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/LLC1.3
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Query: LLC1.3 CE31971 dihydrolipoamide dehydrogenase status:Confirmed TR:O17953 protein_id:CAB05249.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
pyr_redox Pyridine nucleotide-disulphide oxidored 353.3 2.6e-102 1
pyr_redox_dim Pyridine nucleotide-disulphide oxidored 219.0 7.1e-62 1
AlaDh_PNT_C Alanine dehydrogenase/PNT, C-terminal d 7.1 0.44 1
TrkA-N TrkA-N domain 5.0 6.7 1
DAO FAD dependent oxidoreductase 4.7 2.4 2
TruB_N TruB family pseudouridylate synthase (N 3.8 7.4 1
GIDA Glucose inhibited division protein A 3.6 3.6 1
NAD_Gly3P_dh NAD-dependent glycerol-3-phosphate dehy 2.9 6.2 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
GIDA 1/1 30 56 .. 1 27 [. 3.6 3.6
DAO 1/2 30 60 .. 1 34 [. 3.1 7
TruB_N 1/1 122 135 .. 1 14 [. 3.8 7.4
NAD_Gly3P_dh 1/1 199 208 .. 1 10 [. 2.9 6.2
DAO 2/2 200 212 .. 1 13 [. 7.7 0.38
AlaDh_PNT_C 1/1 185 229 .. 1 54 [. 7.1 0.44
TrkA-N 1/1 201 229 .. 1 29 [. 5.0 6.7
pyr_redox 1/1 31 350 .. 1 344 [] 353.3 2.6e-102
pyr_redox_dim 1/1 374 483 .. 1 117 [] 219.0 7.1e-62
Alignments of top-scoring domains:
GIDA: domain 1 of 1, from 30 to 56: score 3.6, E = 3.6
*->fDVIVIGGGHAGcEAALAaARmGakTl<-*
D +VIGGG G AA aA +G kT+
LLC1.3 30 ADLVVIGGGPGGYVAAIKAAQLGMKTV 56
DAO: domain 1 of 2, from 30 to 60: score 3.1, E = 7
*->mdvvVIGgGViGlgtAldlalrGqgtlkvalvev<-*
+d+vVIGgG G A +a G +k++ ve+
LLC1.3 30 ADLVVIGGGPGGYVAAIKAAQLG---MKTVCVEK 60
TruB_N: domain 1 of 1, from 122 to 135: score 3.8, E = 7.4
*->akvKriLnteKvGH<-*
+K +++++KvGH
LLC1.3 122 GGIKQLFKANKVGH 135
NAD_Gly3P_dh: domain 1 of 1, from 199 to 208: score 2.9, E = 6.2
*->pkkvtVlGaG<-*
pkk++V+GaG
LLC1.3 199 PKKMVVIGAG 208
DAO: domain 2 of 2, from 200 to 212: score 7.7, E = 0.38
*->mdvvVIGgGViGl<-*
++ vVIG+GViGl
LLC1.3 200 KKMVVIGAGVIGL 212
AlaDh_PNT_C: domain 1 of 1, from 185 to 229: score 7.1, E = 0.44
*->laanvgGrGfllggvpaaGkvpPakVlViGgLGVaGlgAaktAkgLG
+ ++ G + lg+vp+ k +ViG+ GV Gl+ ++ +LG
LLC1.3 185 QIVSSTGA-LSLGQVPK-------KMVVIGA-GVIGLELGSVWQRLG 222
AdVtilD<-*
A+Vt+++
LLC1.3 223 AEVTAVE 229
TrkA-N: domain 1 of 1, from 201 to 229: score 5.0, E = 6.7
*->hfiviGlGrvGrsvakeLleeGhdVvvID<-*
+viG+G G+ + ++ G +V++++
LLC1.3 201 KMVVIGAGVIGLELGSVWQRLGAEVTAVE 229
pyr_redox: domain 1 of 1, from 31 to 350: score 353.3, E = 2.6e-102
*->dvvIIGgGpAGlaAAiraaragflGrkrlkvalvEkepplkrgtlGG
d+v+IGgGp+G++AAi aa+ lG +k+++vEk+ +tlGG
LLC1.3 31 DLVVIGGGPGGYVAAIKAAQ---LG---MKTVCVEKN-----ATLGG 66
TClNvgciprkpllkaalvgeeakd.a.f.i.vggpeldlkpleqykekg
TClNvgcip+k+ll++++ ++a +++ ++ + +l+l++++++k +
LLC1.3 67 TCLNVGCIPSKALLNNSHYLHMAQHdFaArGiDCTASLNLPKMMEAKSNS 116
vevllgtevt.ldkknkvvi................tvlgdgetltydkl
v+ l ++++++l+k+nkv ++ + ++++ ++++g+ et++++++
LLC1.3 117 VKQL-TGGIKqLFKANKVGHvegfativgpntvqakKNDGSVETINARNI 165
iiATGarprippipGvpgflfaglegvfglrtsddAlalrevpkgkrvvV
+iA+G+++ +p g +++ + + +s++Al+l++vp k++vV
LLC1.3 166 LIASGSEVTPFP-----G----ITIDEKQIVSSTGALSLGQVP--KKMVV 204
vGGGyIGlElAaalarlGaeVTvverrdrllprk.ddeiaaallekllee
+G+G+IGlEl++++ rlGaeVT ve + ++ + d+e+++ +++ l ++
LLC1.3 205 IGAGVIGLELGSVWQRLGAEVTAVEFLGHVGGMGiDGEVSKNFQRSLTKQ 254
gGievllgtkgvteiegdgdgglvegvkvkvvktdgerdavedegeelea
g ++ll+tk v+++ ++g+ ++ve + +k++k++ +le+
LLC1.3 255 G-FKFLLNTK-VMGASQNGSTITVEVEGAKDGKKQ-----------TLEC 291
DlVlvAiGrrPntellglegaGiGleldrrGiGgIvVDeylrTsgtrTsv
D++lv++GrrP te+lgl+++ ++ld+r G+++V+e+++ T+v
LLC1.3 292 DTLLVSVGRRPYTEGLGLSNV--QIDLDNR--GRVPVNERFQ-----TKV 332
pgIyAaGDvaggplrlahv<-*
p I+A+GDv++g ++lah+
LLC1.3 333 PSIFAIGDVIEG-PMLAHK 350
pyr_redox_dim: domain 1 of 1, from 374 to 483: score 219.0, E = 7.1e-62
*->vPsvvftdPEiAsVGLTEeeAkekGgdednvkvgkfpFaangrAlay
vPsvv+t+PE+A+VG+ Ee++k++G++ +k+gkfpF an+rA+++
LLC1.3 374 VPSVVYTHPEVAWVGKAEEQLKQEGVA---YKIGKFPFVANSRAKTN 417
gegateGfvKlvadaetgriLGaHivGpnAgEklIqeaalAikmGaTvee
++ eGfvK++ad+ t+r+LG+Hi+GpnAgE +I+ea+lA+++Ga++e
LLC1.3 418 ND--QEGFVKVLADKQTDRMLGVHIIGPNAGE-MIAEATLAMEYGASAE- 463
dlantihaHPTlsEalkeaa<-*
d+a+ +h+HPTlsEa++ea
LLC1.3 464 DVARVCHPHPTLSEAFREAN 483