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/C47A10.1
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Query: C47A10.1 CE15714 locus:pgp-9 multidrug resistance protein (p-glycoprotein) (2 domains) status:Partially_confirmed TR:O45721 protein_id:
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ABC_tran ABC transporter 448.3 6.7e-131 2
ABC_membrane ABC transporter transmembrane region 396.0 3.7e-115 2
SKI Shikimate kinase 20.5 0.0001 2
AIG1 AIG1 family 16.1 0.0029 2
PRK Phosphoribulokinase / Uridine kinase f 11.2 0.037 2
MS_channel Mechanosensitive ion channel 6.1 1.8 1
DUF258 Protein of unknown function, DUF258 5.3 1.6 1
DUF624 Protein of unknown function, DUF624 5.0 7.1 1
APS_kinase Adenylylsulfate kinase 4.9 2.4 2
GTP_EFTU_D2 Elongation factor Tu domain 2 4.6 8.8 2
gntR Bacterial regulatory proteins, gntR fa 4.3 9.6 1
PNPase Polyribonucleotide nucleotidyltransfer 4.2 0.98 1
HR1 Hr1 repeat 4.1 7.3 1
CoaE Dephospho-CoA kinase 3.7 4.5 1
AIRS_C AIR synthase related protein, C-termin 3.6 4.7 2
Rad17 Rad17 cell cycle checkpoint protein 2.9 4.5 2
Topoisomer_I_N Eukaryotic DNA topoisomerase I, DNA bi 2.5 5.2 1
IKI3 IKI3 family 2.5 2.2 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Topoisomer_I_N 1/1 100 112 .. 214 227 .] 2.5 5.2
IKI3 1/1 266 279 .. 1070 1083 .] 2.5 2.2
DUF624 1/1 281 301 .. 57 77 .] 5.0 7.1
GTP_EFTU_D2 1/2 302 322 .. 1 33 [. 4.5 9.7
ABC_membrane 1/2 46 336 .. 1 285 [] 208.4 1.1e-58
MS_channel 1/1 320 354 .. 1 35 [. 6.1 1.8
GTP_EFTU_D2 2/2 400 415 .. 78 96 .] 0.1 1.6e+02
AIRS_C 1/2 409 423 .. 1 22 [. 2.0 14
AIG1 1/2 412 426 .. 1 15 [. 6.4 1.3
APS_kinase 1/2 410 427 .. 1 18 [. 1.1 32
PRK 1/2 413 431 .. 1 19 [. 6.0 1.1
Rad17 1/2 401 431 .. 35 68 .. 1.8 9.1
SKI 1/2 412 431 .. 1 20 [. 9.5 0.16
CoaE 1/1 412 432 .. 1 21 [. 3.7 4.5
ABC_tran 1/2 411 595 .. 1 199 [] 226.7 1.7e-64
HR1 1/1 673 697 .. 1 25 [. 4.1 7.3
gntR 1/1 774 788 .. 1 15 [. 4.3 9.6
ABC_membrane 2/2 706 984 .. 1 285 [] 195.9 6.4e-55
PNPase 1/1 1006 1016 .. 71 81 .. 4.2 0.98
AIRS_C 2/2 1056 1070 .. 1 22 [. 1.6 19
AIG1 2/2 1059 1073 .. 1 15 [. 10.2 0.11
SKI 2/2 1059 1074 .. 1 16 [. 12.7 0.019
DUF258 1/1 1063 1078 .. 33 48 .. 5.3 1.6
Rad17 2/2 1056 1078 .. 46 68 .. 6.8 0.35
PRK 2/2 1062 1079 .. 1 20 [. 6.6 0.75
APS_kinase 2/2 1057 1080 .. 1 24 [. 5.3 1.8
ABC_tran 2/2 1058 1244 .. 1 199 [] 224.2 9.1e-64
Alignments of top-scoring domains:
Topoisomer_I_N: domain 1 of 1, from 100 to 112: score 2.5, E = 5.2
*->kENIngqvFKYVfL<-*
+E I++ + KYV+L
C47A10.1 100 HEVIQNCL-KYVYL 112
IKI3: domain 1 of 1, from 266 to 279: score 2.5, E = 2.2
*->kRYekALshLsecg<-*
kRYe+AL+h ++ g
C47A10.1 266 KRYEDALEHGKKTG 279
DUF624: domain 1 of 1, from 281 to 301: score 5.0, E = 7.1
*->vkaNllGlfflligliLllnL<-*
+k+ l+G+ ++ ++ i+++ +
C47A10.1 281 KKSFLIGAGLASFFVIIYASY 301
GTP_EFTU_D2: domain 1 of 2, from 302 to 322: score 4.5, E = 9.7
*->adVfkikytmDpyrrTSdGrGtVatgRvesGtl<-*
+++f + + +V+ gR+esGt+
C47A10.1 302 CLAFWVGT------------NFVYSGRLESGTV 322
ABC_membrane: domain 1 of 2, from 46 to 336: score 208.4, E = 1.1e-58
*->lliailllilagatalvtfplllgrlldsgfplsdgnddh.......
l +i+++ g+ ++ +++++g + ++ +++ g ++ +++++ +
C47A10.1 46 LAVGIIVSCATGVGLPL-MSIIMGNVSQN--FVTLGTIFLdpnstas 89
..........arsslislailslfavfvliglllqgsfyllagerlgqrl
++ + + +++ l ++ +++ +++ + +lq+s + ++ e+l+ r
C47A10.1 90 ekaaaraefsHEVIQNCLKYV-YLGCGIFAAGFLQASCFMVICEKLSNRF 138
rkrlfrallrqilglfdsffdtnsvGeltsRltnDvekirdglgeklgll
r+++f++++rq++++ d n++G+l ++l + +e++r+g+g+k+gl
C47A10.1 139 RRQFFHSVMRQEIAWYDK----NTSGTLSNKLFDNLERVREGTGDKVGLA 184
fqslatvvgglivmfyyswkLtLillailpllillsavlakklrklsrke
fq +a+++gg++v+f+y w LtLi+++++p ++++ ++lak l ++ ke
C47A10.1 185 FQMMAQFIGGFAVAFTYDWLLTLIMMSLSPFMMICGLFLAKLLATAATKE 234
qkayakagsvaeEslsgirTVkafgrEeyelerfdkaledaekagikkai
+k+ya ag +aeE+l+ irTV+af+++eye++r+++ale +k+gikk +
C47A10.1 235 AKQYAVAGGIAEEVLTSIRTVIAFNGQEYECKRYEDALEHGKKTGIKKSF 284
iagllfgitqlisylsyalalwfGgylvasvisgglsvgtlfaflslgnq
+ g+ + + i+y+sy la+w+G+ + v sg l +gt+ +++ +++
C47A10.1 285 LIGAGLASFFVIIYASYCLAFWVGTNF---VYSGRLESGTVLTVFFSVMM 331
ligpl<-*
+++l
C47A10.1 332 GSMAL 336
MS_channel: domain 1 of 1, from 320 to 354: score 6.1, E = 1.8
*->kkilkyliivvgilivLsllGvnvsaLlAglGilG<-*
+++l++ v++ ++L++ G++++++ ++lG+++
C47A10.1 320 GTVLTVFFSVMMGSMALGQAGQQFATIGTALGAAA 354
GTP_EFTU_D2: domain 2 of 2, from 400 to 415: score 0.1, E = 1.6e+02
*->ivagiglkdaaikrGdvla<-*
i++g+ l+ + G+++a
C47A10.1 400 ILKGVSLDA---QPGQTVA 415
AIRS_C: domain 1 of 2, from 409 to 423: score 2.0, E = 14
*->kpGDvlillgstgkktgrsGlh<-*
+pG+ + l+gs sG +
C47A10.1 409 QPGQTVALVGS-------SGCG 423
AIG1: domain 1 of 2, from 412 to 426: score 6.4, E = 1.3
*->rnIVLVGRTGNGKSA<-*
++ LVG +G+GKS+
C47A10.1 412 QTVALVGSSGCGKST 426
APS_kinase: domain 1 of 2, from 410 to 427: score 1.1, E = 32
*->rGctvWfTGLSGsGKSTI<-*
G tv + G SG GKSTI
C47A10.1 410 PGQTVALVGSSGCGKSTI 427
[output cut off at A = 10 top alignments]