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/F38A6.2
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Query: F38A6.2 CE15999 locus:elp-1 WD domain, G-beta repeat status:Partially_confirmed SW:O45487 protein_id:CAB07379.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
HELP HELP motif 164.0 2.9e-46 1
WD40 WD domain, G-beta repeat 73.2 5.1e-19 8
Big_2 Bacterial Ig-like domain (group 2) 4.5 7 1
Pneumo_NS1 Pneumovirus NS1 protein 4.1 5.5 1
Glyco_hydro_79n Glycosyl hydrolase family 79, N-termi 2.0 3.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
HELP 1/1 243 319 .. 1 77 [] 164.0 2.9e-46
WD40 1/8 322 350 .. 1 29 [. 11.7 0.16
WD40 2/8 396 424 .. 1 27 [. 2.1 85
Pneumo_NS1 1/1 390 437 .. 89 136 .] 4.1 5.5
WD40 3/8 489 528 .. 1 39 [] 14.4 0.028
WD40 4/8 533 570 .. 1 39 [] 17.4 0.0037
WD40 5/8 638 655 .. 22 39 .] 9.2 0.8
Big_2 1/1 706 727 .. 66 88 .] 4.5 7
WD40 6/8 700 738 .. 1 39 [] 13.3 0.054
WD40 7/8 809 844 .. 1 39 [] 3.6 32
Glyco_hydro_79n 1/1 835 850 .. 1 19 [. 2.0 3.8
WD40 8/8 851 889 .. 1 39 [] 3.8 28
Alignments of top-scoring domains:
HELP: domain 1 of 1, from 243 to 319: score 164.0, E = 2.9e-46
*->eeGevkmflRGrpvtmyiPsdvenydleadkdlPdkklkLewVYGYR
++G++++f++G++v++++P+++en+d+++d+d+P++k++L++VY+YR
F38A6.2 243 GSGHLPIFIGGKTVQVPVPTGYENMDPTMDQDPPTMKVTLKHVYSYR 289
GkDcRaNlylLPtGEivYFvAavvVLynve<-*
GkD+R+N+++LPtGE+v+F+A++vVL+n++
F38A6.2 290 GKDVRSNIEMLPTGELVFFSANLVVLMNIT 319
WD40: domain 1 of 8, from 322 to 350: score 11.7, E = 0.16
*->geclatl.gHtspvtcvafspdsgpylasg<-*
+++++gHt v c+ +p+ ++asg
F38A6.2 322 DRSQRIYhGHTCDVKCITLHPN-KILVASG 350
WD40: domain 2 of 8, from 396 to 424: score 2.1, E = 85
*->geclatl.gHtspvtcvafspd.sgpyla<-*
+ l +l+g +++++ vafs +sg++la
F38A6.2 396 LTTLMVLnGFEKGICHVAFSKTdSGSLLA 424
Pneumo_NS1: domain 1 of 1, from 390 to 437: score 4.1, E = 5.5
*->iWElmELtHCsqtnGLlDDnCEikFsKkLsDselakYsnqLseLLGl
iW+ + Lt + nG C + FsK s s la L L+ +
F38A6.2 390 IWDTIKLTTLMVLNGFEKGICHVAFSKTDSGSLLAVVDDSLKHLMSV 436
d<-*
F38A6.2 437 W 437
WD40: domain 3 of 8, from 489 to 528: score 14.4, E = 0.028
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ +at++g +p t ++ + + ++++g ++gti +Wd
F38A6.2 489 VKTVATFeGRDKPKTVLSMCFGENDQVVTGDSNGTISIWD 528
WD40: domain 4 of 8, from 533 to 570: score 17.4, E = 0.0037
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
++ ++ ++ H ++v+++ + + ++sg+ D+ + Wd
F38A6.2 533 KTTKQAHsVHPGGVYSLTLAKS--GKILSGGKDRMVSEWD 570
WD40: domain 5 of 8, from 638 to 655: score 9.2, E = 0.8
*->sgpylasgSrDgtiklWd<-*
s+++l+++S gt+++W+
F38A6.2 638 SSNQLITSSQCGTLRIWN 655
Big_2: domain 1 of 1, from 706 to 727: score 4.5, E = 7
*->lakGtatItatsgdgnssatvtv<-*
+++Gta Ita+ +s+at+ v
F38A6.2 706 KKEGTAPITAVKFA-PSGATFAV 727
WD40: domain 6 of 8, from 700 to 738: score 13.3, E = 0.054
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ +++ + t+p+t+v+f+p+ g ++a + D + ++
F38A6.2 700 QQTIQEKkEGTAPITAVKFAPS-GATFAVATKDPHLTIYR 738
WD40: domain 7 of 8, from 809 to 844: score 3.6, E = 32
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ l ++ + vt+va + d + a+g ++gti++++
F38A6.2 809 ETALVAHsSN-GQVTAVAQCED---ISACGMENGTIRIYK 844
[output cut off at A = 10 top alignments]