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: hmm1/seq/C06A1.1
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Query: C06A1.1 CE02114 transitional endoplasmic reticulum ATPase homolog 1 (P97 protein) status:Confirmed SW:P54811 protein_id:CAA90050.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
AAA ATPase family associated with various 619.1 9.1e-186 2
cdc48_N Cell division protein 48 (CDC48), N-t 124.6 1.5e-35 1
Parvo_NS1 Parvovirus non-structural protein NS1 24.5 2e-06 2
RNA_helicase RNA helicase 23.7 1.5e-05 2
IstB IstB-like ATP binding protein 11.2 0.033 2
Sigma54_activat Sigma-54 interaction domain 7.8 0.28 2
NB-ARC NB-ARC domain 7.7 0.25 1
SRP54 SRP54-type protein, GTPase domain 7.3 0.54 1
IPT Isopentenyl transferase 7.2 0.5 1
TK_herpes Thymidine kinase from herpesvirus 5.4 2.7 2
SKI Shikimate kinase 5.2 2.6 1
ABC_tran ABC transporter 5.0 2.7 1
ADK Adenylate kinase 4.6 4.7 2
A_amylase_inhib Alpha amylase inhibitor 4.5 2.8 1
Viral_helicase1 Viral (Superfamily 1) RNA helicase 3.4 4.1 1
bac_dnaA Bacterial dnaA protein 2.3 4.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
cdc48_N 1/1 28 114 .. 1 88 [] 124.6 1.5e-35
A_amylase_inhib 1/1 174 182 .. 1 10 [. 4.5 2.8
ADK 1/2 249 257 .. 1 9 [. 2.0 24
SRP54 1/1 242 258 .. 1 17 [. 7.3 0.54
IstB 1/2 247 263 .. 52 68 .. 9.3 0.12
Sigma54_activat 1/2 247 264 .. 25 42 .. 5.2 1.6
SKI 1/1 245 266 .. 1 22 [. 5.2 2.6
RNA_helicase 1/2 247 266 .. 126 145 .. 10.0 0.098
TK_herpes 1/2 251 269 .. 1 19 [. 3.5 8.6
IPT 1/1 244 269 .. 1 26 [. 7.2 0.5
Parvo_NS1 1/2 247 269 .. 172 198 .. 8.7 0.092
AAA 1/2 246 430 .. 1 216 [] 306.0 2.7e-91
ADK 2/2 522 530 .. 1 9 [. 3.9 7.3
Sigma54_activat 2/2 520 537 .. 25 42 .. 2.6 9
IstB 2/2 520 538 .. 52 70 .. 6.0 1.1
Parvo_NS1 2/2 520 538 .. 172 194 .. 16.6 0.00043
RNA_helicase 2/2 520 539 .. 126 145 .. 13.9 0.0077
ABC_tran 1/1 524 540 .. 8 24 .. 5.0 2.7
NB-ARC 1/1 522 540 .. 46 64 .. 7.7 0.25
TK_herpes 2/2 524 543 .. 1 20 [. 1.9 22
bac_dnaA 1/1 520 545 .. 39 64 .. 2.3 4.3
Viral_helicase1 1/1 520 584 .. 1 77 [. 3.4 4.1
AAA 2/2 519 707 .. 1 216 [] 319.3 2.6e-95
Alignments of top-scoring domains:
cdc48_N: domain 1 of 1, from 28 to 114: score 124.6, E = 1.5e-35
*->klrvleAdkcpddgrsiarldpvnmddLqlepGDvieieGkkGktfa
k+++l++d++++d++s++++++++md+L+l++GD+++++Gkk +++
C06A1.1 28 KPNRLIVDQSEQDDNSVIAVSQAKMDELGLFRGDAVILKGKK-RKES 73
fvirasdedigpGiIRidgvqRkNagvsiGDeVtVrpkadv<-*
++i sde+++++++R+++v+R+N+++++GD+V+++p ++
C06A1.1 74 VAIIVSDESCPNEKVRMNRVVRNNLRIRLGDVVSITPAPNL 114
A_amylase_inhib: domain 1 of 1, from 174 to 182: score 4.5, E = 2.8
*->vSEPAPaCVv<-*
EPAPaC+v
C06A1.1 174 -TEPAPACIV 182
ADK: domain 1 of 2, from 249 to 257: score 2.0, E = 24
RF xxxxxxxxx
*->llGpPGaGK<-*
l GpPG GK
C06A1.1 249 LFGPPGTGK 257
SRP54: domain 1 of 1, from 242 to 258: score 7.3, E = 0.54
*->kkpnVillVGlqGsGKT<-*
k+p+ ill+G+ G+GKT
C06A1.1 242 KPPRGILLFGPPGTGKT 258
IstB: domain 1 of 2, from 247 to 263: score 9.3, E = 0.12
*->lvLlGPpGvGKTHLAcA<-*
++L+GPpG+GKT +A A
C06A1.1 247 ILLFGPPGTGKTLIARA 263
Sigma54_activat: domain 1 of 2, from 247 to 264: score 5.2, E = 1.6
*->VLirGESGTGKELlArAI<-*
+L+ G+ GTGK L+ArA+
C06A1.1 247 ILLFGPPGTGKTLIARAV 264
SKI: domain 1 of 1, from 245 to 266: score 5.2, E = 2.6
*->rnifLIGmmGaGKsTvGrlLAk<-*
r i L G++G GK+ ++r++A+
C06A1.1 245 RGILLFGPPGTGKTLIARAVAN 266
RNA_helicase: domain 1 of 2, from 247 to 266: score 10.0, E = 0.098
*->vylhGaPGqGKSllanvlar<-*
++l G+PG+GK+l+a ++a+
C06A1.1 247 ILLFGPPGTGKTLIARAVAN 266
TK_herpes: domain 1 of 2, from 251 to 269: score 3.5, E = 8.6
*->GphGiGKTTTaraLaaass<-*
Gp G+GKT +ara a +++
C06A1.1 251 GPPGTGKTLIARAVANETG 269
IPT: domain 1 of 1, from 244 to 269: score 7.2, E = 0.5
*->mklYLIwGATcTGKTaeAiaLAksTG<-*
++ L++G+ +TGKT A a+A +TG
C06A1.1 244 PRGILLFGPPGTGKTLIARAVANETG 269
[output cut off at A = 10 top alignments]