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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm4/seq/T04A8.14
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: T04A8.14 CE13120 locus:emb-5 S1 RNA binding domain status:Partially_confirmed TN:CAA84801 protein_id:CAA84737.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
S1 S1 RNA binding domain 61.1 2.8e-15 2
Glu-tRNAGln Glu-tRNAGln amidotransferase C subunit 4.9 4.9 1
DUF580 Protein of unknown function, DUF580 4.5 2.1 1
FMN_bind FMN-binding domain 4.2 7.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FMN_bind 1/1 345 358 .. 95 108 .] 4.2 7.4
Glu-tRNAGln 1/1 613 637 .. 52 77 .] 4.9 4.9
S1 1/2 1125 1139 .. 1 15 [. 1.4 88
S1 2/2 1180 1252 .. 1 79 [] 59.5 7.4e-15
DUF580 1/1 1266 1292 .. 392 418 .] 4.5 2.1
Alignments of top-scoring domains:
FMN_bind: domain 1 of 1, from 345 to 358: score 4.2, E = 7.4
*->ravvksvkraLgka<-*
+av+ks+k++L+++
T04A8.14 345 KAVIKSIKKVLQFI 358
Glu-tRNAGln: domain 1 of 1, from 613 to 637: score 4.9, E = 4.9
*->evvsslPtaeelLsNapesedGyFkV<-*
++v sl taee+L + +edG++ V
T04A8.14 613 KPVRSL-TAEEFLFYHKAKEDGLVDV 637
S1: domain 1 of 2, from 1125 to 1139: score 1.4, E = 88
*->kleeGdvveGtVtrv<-*
+ +eG++v GtV++v
T04A8.14 1125 EIREGAKVLGTVQSV 1139
S1: domain 2 of 2, from 1180 to 1252: score 59.5, E = 7.4e-15
*->kleeGdvveGtVtrvtklfGafVdlgengveGfvpiSeisrdkeyrv
++ Gd +G + t+ G++V+ + ng++Gf+p + is+ +v
T04A8.14 1180 EHMLGDSRQG-GCPGTP-VGIRVRFD-NGMTGFCPNKNISSS---HV 1220
edpsevlkvGdevkvkvlkvDkergriiLSik<-*
+p +++k+++ ++kvlk+Dker ++ LS+k
T04A8.14 1221 DNPLTRVKINQPYYFKVLKLDKERFSLFLSCK 1252
DUF580: domain 1 of 1, from 1266 to 1292: score 4.5, E = 2.1
*->dgsperpffmskellkilgqkrseqpv<-*
+ ++e+ +++++el+k++++k+ e++
T04A8.14 1266 QYWDEHQYQADLELMKSESKKKTEANT 1292