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: hmm4/seq/T27E9.7
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Query: T27E9.7 CE18971 ABC transporters (2 domains) status:Confirmed TR:Q9XTD9 protein_id:CAB04880.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ABC_tran ABC transporter 258.0 1.2e-73 2
Thymidylate_kin Thymidylate kinase 11.6 0.0032 2
SKI Shikimate kinase 9.4 0.16 2
NB-ARC NB-ARC domain 6.9 0.43 1
SMC_N RecF/RecN/SMC N terminal domain 6.6 0.68 2
AIG1 AIG1 family 6.1 1.5 1
FlaG FlaG protein 5.2 6.4 1
NS3_envE Nonstructural protein NS3/Small envel 4.0 5.4 1
HypB_UreG HypB/UreG nucleotide-binding domain 4.0 6.8 1
SRP54 SRP54-type protein, GTPase domain 3.6 6.4 1
Rad17 Rad17 cell cycle checkpoint protein 3.5 3 1
tRNA_synt_1c_R1 Glutaminyl-tRNA synthetase, non-speci 1.3 9.2 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SKI 1/2 112 123 .. 5 16 .. 3.1 10
SMC_N 1/2 112 127 .. 30 45 .. 5.5 1.4
Thymidylate_kin 1/2 114 130 .. 1 19 [. 6.9 0.14
NB-ARC 1/1 117 132 .. 51 66 .. 6.9 0.43
FlaG 1/1 185 205 .. 92 122 .] 5.2 6.4
ABC_tran 1/2 107 299 .. 1 199 [] 127.6 8.8e-36
tRNA_synt_1c_R1 1/1 355 379 .. 1 25 [. 1.3 9.2
NS3_envE 1/1 379 399 .. 65 85 .] 4.0 5.4
SRP54 1/1 419 434 .. 1 16 [. 3.6 6.4
SMC_N 2/2 425 435 .. 29 39 .. 3.6 4.8
AIG1 1/1 422 436 .. 1 15 [. 6.1 1.5
SKI 2/2 422 437 .. 1 16 [. 7.3 0.65
Thymidylate_kin 2/2 426 441 .. 1 16 [. 4.7 0.86
HypB_UreG 1/1 421 442 .. 1 32 [. 4.0 6.8
Rad17 1/1 426 443 .. 53 70 .. 3.5 3
ABC_tran 2/2 421 587 .. 1 199 [] 130.5 1.3e-36
Alignments of top-scoring domains:
SKI: domain 1 of 2, from 112 to 123: score 3.1, E = 10
*->LIGmmGaGKsTv<-*
LIG+ G+GKsT+
T27E9.7 112 LIGLNGSGKSTI 123
SMC_N: domain 1 of 2, from 112 to 127: score 5.5, E = 1.4
*->IvGPNGSGKSNilDAI<-*
++G NGSGKS i+ AI
T27E9.7 112 LIGLNGSGKSTIIQAI 127
Thymidylate_kin: domain 1 of 2, from 114 to 130: score 6.9, E = 0.14
*->iEGiDGaGKTTqaelLker<-*
G++G+GK+T++++++ +
T27E9.7 114 --GLNGSGKSTIIQAIYNK 130
NB-ARC: domain 1 of 1, from 117 to 132: score 6.9, E = 0.43
*->GvGKTTLAkqiyndes<-*
G+GK+T+ ++iyn+e+
T27E9.7 117 GSGKSTIIQAIYNKEM 132
FlaG: domain 1 of 1, from 185 to 205: score 5.2, E = 6.4
*->EElLelakRlkevEqdatnlgsriGlLfDkr<-*
++l+++++Rl+e+ + L +k+
T27E9.7 185 DKLMDVYERLDEM----------DASLAEKK 205
ABC_tran: domain 1 of 2, from 107 to 299: score 127.6, E = 8.8e-36
*->GevlalvGpNGaGKSTLLklisGllp..pteGtilldGardlsdlsk
G +++l+G NG+GKST++ +i+ +++ p++ + +l r++ ++
T27E9.7 107 GRRYGLIGLNGSGKSTIIQAIYNKEMpiPESVDMYLVS-REMPASE- 151
lkerlerlrknigvvfQdptlfpnpeltvreniafglrls..........
+ l++ + +vr + + ++++ +++++++++
T27E9.7 152 ----KTALQA---------VVD---VDSVRKELEHLAEQLasqtdeesqd 185
.........lglskdeqrdrlkkagaeelLerlglgydhlldrrpgtLSG
+ + ++ ++++ ++++ a e+L+ lg ++ + ++++ +SG
T27E9.7 186 klmdvyerlDEMDASLAEKK-----AAEILHGLGFTK-TMQMKKCKDFSG 229
GqkQRvaiARaLltkpklLlLDEPTagLDpasraqllellrelrqqggTv
G+++R+a+ARaL++kp +LlLDEPT++LD ++ +l+e l ++ +T+
T27E9.7 230 GWRMRIALARALFLKPSVLLLDEPTNHLDLEACVWLEEELAQY---KRTL 276
llitHdldlldrlaDrilvledG<-*
l+++H++d++ +++ i+ l +
T27E9.7 277 LVVSHSQDFMNGVCTNIIHLFQK 299
tRNA_synt_1c_R1: domain 1 of 1, from 355 to 379: score 1.3, E = 9.2
*->sakeeLlaLFsqiGLdekKAkETlk<-*
++ke+ a+ ++ GL ek + ET+k
T27E9.7 355 QSKEKTMAKMIAGGLAEKAVTETVK 379
NS3_envE: domain 1 of 1, from 379 to 399: score 4.0, E = 5.4
*->kqlYkyYneevkPPvLevDDv<-*
kq+Y + e+ PPv+ v v
T27E9.7 379 KQFYFFDAGEIPPPVIMVQHV 399
SRP54: domain 1 of 1, from 419 to 434: score 3.6, E = 6.4
*->kkpnVillVGlqGsGK<-*
+ i+lVG++G+GK
T27E9.7 419 DLDTRIALVGPNGAGK 434
SMC_N: domain 2 of 2, from 425 to 435: score 3.6, E = 4.8
*->aIvGPNGSGKS<-*
a+vGPNG GKS
T27E9.7 425 ALVGPNGAGKS 435
[output cut off at A = 10 top alignments]