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/F42G8.12
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Query: F42G8.12 CE17071 locus:isp-1 ubiquinol-cytochrome C reductase status:Confirmed TR:O44512 protein_id:AAB92071.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
UCR_TM Ubiquinol cytochrome reductase transmembra 149.2 2.9e-43 1
Rieske Rieske [2Fe-2S] domain 63.7 9.1e-17 1
Bac_chlorC Bacteriochlorophyll C binding protein 4.3 5.5 1
DUF239 Arabidopsis proteins of unknown function 3.4 8.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Bac_chlorC 1/1 57 67 .. 1 11 [. 4.3 5.5
DUF239 1/1 118 129 .. 1 12 [. 3.4 8.5
UCR_TM 1/1 79 146 .. 1 75 [] 149.2 2.9e-43
Rieske 1/1 175 267 .. 1 111 [] 63.7 9.1e-17
Alignments of top-scoring domains:
Bac_chlorC: domain 1 of 1, from 57 to 67: score 4.3, E = 5.5
*->atrGvFsdilA<-*
+t+GvF++ lA
F42G8.12 57 STGGVFTNGLA 67
DUF239: domain 1 of 1, from 118 to 129: score 3.4, E = 8.5
*->yyGAkanINvWn<-*
yyGA + +++W+
F42G8.12 118 YYGAGGVLSLWA 129
UCR_TM: domain 1 of 1, from 79 to 146: score 149.2, E = 2.9e-43
*->AhTDvPevPDfSeLSSVPLYRRestkdtqkpsRdtdEnRRafPsYLv
AhTDv ++PD+S+ YRR+stk+tq+p+Rdt+++RRa+P++L+
F42G8.12 79 AHTDV-TFPDMSN------YRRDSTKNTQVPARDTEDQRRALPTALY 118
vGaggvlsaaaakeaVqtfiSsmSASAD<-*
+Gaggvls++a+ke+Vqt++S+++++AD
F42G8.12 119 YGAGGVLSLWAGKEVVQTLVSYKAMAAD 146
Rieske: domain 1 of 1, from 175 to 267: score 63.7, E = 9.1e-17
*->vWvpvaheselpealapgdfktvdlnGedpvvvrRdedGevrAfsnv
v+v+++ +e++++ a+ + +++++ +d++v d e+ ++++v
F42G8.12 175 VFVKHRTKAEIAKEKAVPVADLRHPQHDDERVQK---D-EWSVVIGV 217
CtHrGaplseggvgnekkggggvvfeCPyHGwrFdlstGrRaGklvggPa
CtH+G+++ + + g+ CP+HG+++d+s G++++gPa
F42G8.12 218 CTHLGCVPIAD---AGD---YGG-YYCPCHGSHYDAS-----GRIRKGPA 255
prplktypvleevg<-*
p l+++ +++ +
F42G8.12 256 P--LNLHVPAYSFK 267