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: hmm4/seq/R10E11.1a
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Query: R10E11.1a CE28069 locus:cbp-1 bromodomain status:Partially_confirmed SW:P34545 protein_id:CAA82353.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
zf-TAZ TAZ zinc finger 340.7 1.7e-98 2
KIX KIX domain 192.8 5.2e-54 1
bromodomain Bromodomain 139.5 3.6e-39 1
ZZ Zinc finger, ZZ type 69.1 7.8e-17 1
Adeno_E1B_55K_N Adenovirus E1B protein N-terminus 7.4 1.8 1
CC CC domain 6.2 3.7 1
Herpes_gI Alphaherpesvirus glycoprotein I 4.5 3.1 1
SBP_bac_7 Bacterial extracellular solute-bindin 3.1 7.2 1
zf-NF-X1 Zinc finger 3.0 9.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SBP_bac_7 1/1 271 315 .. 91 136 .. 3.1 7.2
zf-TAZ 1/2 400 493 .. 1 97 [] 199.0 7.3e-56
KIX 1/1 582 662 .. 1 81 [] 192.8 5.2e-54
Herpes_gI 1/1 761 820 .. 202 265 .. 4.5 3.1
bromodomain 1/1 858 947 .. 1 92 [] 139.5 3.6e-39
CC 1/1 959 970 .. 25 36 .] 6.2 3.7
ZZ 1/1 1482 1521 .. 1 46 [] 69.1 7.8e-17
zf-NF-X1 1/1 1588 1595 .. 16 23 .] 3.0 9.9
zf-TAZ 2/2 1538 1617 .. 1 97 [] 148.5 1.2e-40
Adeno_E1B_55K_N 1/1 1698 1713 .. 57 73 .] 7.4 1.8
Alignments of top-scoring domains:
SBP_bac_7: domain 1 of 1, from 271 to 315: score 3.1, E = 7.2
*->ekfvldgefgeaLlksleakGllkgLafwnnGfrqftnnkkPIntP<
++f+++g +g++ +++++G+ g++ +++G+++ +n +PI++P
R10E11.1a 271 RQFMQHGQYGQQRPEFMQQYGRPGGYPMMHQGMMMDSNG-QPIRGP 315
-*
R10E11.1a - -
zf-TAZ: domain 1 of 2, from 400 to 493: score 199.0, E = 7.3e-56
*->PrerryliqqqllllLvHAhkCrarereNgkaavngQParHprCrlp
P++r+ liqqql+llL HAhkC++re+eN+++a+++QP++H++C+lp
R10E11.1a 400 PEKRK-LIQQQLVLLL-HAHKCSQREKENRDFAAKNQPPPHAACTLP 444
nCrkmKkvlrHmknCkkrkdCtcphCksskqLinyHaKnCkesaCpVCiP
+C++mK+vl+Hm++C++++ C+++hC+ss+q+i+ H+KnC++++CpVC+P
R10E11.1a 445 HCSTMKEVLTHMTSCNVGRLCHFAHCASSRQIIA-HWKNCSREDCPVCKP 493
<-*
R10E11.1a - -
KIX: domain 1 of 1, from 582 to 662: score 192.8, E = 5.2e-54
*->lltkdwkeqitrdLRnHlVgKLvkaifPrpdqeamnDeRmkeLiayA
++tk+w++q+t+dLRnHlVgKLvkaifP+p+qeamnD+R+k+LiayA
R10E11.1a 582 DCTKEWHHQVTKDLRNHLVGKLVKAIFPEPNQEAMNDNRLKDLIAYA 628
rkvEkemfEsandrdEYYhLlaekiykiqKeLqe<-*
rkvEkemfEsandr+EYYhLlaekiykiqKeLqe
R10E11.1a 629 RKVEKEMFESANDREEYYHLLAEKIYKIQKELQE 662
Herpes_gI: domain 1 of 1, from 761 to 820: score 4.5, E = 3.1
*->sdvytpaelryvraqtaepctetptPsaTae.petstpqpitptras
s+ ++p+++++++ +t ++++ +pt ++ +++ +stp+pi +++
R10E11.1a 761 SAMLQPKTEPMDDQNTDSLSSRPPTAIG-FGgSSSSTPAPIMNGIVK 806
eeeeeetetragSaralt<-*
+ee+ e+ S+ a++
R10E11.1a 807 KEEDPEE----SSNQAPP 820
bromodomain: domain 1 of 1, from 858 to 947: score 139.5, E = 3.6e-39
*->lnklllkvleeldeqgpralpflfpVlpsklelPDYYeiIkkPMDLk
l k+ll+v+e+ld+++ +a pf+ pV+++ l++PDY+eiIk+PMDL+
R10E11.1a 858 LIKFLLPVWEKLDKSE-DAAPFRVPVDAKLLNIPDYHEIIKRPMDLE 903
TIkkklkngkYissleeFvaDfnLmfsNAktYNepdsevykdAkk<-*
T+ kkl g+Y +++ +F +D++Lm++NA+ YN ++s vyk+++k
R10E11.1a 904 TVHKKLYAGQY-QNAGQFCDDIWLMLDNAWLYNRKNSKVYKYGLK 947
CC: domain 1 of 1, from 959 to 970: score 6.2, E = 3.7
*->VlvvgdrCCaak<-*
V+ ++++CCa+k
R10E11.1a 959 VMKSMGYCCAKK 970
ZZ: domain 1 of 1, from 1482 to 1521: score 69.1, E = 7.8e-17
*->ihkvytCdgCkeapiigvRYhClrCsdYDLCqsCfstGhkagkHkm<
++++ytC++C++ ++++hC++C+d+DLC++C++t ++++H+m
R10E11.1a 1482 KGMEYTCNKCSS----PAVWHCQSCDDFDLCDGCKPT--TQHPHEM 1521
-*
R10E11.1a - -
zf-NF-X1: domain 1 of 1, from 1588 to 1595: score 3.0, E = 9.9
*->GpCppCpq<-*
G Cp+C+q
R10E11.1a 1588 GTCPVCKQ 1595
zf-TAZ: domain 2 of 2, from 1538 to 1617: score 148.5, E = 1.2e-40
*->PrerryliqqqllllLvHAhkCrarereNgkaavngQParHprCrlp
++++ry+++q+++++LvHA++Cr+++ Cr++
R10E11.1a 1538 AGGTRYESIQRCIASLVHACQCRDAN-----------------CRRM 1567
nCrkmKkvlrHmknCkkrkdCtcphCksskqLinyHaKnCkesaCpVCiP
+C+kmK+v++H+k+Ckkr+++tcp+Ck++++L++yHaK+C+++aC+V+++
R10E11.1a 1568 SCHKMKRVVQHTKMCKKRINGTCPVCKQLIALCCYHAKHCTRDACTVPFC 1617
<-*
R10E11.1a - -
Adeno_E1B_55K_N: domain 1 of 1, from 1698 to 1713: score 7.4, E = 1.8
*->agGGagaaaaGgEPeEp<-*
++GG+g +a+ g+P+++
R10E11.1a 1698 HVGGSG-PAGMGQPMNS 1713
[output cut off at A = 10 top alignments]