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/T21C12.1f
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Query: T21C12.1f CE28086 locus:unc-49 gamma-aminobutyric-acid receptor status:Confirmed TR:Q9Y0I2 protein_id:CAC42350.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Neur_chan_LBD Neurotransmitter-gated ion-channel li 256.5 3.7e-73 1
Neur_chan_memb Neurotransmitter-gated ion-channel tr 58.7 1.8e-16 2
mRNA_cap_enzyme mRNA capping enzyme, catalytic domain -0.3 8.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Neur_chan_LBD 1/1 34 254 .. 1 246 [] 256.5 3.7e-73
mRNA_cap_enzyme 1/1 248 267 .. 46 66 .. -0.3 8.5
Neur_chan_memb 1/2 261 340 .. 1 80 [. 51.7 2.1e-14
Neur_chan_memb 2/2 401 421 .. 271 291 .] 13.3 0.0045
Alignments of top-scoring domains:
Neur_chan_LBD: domain 1 of 1, from 34 to 254: score 256.5, E = 3.7e-73
*->etrLlddLlentvsgYdkrvRPvnggdvPpvtVsvgltlqqiisVdE
+ +ld+L t +Ydkr+RP +g++ P v+V++ +++++i+ V+E
T21C12.1f 34 LSSVLDRLTNRT--TYDKRLRPRYGEK-P-VDVGITIHVSSISAVSE 76
knqdlttnvwlrqgqWtDpRLaWnpsdplddeddyggikslrlpsddehd
+++d+t++ ++rq +W+DpRLa+ +d ++++ i+sl++ d
T21C12.1f 77 VDMDFTLDFYMRQ-TWQDPRLAFGSLD----LGLSKEIDSLTVGVD---- 117
mldkIWlPDiflyNqttskadgnhdvttpntnvrvypglkdGtVlwsppa
+ld++W+PD+f+ N +k++++h tt+n+++r++ dGtV++s ++
T21C12.1f 118 YLDRLWKPDTFFPN---EKKSFFHLATTHNSFLRIEG---DGTVYTSQRL 161
iykssCpmdltyFPFDqQnCslkFgSwtYngdevdlqwkdd.........
+++++Cpmdl++FP+D+Q+C+l+++S++Y++ e++++w + ++++ ++
T21C12.1f 162 TVTATCPMDLKLFPMDSQHCKLEIESYAYSTAEIEYKWCTSkepncstav 211
..leeidLpdFtengeWdlldvpakrnekpygcyselsgagLnklvYpdi
+ +i+L+ + ++ + + +++ g ys+l+
T21C12.1f 212 kaDANIELSSYKFTKICQKRT----LASTSSGTYSRLR------------ 245
tfyfvlrRkp<-*
++f++ R
T21C12.1f 246 -VSFIFDRDS 254
mRNA_cap_enzyme: domain 1 of 1, from 248 to 267: score -0.3, E = 8.5
*->yliDRdnevylvenlrfPlkl<-*
+++DRd +y+++ ++fP +l
T21C12.1f 248 FIFDRDSGFYFLQ-IFFPASL 267
Neur_chan_memb: domain 1 of 2, from 261 to 340: score 51.7, E = 2.1e-14
*->liiPCvLIsfLswLvFyLPsDaGPeKvtLgIsvLLtlTvFlllirei
+ +P L ++Lsw +F++++D+ P ++ g ++Lt T ++++ + +
T21C12.1f 261 IFFPASLVVVLSWISFWINRDSAPSRTLIGTMTVLTETHLMTGTNRR 307
lPkTSlvvPLigkYllFtMfvvtasieyavvvl<-*
lP++++v++ ++++ +++ v +a+ieya v +
T21C12.1f 308 LPPVAYVKAVDVFLGFCYLLVILALIEYACVAY 340
Neur_chan_memb: domain 2 of 2, from 401 to 421: score 13.3, E = 0.0045
*->IDRlflwiFpivfvlGTlgyf<-*
ID ++++Fp+vf+l++ +
T21C12.1f 401 IDIVSRAAFPLVFILFNTLFW 421