++
Y55D9A.1a 568 EYYSGFLMRKYvretdggktpfgrRSWRMVYARLRGLVLYFDTDEHp 614
......kkpkgsipLsgcqvek.pd....kncFeirt.dr.tlllqaese
+ +++ +++ ++L ++ e+ pd +++ ++F++r +++++l+q++++
Y55D9A.1a 615 katsryASLENAVSLHHALAEPaPDykkkSFVFRVRIaHGgEILFQTSNQ 664
eerkeWvkaiqsair<-*
+e++eW + i+ +++
Y55D9A.1a 665 KELQEWCEKINFVAA 679
UPF0185: domain 1 of 1, from 672 to 698: score 3.3, E = 7.6
*->msKvsFKvtLtsDPkLPyKvlsvPEsaP<-*
K+ F s P LP v s PE aP
Y55D9A.1a 672 -EKINFVAAAFSSPTLPLPVTSKPETAP 698