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/C50F4.5
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Query: C50F4.5 CE05470 histone H2B status:Confirmed TR:Q27484 protein_id:CAA94740.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
histone Core histone H2A/H2B/H3/H4 188.6 9.8e-53 1
CBFD_NFYB_HMF Histone-like transcription factor (CBF/ 15.7 0.025 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CBFD_NFYB_HMF 1/1 39 99 .. 6 67 .] 15.7 0.025
histone 1/1 9 123 .] 1 117 [] 188.6 9.8e-53
Alignments of top-scoring domains:
CBFD_NFYB_HMF: domain 1 of 1, from 39 to 99: score 15.7, E = 0.025
*->veRImKkaLPgaarvSkDAkellaecveEfisfiaseAveickhekR
+ R +K++ P + vS A ++ +v + + iaseA+++++ +kR
C50F4.5 39 IYRVLKQVHP-DTGVSSKAMSIMNSFVNDVFERIASEASRLAHYNKR 84
KTikaEDIllAlesL<-*
Ti I+ A++
C50F4.5 85 STISSREIQTAVRLI 99
histone: domain 1 of 1, from 9 to 123: score 188.6, E = 9.8e-53
*->agkkgagkk.......kkrsrsrkaglqfyvgRvlkqlhpdtgissr
+g+k+a+k+ ++++++kkr+++rk+++++y++Rvlkq+hpdtg+ss+
C50F4.5 9 KGAKKAAKTvskpkdgKKRKHARKESYSVYIYRVLKQVHPDTGVSSK 55
agaiansyvadvlErlaaEaleLagnakkdtKkkRitpreiqlAvrldle
a++i+ns+v+dv+Er+a Ea++La+++k++t i++reiq+Avrl+l+
C50F4.5 56 AMSIMNSFVNDVFERIASEASRLAHYNKRST----ISSREIQTAVRLILP 101
lelakhAvtegtkaVtpniskrllgkk<-*
+elakhAv+egtkaVt+++s +k
C50F4.5 102 GELAKHAVSEGTKAVTKYTS-----SK 123