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:            hmm5/seq/Y6D11A.2
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Query:  Y6D11A.2  CE30060    status:Partially_confirmed TR:Q8WTM6 protein_id:AAL32261.1

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N
--------    -----------                                 -----    ------- ---
p34-Arc     Arp2/3 complex, 34kD subunit p34-Arc        483.3   1.9e-141   1
Fe_hyd_lg_C Iron only hydrogenase large subunit, C-te     2.6        1.1   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
Fe_hyd_lg_C   1/1     194   206 ..    19    31 ..     2.6      1.1
p34-Arc       1/1      56   289 ..     1   277 []   483.3 1.9e-141

Alignments of top-scoring domains:
Fe_hyd_lg_C: domain 1 of 1, from 194 to 206: score 2.6, E = 1.1
                   *->qtAPAVRvalGEe<-*
                      qtAPAV+++lGE+
    Y6D11A.2   194    QTAPAVLYSLGEP    206

p34-Arc: domain 1 of 1, from 56 to 289: score 483.3, E = 1.9e-141
                   *->llSvSLkaypsEAmsfellkhGaleLLKFLADHYssvYGsllqekDP
                       lS+SLk+y       el++hGa++LL        +vYG  + +
    Y6D11A.2    56    ILSISLKFYT------ELQQHGADDLLR-------RVYGGHMRST-- 87

                   PEdGYnvtLlinLselpadeeskeslakkisllASLkrnvlaapFekiFq
                   PE+G+nvtL +nL+ lpad      l+  +s    Lkrn++a++Fek+F+
    Y6D11A.2    88 PEQGFNVTLEYNLADLPAD---TTDLVQAASA---LKRNCFASVFEKYFE 131

                   kqeakkeaeerDrEvAanlDkqatsqeLvaInYRddETiylkPqaDrVTV
                   +qea++e+ +r                 ++InYRddET+y++++aDrVTV
    Y6D11A.2   132 FQEAGQEGHKR-----------------AVINYRDDETMYIEAKADRVTV 164

                   vFstiFkDedDvIlGKvFLQEFVdaRRRaaaiqtAPqVlFShrePPLELk
                   +Fst+FkD+dDvI+GKvFLQEF+++R+   a+qtAP Vl+S  ePPLELk
    Y6D11A.2   165 IFSTVFKDADDVIIGKVFLQEFREGRK---ASQTAPAVLYSLGEPPLELK 211

                   gvdgParvgdaniGFVTFVLFPRHfekkkrdntinliqtFRdYLHYHIKc
                   +++  arvgd n G++TFVLFPRH++kk++dnti+li+ FRdYLHYHIKc
    Y6D11A.2   212 DLPE-ARVGD-NVGYITFVLFPRHTNKKTKDNTIDLIHSFRDYLHYHIKC 259

                   sKaYmHsrMRarvssfikVLNRAkPdpent<-*
                   sK Y H+rMRa++ +f+kVLNRA+P+++ +
    Y6D11A.2   260 SKVYLHTRMRAKTTDFLKVLNRARPEVKGE    289



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