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: hmm1/seq/C01H6.5b
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Query: C01H6.5b CE30478 locus:nhr-23 nuclear hormone receptor status:Confirmed TN:CAD30427 protein_id:CAD30427.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
zf-C4 Zinc finger, C4 type (two domains) 182.6 1.3e-53 1
hormone_rec Ligand-binding domain of nuclear hormone 71.4 4.2e-21 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-C4 1/1 126 201 .. 1 77 [] 182.6 1.3e-53
hormone_rec 1/1 360 548 .. 1 203 [] 71.4 4.2e-21
Alignments of top-scoring domains:
zf-C4: domain 1 of 1, from 126 to 201: score 182.6, E = 1.3e-53
*->elCkVCGDkASGyHYGvlTCEGCKGFFrRsiqknlviYsCkrnkdCv
++CkVCGDk+SG HYGv+TCEGCKGFFrRs+ + Y+C+r+k+Cv
C01H6.5b 126 IPCKVCGDKSSGVHYGVITCEGCKGFFRRSQSSIVN-YQCPRQKNCV 171
IdKrnRnrCQyCRLkKCLeVGMskeaVrfg<-*
+d+ nRnrCQyCRLkKC+e GMs++aV+fg
C01H6.5b 172 VDRVNRNRCQYCRLKKCIELGMSRDAVKFG 201
hormone_rec: domain 1 of 1, from 360 to 548: score 71.4, E = 4.2e-21
*->frqlllivewaKslPfFkeLsleDQiiLLkhswlelllLrlayrsyk
+++i+e+aKs+++F++L++e+Qi LLk+s++el l+ a++++
C01H6.5b 360 NPLIQAIIEFAKSIDGFMNLPQETQIQLLKGSVFELSLVFAAMYYNV 406
ekkataDgsdtllfpdGtdidrdsl...gsselirrifelliklrvnvla
+ + + + ++ + ++ i e ++l+
C01H6.5b 407 DAQ---------AVCGERYSVPFACliaEDDAEMQLIVEVNNTLQ----- 442
plieLkldeeEyalLkAIvLfnP...sdvpgLsesarelveklqekylsa
+++L+ ++ E+alL A +++ + ++s g+ + a + e++ +a
C01H6.5b 443 EIVHLQPHQSELALLAAGLILEQvssSHGIGILDTA---TIATAETLKNA 489
LlqycllnypdslssdgpsRFakLLlllpvlrslssdlkehlfflkrlfn
L+q ++ + + + + ++ + + +r+++++++e l +++ +
C01H6.5b 490 LYQSVMPRIG-----CMEDTIHRIQDVETRIRQTARLHQEALQNFRMSDP 534
lpkvpp..Llkell<-*
+ + + L+kel+
C01H6.5b 535 TSSEKLpaLYKELF 548