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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm3/seq/F54F3.4
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: F54F3.4 CE19894 dehydrogenase status:Partially_confirmed TR:Q93790 protein_id:CAB01974.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
adh_short short chain dehydrogenase 228.4 1e-64 1
Radical_SAM Radical SAM superfamily 5.1 3.3 1
SWIB BAF60b domain of the SWIB complex 4.4 8.5 1
Dor1 Dor1-like family 3.9 3.9 1
N6_N4_Mtase DNA methylase 2.9 6.5 1
Mtap_PNP Phosphorylase family 2 2.7 7.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Dor1 1/1 38 52 .. 422 436 .] 3.9 3.9
N6_N4_Mtase 1/1 27 58 .. 1 33 [. 2.9 6.5
Mtap_PNP 1/1 43 71 .. 253 281 .] 2.7 7.9
Radical_SAM 1/1 38 82 .. 114 163 .] 5.1 3.3
SWIB 1/1 125 140 .. 66 81 .] 4.4 8.5
adh_short 1/1 9 256 .. 1 271 [] 228.4 1e-64
Alignments of top-scoring domains:
Dor1: domain 1 of 1, from 38 to 52: score 3.9, E = 3.9
*->tvlrrfetnveeaie<-*
++ +r+++nv+eaie
F54F3.4 38 VIGSRNQKNVDEAIE 52
N6_N4_Mtase: domain 1 of 1, from 27 to 58: score 2.9, E = 6.5
*->arrvlkpdGsififggksqknifrfidilqelG<-*
a r+l+++ s +i + qkn++ +i++l+++G
F54F3.4 27 AERLLDEGASVVIGS-RNQKNVDEAIEYLKNKG 58
Mtap_PNP: domain 1 of 1, from 43 to 71: score 2.7, E = 7.9
*->ahaevleaikqlaanelslicaillriAv<-*
+++ v+eai++l+++ l +++i+ iA
F54F3.4 43 NQKNVDEAIEYLKNKGLTKVAGIAGHIAS 71
Radical_SAM: domain 1 of 1, from 38 to 82: score 5.1, E = 3.3
*->iinrkhtfeevleaiellreaGipvvivvdnivglpGendedleell
+i + + + v eaie+l+++G+ v +i g+ +d++ ++l+
F54F3.4 38 VI-GSRNQKNVDEAIEYLKNKGLT---KVAGIAGHIASTDDQ-KKLV 79
ell<-*
++
F54F3.4 80 DFT 82
SWIB: domain 1 of 1, from 125 to 140: score 4.4, E = 8.5
*->fempKlLtkHllkpep<-*
f+m+Kl ++H+ k+
F54F3.4 125 FQMTKLVHPHIAKEGG 140
adh_short: domain 1 of 1, from 9 to 256: score 228.4, E = 1e-64
*->tgKvaLvTGassGIGlaiAkrLakeGakVvvvdrreekaeqvaaelk
+gKva+vT a++GIGlaiA+rL+ eGa Vv++ r++ + +++++ lk
F54F3.4 9 EGKVAIVTAATKGIGLAIAERLLDEGASVVIGSRNQKNVDEAIEYLK 55
aelG.dralfiqlDvtdeeqvkaavaqaverlGdrlDvLVNNAGilgdgp
G ++ +i++ +++ ++ k++v++ ++++G ++++LVNN Gi++ +
F54F3.4 56 N-KGlTKVAGIAGHIASTDDQKKLVDFTLQKFG-KINILVNNHGINPAFG 103
pfeelseedwervidvNltGvflltravlpamdhmlkrkgGrIvNisSva
+ e s++ w+++++vN+++ f++t++v p h+ k +gG I++ +S +
F54F3.4 104 HILEVSDQVWDKLFEVNVKAGFQMTKLVHP---HIAKEGGGAIIFNASYS 150
GlrvgvpglsaYsASKaavigltrsLAlElaphgtgIrVnavaPGgvdTd
+ + pg +aY+ +K ++gltr+LA+ la+++ IrVn++aPG ++T
F54F3.4 151 AY-KSPPGIAAYGVTKTTLVGLTRALAMGLAKDN--IRVNGIAPGVIKT- 196
mtkalrsrlieakkkvrevadiadpeleerits..titplgrygvtpeei
+ + ++ ++ e+ +t+ ++i +lgr+g p+++
F54F3.4 197 KMSQVLWD--------------GGEDAEKELTDiqEI-ALGRLG-VPDDC 230
anavlfLasdgasysvtgqtlnvdggi<-*
a+ v++Lasd++sy +tg+++ ++gg
F54F3.4 231 AGTVAYLASDDSSY-ITGEMIIIAGGV 256