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:            hmm2/seq/F22E12.4a
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Query:  F22E12.4a  CE27755  locus:egl-9  status:Confirmed TR:O45918 protein_id:CAA94893.2

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
zf-MYND        MYND finger                               72.6    9.6e-23   1
2OG-FeII_Oxy   2OG-Fe(II) oxygenase superfamily          46.5    9.8e-12   1
zf-TRAF        TRAF-type zinc finger                      4.7        4.2   1
Ribosomal_L24e Ribosomal protein L24e                     3.9        9.8   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
zf-TRAF          1/1      39    52 ..    51    68 .]     4.7      4.2
zf-MYND          1/1      39    79 ..     1    43 []    72.6  9.6e-23
Ribosomal_L24e   1/1     476   485 ..    13    22 ..     3.9      9.8
2OG-FeII_Oxy     1/1     468   566 ..     1   121 []    46.5  9.8e-12

Alignments of top-scoring domains:
zf-TRAF: domain 1 of 1, from 39 to 52: score 4.7, E = 4.2
                   *->CpFkeyGCkvdmkrenLQ<-*
                      C++    C  +++ ++LQ
   F22E12.4a    39    CTY----CGSSCTSSQLQ    52

zf-MYND: domain 1 of 1, from 39 to 79: score 72.6, E = 9.6e-23
                   *->CanCgkeatksrqLkkCsrCknarYCSkeCQrkdWllgHkreC<-*
                      C++Cg ++t+  qL++C +C +++YCSke+Q++dWl +Hk++C
   F22E12.4a    39    CTYCGSSCTS-SQLQTCLFCGTVAYCSKEHQQLDWL-THKMIC    79

Ribosomal_L24e: domain 1 of 1, from 476 to 485: score 3.9, E = 9.8
                   *->IYPGkGimFV<-*
                      IYPG G+++V
   F22E12.4a   476    IYPGNGTRYV    485

2OG-FeII_Oxy: domain 1 of 1, from 468 to 566: score 46.5, E = 9.8e-12
                   *->naeslrvnyYppvPcpqelaskktsspdlglglgpHtDde....nri
                        +   ++ Yp                ++g ++  H+D++ ++++ i
   F22E12.4a   468    GRSRAMLAIYP----------------GNGTRYVKHVDNPvkdgRCI 498

                   lTillqlsdvdekdggggLqfpkdggwidvppgPgalvvniGdllqvlsn
                    Ti ++  ++d++ +gg+L+++++ +  + +++P a+++ ++++
   F22E12.4a   499 TTIYYCNENWDMATDGGTLRLYPETSMTPMDIDPRADRLVFFWSD----- 543

                   GryksvlHrVlpntgegeRiSiafflrp<-*
                      ++++H+V+p+   ++R++i+ +++
   F22E12.4a   544 ---RRNPHEVMPVF--RHRFAITIWYMD    566



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