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/D2030.2
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Query: D2030.2 CE09079 ATP-dependent CLP protease (CLPX) like status:Confirmed TR:P90788 protein_id:CAA98115.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
AAA ATPase family associated with various 81.3 1.7e-23 1
IstB IstB-like ATP binding protein 16.0 0.0012 1
RNA_helicase RNA helicase 10.4 0.075 1
SRP54 SRP54-type protein, GTPase domain 8.4 0.25 1
zf-BED BED zinc finger 7.3 1.3 1
PHD PHD-finger 6.7 0.56 1
ABC_tran ABC transporter 6.1 1.3 1
SKI Shikimate kinase 6.0 1.6 1
ras Ras family 4.8 2.5 1
AIG1 AIG1 family 3.3 9.2 1
Isoflavone_redu Isoflavone reductase 3.1 5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-BED 1/1 64 83 .. 14 33 .. 7.3 1.3
PHD 1/1 74 104 .. 1 26 [. 6.7 0.56
Isoflavone_redu 1/1 131 141 .. 312 322 .] 3.1 5
AIG1 1/1 258 270 .. 1 13 [. 3.3 9.2
ras 1/1 260 271 .. 1 13 [. 4.8 2.5
SRP54 1/1 256 271 .. 1 17 [. 8.4 0.25
IstB 1/1 259 274 .. 51 66 .. 16.0 0.0012
RNA_helicase 1/1 260 279 .. 126 145 .. 10.4 0.075
SKI 1/1 258 281 .. 1 24 [. 6.0 1.6
ABC_tran 1/1 257 282 .. 1 26 [. 6.1 1.3
AAA 1/1 259 411 .. 1 145 [. 81.3 1.7e-23
Alignments of top-scoring domains:
zf-BED: domain 1 of 1, from 64 to 83: score 7.3, E = 1.3
*->edgkevegkakCkhCgkkls<-*
+ +k+v+ + +C+hC k l+
D2030.2 64 PPNKAVQSFGQCRHCSKPLK 83
PHD: domain 1 of 1, from 74 to 104: score 6.7, E = 0.56
*->yCsvCgkvddd.....aggdllqCDgCdrwf<-*
C+ C+k+ + ++ +++++++ CD+C++ +
D2030.2 74 QCRHCSKPLKPlptltPSNRYIHCDSCNKLY 104
Isoflavone_redu: domain 1 of 1, from 131 to 141: score 3.1, E = 5
*->TTVDEYLdqFV<-*
T + EYLd+FV
D2030.2 131 TQIAEYLDKFV 141
AIG1: domain 1 of 1, from 258 to 270: score 3.3, E = 9.2
*->rnIVLVGRTGNGK<-*
n++LVG +G GK
D2030.2 258 SNVLLVGPSGVGK 270
ras: domain 1 of 1, from 260 to 271: score 4.8, E = 2.5
*->KlVliGDsGVGKS<-*
++l+G sGVGK+
D2030.2 260 -VLLVGPSGVGKT 271
SRP54: domain 1 of 1, from 256 to 271: score 8.4, E = 0.25
*->kkpnVillVGlqGsGKT<-*
+k+n +llVG+ G+GKT
D2030.2 256 EKSN-VLLVGPSGVGKT 271
IstB: domain 1 of 1, from 259 to 274: score 16.0, E = 0.0012
*->NlvLlGPpGvGKTHLA<-*
N++L+GP+GvGKT+L+
D2030.2 259 NVLLVGPSGVGKTFLT 274
RNA_helicase: domain 1 of 1, from 260 to 279: score 10.4, E = 0.075
*->vylhGaPGqGKSllanvlar<-*
v+l G++G+GK++l++ lar
D2030.2 260 VLLVGPSGVGKTFLTQTLAR 279
SKI: domain 1 of 1, from 258 to 281: score 6.0, E = 1.6
*->rnifLIGmmGaGKsTvGrlLAkaL<-*
n+ L+G+ G+GK+ + + LA+ L
D2030.2 258 SNVLLVGPSGVGKTFLTQTLARVL 281
ABC_tran: domain 1 of 1, from 257 to 282: score 6.1, E = 1.3
*->GevlalvGpNGaGKSTLLklisGllp<-*
+ lvGp+G GK+ L ++++ l+
D2030.2 257 KSNVLLVGPSGVGKTFLTQTLARVLD 282
[output cut off at A = 10 top alignments]