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/K09A9.5
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Query: K09A9.5 CE11980 locus:gas-1 NADH-ubiquinone oxidoreductase 49KD subunit status:Confirmed SW:Q93873 protein_id:CAB01886.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
complex1_49Kd Respiratory-chain NADH dehydrogenase, 4 594.7 8.5e-214 1
NiFeSe_Hases Nickel-dependent hydrogenase 2.7 2.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
NiFeSe_Hases 1/1 173 193 .. 37 62 .. 2.7 2.5
complex1_49Kd 1/1 212 482 .] 1 275 [] 594.7 8.5e-214
Alignments of top-scoring domains:
NiFeSe_Hases: domain 1 of 1, from 173 to 193: score 2.7, E = 2.5
*->AvddAlGvGLkGIkvPkNArliRnLm<-*
Av+ lG I++P+ A +iR Lm
K09A9.5 173 AVEKLLG-----IDIPTRAKYIRTLM 193
complex1_49Kd: domain 1 of 1, from 212 to 482: score 594.7, E = 8.5e-214
*->DvGAlTPffwiFeEReklydfyEavsGaRmhaAyffriGGVaqDLPl
DvGA+TPffw+FeERekl++f E+vsGaRmha+y++++ GVa DLP
K09A9.5 212 DVGAMTPFFWMFEEREKLFEFSERVSGARMHANYVRPG-GVAWDLPI 257
GwlDdllefcdyflkrvDeyeeLltqNrIfkeRlrGvGivtaedAlnwGl
G++Dd++++++ f+ r+De+e +lt+NrI+k R+ ++G v+a+dAlnwG+
K09A9.5 258 GLMDDIYDWAIKFPERIDELEDMLTENRIWKARTIDIGLVSAADALNWGF 307
sGvmlRgsGiqWDlRKsqPYelYdqfdfdvpvGgknGDCydRyLlRveEM
sGvm+RgsGi+ D+RK+ PY++Y +fdvp+ g+ GDCydRyL+R+eEM
K09A9.5 308 SGVMVRGSGIKQDVRKTEPYDAYADMEFDVPI-GTKGDCYDRYLCRIEEM 356
ReSlkIiqQclnkmpagpgyekveakkltpPkraemkdfiEtlIhHFkly
R+Sl I++Qclnkmpag+ +kv++ k+ pPkraemk+++E+lIhHFk+
K09A9.5 357 RQSLNIVHQCLNKMPAGE--IKVDDHKVVPPKRAEMKENMESLIHHFKFF 404
segfkvpaGesYaavEaPKGElGvYLvsDgstfPyRlkiRaPgFaHLqiL
+egf+vp+G++Y+ +EaPKGE+GvYLv+Dg+ +PyR+ iRaPgFaHL+ +
K09A9.5 405 TEGFQVPPGATYVPIEAPKGEFGVYLVADGTGKPYRCFIRAPGFAHLAAI 454
dhllRGhlLaDlvAiLGsiDiVfGeVDR<-*
+ +l+aD+vA++G++DiVfGeVDR
K09A9.5 455 HDVCYMSLIADIVAVIGTMDIVFGEVDR 482