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: hmm2/seq/F18G5.4
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Query: F18G5.4 CE30959 member of the ligand-gated ionic channels family status:Partially_confirmed TN:AAA81080 protein_id:AAA81080.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Neur_chan_LBD Neurotransmitter-gated ion-channel lig 274.1 1.8e-78 1
Neur_chan_memb Neurotransmitter-gated ion-channel tra 61.5 2.8e-17 1
PNPase Polyribonucleotide nucleotidyltransfer 7.0 0.076 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Neur_chan_LBD 1/1 168 378 .. 1 246 [] 274.1 1.8e-78
Neur_chan_memb 1/1 385 501 .. 1 118 [. 61.5 2.8e-17
PNPase 1/1 608 642 .. 42 79 .. 7.0 0.076
Alignments of top-scoring domains:
Neur_chan_LBD: domain 1 of 1, from 168 to 378: score 274.1, E = 1.8e-78
*->etrLlddLlentvsgYdkrvRPv.nggdvPpvtVsvgltlqqiisVd
e+ L++ Ll++t Y k vRP ++++ P ++V++g+ l+qi+++d
F18G5.4 168 EEALYRSLLDHT--VYEKDVRPCiHHSQ-P-TNVTFGFLLNQIVEMD 210
EknqdlttnvwlrqgqWtDpRLaWnpsdplddeddyggikslrlpsddeh
E+nq ltt wl+ W+DpRL+Wn s ++ ik +++p+
F18G5.4 211 ERNQALTTRSWLNI-NWMDPRLSWNESL-------WSEIKAIYIPHA--- 249
dmldkIWlPDiflyNqttskadgnhdvttpntnvrvypglkdGtVlwspp
+IW+PDi l+N +a ++ + +t v+v++ dG+V+w+
F18G5.4 250 ----RIWKPDIILVN----NAIREYYASLVSTDVMVTS---DGNVTWLFS 288
aiykssCpmdltyFPFDqQnCslkFgSwtYngdevdlqwkddleeidLpd
a ++ssCp+ ++y+PFD+Q+C lkF+Sw+++ e++l +++ ++ dL+
F18G5.4 289 ALFRSSCPIRVRYYPFDDQQCDLKFASWSHDITEINLGLNT--DKGDLSS 336
FtengeWdlldvpakrnekpygcyselsgagLnklvYpditfyfvlrRkp
++ n+e dl+d++a+r+ + ++ ++ +p i++ +++ R+p
F18G5.4 337 YMNNSEFDLVDMTAVREVVTFPSDTNSD--------WPIIVIRIHMHRRP 378
<-*
F18G5.4 - -
Neur_chan_memb: domain 1 of 1, from 385 to 501: score 61.5, E = 2.8e-17
*->liiPCvLIsfLswLvFyLPsDaGPeKvtLgIsvLLtlTvFlllirei
i+PCvLIs++++L F P++ G eK+ I++LL++ v l +i+e+
F18G5.4 385 HIVPCVLISSMAVLGFLMPPETG-EKINMIITTLLSMGVYLQSITES 430
lPkTSlvvPLigkYllFtMfvvtasieyavvvlnvhhRsPkst.Hkmpew
+P+TS vPLig Y + + +v + + v+ ln h+ ++ ++++ p w
F18G5.4 431 IPPTSEGVPLIGMYYVSSLLMVCLATCVNVITLNMHRNGAANQgRHVPAW 480
vrklfLerklPrllfmkrpnes<-*
+k L l+ +++m+ ++++
F18G5.4 481 MQKWIL-GYLATFMRMSIREPD 501
PNPase: domain 1 of 1, from 608 to 642: score 7.0, E = 0.076
*->aaeeegedeedekeikaifkaLekkvVRerILdegpRI<-*
++e+e++ ++ +k ++++L+ +Re ILde RI
F18G5.4 608 LTEFETRF---RRILKRVYRSLQQHEIREEILDERSRI 642