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/W04H10.3
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Query: W04H10.3 CE30201 locus:nhl-3 zinc finger protein status:Partially_confirmed TR:O44850 protein_id:AAB95013.3
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
NHL NHL repeat 35.7 2.3e-08 3
zf-B_box B-box zinc finger 24.1 0.00024 1
Filamin Filamin/ABP280 repeat 23.3 9.1e-06 2
zf-C3HC4 Zinc finger, C3HC4 type (RING finger) 23.3 2.2e-07 1
Pox_A_type_inc Viral A-type inclusion protein repeat 6.9 3.6 1
FG-GAP FG-GAP repeat 5.4 7.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-C3HC4 1/1 113 161 .. 1 50 [] 23.3 2.2e-07
zf-B_box 1/1 194 238 .. 1 48 [] 24.1 0.00024
Pox_A_type_inc 1/1 334 356 .. 1 23 [] 6.9 3.6
Filamin 1/2 425 443 .. 32 49 .. 1.7 35
Filamin 2/2 470 512 .. 58 100 .] 21.4 3.5e-05
NHL 1/3 529 557 .. 1 29 [] 8.5 1.4
NHL 2/3 608 633 .. 1 29 [] 23.9 5.4e-05
FG-GAP 1/1 662 687 .. 16 46 .] 5.4 7.5
NHL 3/3 750 776 .. 1 29 [] 3.2 44
Alignments of top-scoring domains:
zf-C3HC4: domain 1 of 1, from 113 to 161: score 23.3, E = 2.2e-07
*->CrICleelkepsndfplilpCgHsGslkyfCrsClerWls.....gn
C Cl +++ +++ p +lpC Hs +C +C+++ + ++++ +
W04H10.3 113 CSTCLYTYDGNTRK-PKLLPCSHS-----VCLFCVTQLAElspetQP 153
ttvkCplC<-*
t+ CplC
W04H10.3 154 PTLRCPLC 161
zf-B_box: domain 1 of 1, from 194 to 238: score 24.1, E = 0.00024
*->ekervCpeHgeplslfCedDqallCvvCdlsgeHsanklargHtvvp
+ + C++H l+Ce+++ C +C+ s +nk++ Htvvp
W04H10.3 194 DVVPSCSNHPTDQLLYCETCDLVFCENCQDS---VVNKKCDEHTVVP 237
l<-*
l
W04H10.3 238 L 238
Pox_A_type_inc: domain 1 of 1, from 334 to 356: score 6.9, E = 3.6
*->rEldrlRrrIsdLekqLsdcrrn<-*
El++ + I+++ +qL+d ++
W04H10.3 334 KELESCKMDIRSMARQLKDGNSD 356
Filamin: domain 1 of 2, from 425 to 443: score 1.7, E = 35
*->tVd.dGepkaAGgGgltvt<-*
t+d dG+++++Gg++++v+
W04H10.3 425 TRDvDGKARKTGGDPVEVE 443
Filamin: domain 2 of 2, from 470 to 512: score 21.4, E = 3.5e-05
*->vvevkvtDngDGTytVsYvPtepGdYtvnVkygGqhiPgSPfk<-*
v + v+D +DGTy + t+pGdY+++Vk G ++++SP
W04H10.3 470 VKNIRVVDENDGTYHLFFRLTQPGDYEISVKIFGRPVANSPLA 512
NHL: domain 1 of 3, from 529 to 557: score 8.5, E = 1.4
*->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-*
+ +P+ d+++ r +V Ds+n rv+v+
W04H10.3 529 FKYPTKCWWDEPTKRMFVLDSGNKRVRVL 557
NHL: domain 2 of 3, from 608 to 633: score 23.9, E = 5.4e-05
*->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-*
+++P++vavd s Gr+++aD ++++f
W04H10.3 608 FYQPTDVAVD-SRGRFVIAD--KTKIFIF 633
FG-GAP: domain 1 of 1, from 662 to 687: score 5.4, E = 7.5
*->tDlvvGaPgasggt.ggevyvllggpdgf.v.nt<-*
+D++v gt++ e+ +++g + + ++ n+
W04H10.3 662 DDVIV-------GTtD-ELLLYDGAGKMLrKlNV 687
NHL: domain 3 of 3, from 750 to 776: score 3.2, E = 44
*->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-*
+ P G+ v ++ +V+D+e+++v+ +
W04H10.3 750 FMAPCGIFV--HKNKAFVTDFERNTVRSY 776