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/T19D12.4
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Query: T19D12.4 CE17238 status:Partially_confirmed TR:O76836 protein_id:AAC24429.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
vwa von Willebrand factor type A domain 115.6 2.3e-35 1
Rep_trans Replication initiation factor 7.0 0.76 1
Paramecium_SA Paramecium surface antigen domain 5.7 1.2 1
Flp_C Recombinase Flp protein 2.7 8.8 1
Flu_PB1 Influenza RNA-dependent RNA polymerase 0.5 9.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Flp_C 1/1 171 193 .. 229 253 .] 2.7 8.8
vwa 1/1 389 560 .. 1 189 [] 115.6 2.3e-35
Flu_PB1 1/1 546 565 .. 1 23 [. 0.5 9.5
Rep_trans 1/1 655 666 .. 1 12 [. 7.0 0.76
Paramecium_SA 1/1 1005 1020 .. 1 17 [. 5.7 1.2
Alignments of top-scoring domains:
Flp_C: domain 1 of 1, from 171 to 193: score 2.7, E = 8.8
*->LSgYYartpegeiveliaeklidpl<-*
+++Y++ +p+ ++++ ++d+l
T19D12.4 171 VARYCKSNPIT--RDIVLVVDMDDL 193
vwa: domain 1 of 1, from 389 to 560: score 115.6, E = 2.3e-35
*->DivFllDgSgSigeenrFekvkdfvkklveknldigpdgtrvglvqy
D+++++D+S+S+++ + df+kklv ++ g+d+trvg++++
T19D12.4 389 DMIIAFDTSESLSSLI-VPQYVDFAKKLVA-QYKYGNDNTRVGIITF 433
ssdvrtefsLndytskddllaailknlrylgGgTnNtgkALkyalenlfs
ssdv ++ +L+d ++ d+++aai + ++y gG Tn + kA +a +++ +
T19D12.4 434 SSDVVEVRKLTDGNTLDAVNAAI-DTVHYTGGLTN-VTKAQLTAKNLFDT 481
stMlkngraagsRpenapkvlillTDGksndgpdve.aaaalrrk..gii
+ s n++kvl++lTDG ++ ++ ++++aa ++ k+ +i
T19D12.4 482 E----------SNA-NRNKVLFILTDGVPTVDTYTDeVAAGDKLKsiSVI 520
vfavGvdadeeeLr.iasepeseghvfyvedfddlwlqlkdlqeal<-*
f vG ++e+++ ++ +++ +++ +++ l+ ++++++
T19D12.4 521 SFFVGYSSYSDEVKtEL--GKVSEPKYIFGNMTF--LP--EITAQI 560
Flu_PB1: domain 1 of 1, from 546 to 565: score 0.5, E = 9.5
*->MninPyllFLsvPvqsaIsttyP<-*
i+ ++FL ++++I ttyP
T19D12.4 546 --IFGNMTFLP-EITAQILTTYP 565
Rep_trans: domain 1 of 1, from 655 to 666: score 7.0, E = 0.76
*->ariTRlDlAvDd<-*
iTRlDlA+Dd
T19D12.4 655 RGITRLDLAIDD 666
Paramecium_SA: domain 1 of 1, from 1005 to 1020: score 5.7, E = 1.2
*->gtThaeCqaylstsCTv<-*
++ +++C + l+t CT+
T19D12.4 1005 NLLNTICVTALPT-CTT 1020