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: hmm3/seq/K03A1.2
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Query: K03A1.2 CE30088 LRR (leucine-rich repeats)\; FSHR (follicle stimulating hormone receptor) status:Partially_confirmed TR:Q21164 protei
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
LRR Leucine Rich Repeat 95.8 2.6e-25 9
LRRCT Leucine rich repeat C-terminal domain 43.7 2.2e-13 1
FlaG_arch Archaeal flagellar protein G 5.9 1.5 1
cytochrome_c Cytochrome c 3.7 7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
LRR 1/9 205 228 .. 1 25 [] 10.0 0.56
LRR 2/9 229 252 .. 1 25 [] 17.2 0.0051
FlaG_arch 1/1 258 271 .. 142 155 .. 5.9 1.5
LRR 3/9 254 277 .. 1 25 [] 14.2 0.036
LRR 4/9 278 290 .. 1 13 [. 4.5 21
LRR 5/9 302 325 .. 1 25 [] 21.7 0.00027
LRR 6/9 326 348 .. 1 25 [] 13.1 0.075
cytochrome_c 1/1 338 351 .. 103 116 .] 3.7 7
LRR 7/9 349 372 .. 1 25 [] 8.2 1.9
LRR 8/9 398 422 .. 1 25 [] 12.4 0.12
LRR 9/9 431 450 .. 1 25 [] 4.1 27
LRRCT 1/1 463 511 .. 1 54 [] 43.7 2.2e-13
Alignments of top-scoring domains:
LRR: domain 1 of 9, from 205 to 228: score 10.0, E = 0.56
*->nLreLdLsgNnltgslppdafsgLt<-*
+ Ld+s+N+++ +++d+f+ +t
K03A1.2 205 FVSILDVSYNEIR-FIDNDVFKPFT 228
LRR: domain 2 of 9, from 229 to 252: score 17.2, E = 0.0051
*->nLreLdLsgNnltgslppdafsgLt<-*
nL+ L+Ls+N l+ ++ d+f+ +
K03A1.2 229 NLTKLYLSHNVLQ-TVKKDVFDAAK 252
FlaG_arch: domain 1 of 1, from 258 to 271: score 5.9, E = 1.5
*->LDPGYhrIkVvlet<-*
LD GY+rIkVv+++
K03A1.2 258 LDLGYNRIKVVSDN 271
LRR: domain 3 of 9, from 254 to 277: score 14.2, E = 0.036
*->nLreLdLsgNnltgslppdafsgLt<-*
+L++LdL +N+++ +++++f+ L+
K03A1.2 254 TLHRLDLGYNRIK-VVSDNSFDTLS 277
LRR: domain 4 of 9, from 278 to 290: score 4.5, E = 21
*->nLreLdLsgNnlt<-*
+L++L+L+gN+++
K03A1.2 278 KLKVLSLDGNPIK 290
LRR: domain 5 of 9, from 302 to 325: score 21.7, E = 0.00027
*->nLreLdLsgNnltgslppdafsgLt<-*
+L+eL+L+++n++ lp+d+f+ L+
K03A1.2 302 SLEELSLDNCNIE-NLPADIFEYLP 325
LRR: domain 6 of 9, from 326 to 348: score 13.1, E = 0.075
*->nLreLdLsgNnltgslppdafsgLt<-*
+L L+L+ N+l+ ++p+ + ++L+
K03A1.2 326 KLVKLSLRENPLE-EIPA-VVAHLK 348
cytochrome_c: domain 1 of 1, from 338 to 351: score 3.7, E = 7
*->ediadlaaYlkslk<-*
e+i +++a+lkslk
K03A1.2 338 EEIPAVVAHLKSLK 351
LRR: domain 7 of 9, from 349 to 372: score 8.2, E = 1.9
*->nLreLdLsgNnltgslppdafsgLt<-*
+L+ +dLs +nlt ++ ++af+g +
K03A1.2 349 SLKDIDLSVTNLT-EIRDHAFAGDS 372
LRR: domain 8 of 9, from 398 to 422: score 12.4, E = 0.12
*->nLreLdLsgN.nltgslppdafsgLt<-*
+L++L L++N+ l+ +l p+af+ +
K03A1.2 398 QLKTLILNDNkYLQ-ELHPNAFGYIK 422
[output cut off at A = 10 top alignments]