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/H06O01.2
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Query: H06O01.2 CE11572 chromodomain-helicase-DNA-biniding protein status:Partially_confirmed TR:O17909 protein_id:CAB07481.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SNF2_N SNF2 family N-terminal domain 410.2 2e-119 1
helicase_C Helicase conserved C-terminal domain 83.2 3.7e-22 1
chromo 'chromo' (CHRromatin Organization MOd 78.0 1.9e-21 2
Peptidase_M16_C Peptidase M16 inactive domain 5.1 3 1
DUF89 Protein of unknown function DUF89 3.7 2.6 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
chromo 1/2 238 259 .. 29 50 .] 39.3 4.7e-10
chromo 2/2 307 354 .. 1 50 [] 39.0 5.5e-10
DUF89 1/1 617 641 .. 401 425 .] 3.7 2.6
SNF2_N 1/1 408 689 .. 1 356 [] 410.2 2e-119
helicase_C 1/1 751 825 .. 1 72 [] 83.2 3.7e-22
Peptidase_M16_C 1/1 832 853 .. 177 197 .] 5.1 3
Alignments of top-scoring domains:
chromo: domain 1 of 2, from 238 to 259: score 39.3, E = 4.7e-10
*->eYlvKWkGysdseNTWEpeenI<-*
+++vKW+G+s+ +NTWE+e ++
H06O01.2 238 QFFVKWTGWSHLHNTWESENSL 259
chromo: domain 2 of 2, from 307 to 354: score 39.0, E = 5.5e-10
*->eeeyvVEkdDPniIldhrvkke...dgaGkleYlvKWkGysdseNTW
ee++ VE+ + +h ++++ dg eYl+KW G+++s++TW
H06O01.2 307 EEYKKVER-----VVAHQTSRDraaDGSMATEYLIKWSGLPYSDCTW 348
EpeenI<-*
E+e+ +
H06O01.2 349 EDEKMV 354
DUF89: domain 1 of 1, from 617 to 641: score 3.7, E = 2.6
*->caLRtkKadVargLgvgvgdkllkk<-*
++LR++K+dV L++++++ l ++
H06O01.2 617 FLLRRVKKDVEKSLPPKTEQILRVD 641
SNF2_N: domain 1 of 1, from 408 to 689: score 410.2, E = 2e-119
*->YQleGvnWLislyknlvkkendscglggILADEMGLGKTlQtIslla
YQleG+nW++ +++ g++ ILADEMGLGKT+Q+Islla
H06O01.2 408 YQLEGLNWMVYAWCK---------GNSSILADEMGLGKTIQSISLLA 445
yllelkpkaekrigpfLvVcPlStldnWlnEfekWapddlnivvyygdgn
l + + +a gp+LvV+PlSt+ W+ Ef +Wap ++n+vvy+gd
H06O01.2 446 SLFHRYDLA----GPYLVVVPLSTMAAWQKEFAQWAP-EMNLVVYMGDVV 490
srdqirkdellrnflkdggr.lkydvlitsYeiirkNkLlkdkdeLkklg
srd+ir +e+ + g +++k + ++t+Yei++k dk++L++
H06O01.2 491 SRDMIRQYEW----FVGGTKkMKINAILTTYEILLK-----DKAFLSS-- 529
inwdylilDEgHHrlKNedSklrkskalnklkhtrnRLlLTGTPlQNnLk
i+w l +DE+ HrlKN +S l +k l +++ +++Ll+TGTPlQN+Lk
H06O01.2 530 IDWAALLVDEA-HRLKNDESLL--YKSLTQFR-FNHKLLITGTPLQNSLK 575
ElwsLlnFlmPgiFgsleeyindgksFdkwfnnpilegrdsavLadasla
Elw+Ll+F+mP +F+ + ++F+ +n ++ g
H06O01.2 576 ELWALLHFIMPEKFDCW-------EEFETAHNESNHKG------------ 606
LrrkkdveeglkllnrLhkilkpflLRRlkkdveksLpppeKteyvlfck
+ +Lhk l pflLRR+kkdveksLpp Kte++l++
H06O01.2 607 -------------ISALHKKLEPFLLRRVKKDVEKSLPP--KTEQILRVD 641
lsklQkelYkkflkgeskdvkaindserreggkeknegksrllnlimqLr
+++ Qk++Yk++l +k++ + + g+k+ ++ ++ nl m+L+
H06O01.2 642 MTAHQKQFYKWIL---TKNYRELSK-----GVKG---SINGFVNLVMELK 680
KicNfHPyLf<-*
K+cN H L
H06O01.2 681 KCCN-HASLT 689
helicase_C: domain 1 of 1, from 751 to 825: score 83.2, E = 3.7e-22
*->gikvarlhGglsqeeReeilekFrngks...kvLvaTdvaarGiDip
++ rl+G++ ++ R+++l+ ++ s++ +L++T+++++Gi++
H06O01.2 751 RFPSQRLDGSMRADLRKQALDHYNAPGStdfAFLLSTRAGGLGINLA 797
dvnlVInydlpwnpesyiQRiGRaGRaG<-*
+++VI++d +wnp++++Q++ Ra+R+G
H06O01.2 798 TADTVIIFDSDWNPQNDLQAMSRAHRIG 825
Peptidase_M16_C: domain 1 of 1, from 832 to 853: score 5.1, E = 3
*->leklaeeG.iteeeleraknql<-*
+ +l+++G++ ee++erak+ l
H06O01.2 832 IYRLVTKGsVEEEIVERAKRKL 853