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/Y62E10A.9
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Query: Y62E10A.9 CE24543 locus:rab-19 status:Confirmed TR:Q9U1W9 protein_id:CAB60605.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ras Ras family 256.9 3.2e-75 1
arf ADP-ribosylation factor family 11.1 0.052 1
SKI Shikimate kinase 7.7 0.51 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SKI 1/1 11 24 .. 1 14 [. 7.7 0.51
arf 1/1 22 87 .. 30 90 .. 11.1 0.052
ras 1/1 12 210 .] 1 198 [] 256.9 3.2e-75
Alignments of top-scoring domains:
SKI: domain 1 of 1, from 11 to 24: score 7.7, E = 0.51
*->rnifLIGmmGaGKs<-*
+i+L+G mG+GK+
Y62E10A.9 11 FKIVLVGDMGVGKT 24
arf: domain 1 of 1, from 22 to 87: score 11.1, E = 0.052
*->GKTTILykLklgeivttiP.TiG..FNvEtveykN..ikFtvWDvGG
GKT +++++ +g +v + +TiG +F+ +t+ + ++++k+++WD GG
Y62E10A.9 22 GKTCVVQRFRNGTFVDRQGtTIGvdFTMKTLVVDGkrVKLQIWDTGG 68
QeslRPlWrnYfpnTdavI<-*
Qe+ R +Y+++ ++++
Y62E10A.9 69 QERFRTITQSYYRSANGIV 87
ras: domain 1 of 1, from 12 to 210: score 256.9, E = 3.2e-75
*->KlVliGDsGVGKSsLliRFtdnkFveeYipTIGvDFytktvevDGkt
K+Vl+GD+GVGK++ + RF +++Fv+ + +TIGvDF kt++vDGk+
Y62E10A.9 12 KIVLVGDMGVGKTCVVQRFRNGTFVDRQGTTIGVDFTMKTLVVDGKR 58
vkLqIWDTAGQERFralrpaYYRgAqGfLLVYDITsrdSFenvkkWleei
vkLqIWDT GQERFr+++ +YYR A+G++L+YDIT ++SF +++W++++
Y62E10A.9 59 VKLQIWDTGGQERFRTITQSYYRSANGIVLCYDITCKQSFGSLQRWIDDV 108
lrhadkdenvpivLVGNKcDLeddedleltegqkRvVsteeGealAkelg
++a +nv+++L+G+KcDLed +R++ +ee+e l + +g
Y62E10A.9 109 SKFAA--PNVVKLLIGTKCDLED----------QRAIEAEEAEMLQRANG 146
AlpFmETSAKtntNVeeaFeelareilkkvse...........vnvnldq
+ +ETSAK n+NV++aF+ela+ ++++ +++ +++++++ + ++++
Y62E10A.9 147 MFAMLETSAKGNVNVDNAFLELATILKRQYDQgvveqgssgtfQLGSGGT 196
pakkkk..skCcil<-*
+a + +++C +
Y62E10A.9 197 TALGSPwqRCCQYT 210