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:            hmm4/seq/T16A1.1
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Query:  T16A1.1  CE28668    status:Partially_confirmed TR:P91452 protein_id:AAB37880.2

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
MATH          MATH domain                               441.5   7.5e-129   4
NCD2          NAB conserved region 2 (NCD2)               5.4        1.4   1
L51_S25_CI-B8 Mitochondrial ribosomal protein L51 / S     4.5        7.4   1
Pox_VLTF3     Poxvirus Late Transcription Factor VLTF     3.2        6.9   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
MATH            1/4      27   141 ..     1   159 []   163.3  4.2e-45
Pox_VLTF3       1/1     259   272 ..   210   223 .]     3.2      6.9
MATH            2/4     169   283 ..     1   159 []   108.6  1.2e-28
L51_S25_CI-B8   1/1     369   383 ..    78    92 .]     4.5      7.4
MATH            3/4     301   414 ..     1   159 []    97.8  1.2e-25
MATH            4/4     436   549 ..     1   159 []    91.4  6.5e-24
NCD2            1/1     572   584 ..   163   177 .]     5.4      1.4

Alignments of top-scoring domains:
MATH: domain 1 of 4, from 27 to 141: score 163.3, E = 4.2e-45
                   *->tiknfSkikeeakeGregeeyytspyeerfnipWrlnvlriyrnggg
                      t+k+ Sk++       eg++yy+ ++e r+nipWr   lri++n+g
     T16A1.1    27    TFKDLSKLR-------EGQSYYS-DIEVRYNIPWR---LRIFKNDG- 61

                   egrsgkflglyLhClkeekdsptienlkWsieteftlklvsdnGksirrm
                         flg+ LhC+ke  ++  ie+ kW+++t+ft+klv+  Gk
     T16A1.1    62 ------FLGVNLHCEKE--EC--IETKKWTFQTKFTMKLVTVGGKF---- 97

                   ssttltkktkdaknnshvFekptgegwgksGfkkFisWddLeddyngylv
                       + + ++      h F+kp+g+g++k     FisW+++++dy   ++
     T16A1.1    98 ----FRRIVQ------HEFQKPEGYGMDK-----FISWENMLRDY---VD 129

                   dDsiiiEaeVkI<-*
                   +Ds iiE++++I
     T16A1.1   130 NDSTIIEIHADI    141

Pox_VLTF3: domain 1 of 1, from 259 to 272: score 3.2, E = 6.9
                   *->FiPNNdignEYvFv<-*
                      Fi  Nd +nEYv +
     T16A1.1   259    FISWNDMENEYVNN    272

MATH: domain 2 of 4, from 169 to 283: score 108.6, E = 1.2e-28
                   *->tiknfSkikeeakeGregeeyytspyeerfnipWrlnvlriyrnggg
                      t+kn S+++       e+e  ++ +  +++nipW    + i + +
     T16A1.1   169    TFKNLSRFE-------EDEKDFS-DAVDHYNIPWI---IEIIKTNE- 203

                   egrsgkflglyLhClkeekdsptienlkWsieteftlklvsdnGksirrm
                         flg+yL C+ke       e +kWsi  ++++kl+s++G+
     T16A1.1   204 ------FLGIYLNCQKE--YH---EGRKWSIKCKYEFKLISASGN----- 237

                   ssttltkktkdaknnshvFekp.tgegwgksGfkkFisWddLeddyngyl
                       l+   +     + vF + ++g+g        FisW+d+e++y   +
     T16A1.1   238 ----LHSAQQ-----TTVFGNGsSGWGDNT-----FISWNDMENEY---V 270

                   vdDsiiiEaeVkI<-*
                   ++Dsi +E+ VkI
     T16A1.1   271 NNDSIDVEISVKI    283

L51_S25_CI-B8: domain 1 of 1, from 369 to 383: score 4.5, E = 7.4
                   *->eeIekklekLldskG<-*
                      ++Ie++l++++d++G
     T16A1.1   369    SNIEQTLKLVFDKSG    383

MATH: domain 3 of 4, from 301 to 414: score 97.8, E = 1.2e-25
                   *->tiknfSkikeeakeGregeeyytspyeerfnipWrlnvlriyrnggg
                      tikn+S+i+       ege+y t +++ rfnipWr   lr  +  g
     T16A1.1   301    TIKNMSSIR-------EGEDYDT-DTQYRFNIPWR---LRARKTLG- 335

                   egrsgkflglyLhClkeekdsptienlkWsieteftlklvsdnGksirrm
                         fl++ L C+ e   +      +  ie+++t++lv  nG+
     T16A1.1   336 ------FLEIVLFCNEE--YC---MAWNKIIEADCTFTLVCTNGSN---- 370

                   ssttltkktkdaknnshvFekptgegwgksGfkkFisWddLeddyngylv
                       ++ + k       vF+k+ g g ++     Fi+Wd++e+ y  y
     T16A1.1   371 ----IEQTLK------LVFDKSGGQGISR-----FIRWDEMEK-Y--YQL 402

                   dDsiiiEaeVkI<-*
                   ++s+ i a Vk
     T16A1.1   403 NGSVNIQAKVKL    414

MATH: domain 4 of 4, from 436 to 549: score 91.4, E = 6.5e-24
                   *->tiknfSkikeeakeGregeeyytspyeerfnipWrlnvlriyrnggg
                      t+ n+S+++        g   ++ ++ee+    W+   ++++ n+g
     T16A1.1   436    TVANISNMR-------KGTTSFS-NSEEWNYALWK---VCLKNNNG- 470

                   egrsgkflglyLhClkeekdsptienlkWsieteftlklvsdnGksirrm
                         f +l+L C +e   s   e+   ++e++++l lv + Gk
     T16A1.1   471 ------FAELFLNCGNE--NS---EQESRTVEAKYQLSLVGAGGKQ---- 505

                   ssttltkktkdaknnshvFekptgegwgksGfkkFisWddLeddyngylv
                       ++   +      h Fe p++ g +k      i+W d++++y    v
     T16A1.1   506 ----ISEFFE------HNFETPDSNGDPK-----VIRWKDMLEQY---AV 537

                   dDsiiiEaeVkI<-*
                   dDs+ iEa+V
     T16A1.1   538 DDSVRIEAHVSF    549

NCD2: domain 1 of 1, from 572 to 584: score 5.4, E = 1.4
                   *->dagYkysakisRkks<-*
                      +a Y+ys+  ++k++
     T16A1.1   572    EAEYNYSK--TKKHC    584



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