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/C54D1.1
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Query: C54D1.1 CE04268 locus:pgp-10 multidrug-resistance protein status:Partially_confirmed TR:Q18824 protein_id:AAC48149.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ABC_tran ABC transporter 387.6 1.3e-112 2
ABC_membrane ABC transporter transmembrane region 75.8 8.8e-19 2
SKI Shikimate kinase 15.5 0.0029 2
PRK Phosphoribulokinase / Uridine kinase fa 12.3 0.018 2
ras Ras family 9.3 0.11 1
M M protein repeat 9.1 0.94 1
ATP-bind Conserved hypothetical ATP binding prot 8.0 0.23 2
AIG1 AIG1 family 6.2 1.5 1
DUF232 Putative transcriptional regulator 5.7 4.2 1
CoaE Dephospho-CoA kinase 5.5 1.2 3
DNA_pol3_beta DNA polymerase III beta subunit, N-term 5.0 5.8 1
CbiA Cobyrinic acid a,c-diamide synthase 4.6 2.7 1
AAA ATPase family associated with various c 4.2 3.2 1
MobB Molybdopterin guanine dinucleotide synt 3.4 9.4 3
DUF87 Domain of unknown function DUF87 3.2 6.9 1
Pox_A32 Poxvirus A32 protein 3.1 8 1
IstB IstB-like ATP binding protein 3.0 8.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ABC_membrane 1/2 97 216 .. 1 112 [. 11.4 0.093
M 1/1 217 237 .. 1 21 [] 9.1 0.94
Pox_A32 1/1 381 394 .. 16 29 .. 3.1 8
MobB 1/3 381 394 .. 1 16 [. 2.9 13
ras 1/1 380 395 .. 1 16 [. 9.3 0.11
CoaE 1/3 381 398 .. 1 20 [. -0.6 87
PRK 1/2 381 398 .. 1 19 [. 8.8 0.18
DUF87 1/1 381 400 .. 170 189 .. 3.2 6.9
CbiA 1/1 380 400 .. 1 22 [. 4.6 2.7
SKI 1/2 379 403 .. 1 30 [. 6.5 1.1
ATP-bind 1/2 380 406 .. 1 27 [. 6.9 0.51
ABC_tran 1/2 378 562 .. 1 199 [] 206.7 1e-58
DUF232 1/1 586 603 .. 1 18 [. 5.7 4.2
MobB 2/3 822 847 .. 129 154 .] 0.3 74
CoaE 2/3 890 914 .. 164 186 .] 3.6 4.7
ABC_membrane 2/2 718 996 .. 1 285 [] 70.9 2.5e-17
DNA_pol3_beta 1/1 1050 1069 .. 22 42 .. 5.0 5.8
IstB 1/1 1065 1082 .. 46 63 .. 3.0 8.7
ATP-bind 2/2 1070 1083 .. 1 14 [. 1.0 31
AIG1 1/1 1069 1083 .. 1 15 [. 6.2 1.5
AAA 1/1 1070 1084 .. 1 15 [. 4.2 3.2
SKI 2/2 1069 1084 .. 1 16 [. 9.0 0.22
MobB 3/3 1071 1085 .. 1 17 [. 0.0 86
PRK 2/2 1071 1088 .. 1 19 [. 9.1 0.15
CoaE 3/3 1071 1089 .. 1 21 [. 1.7 17
ABC_tran 2/2 1068 1258 .. 1 199 [] 181.2 2.6e-51
Alignments of top-scoring domains:
ABC_membrane: domain 1 of 2, from 97 to 216: score 11.4, E = 0.093
*->lliailllilagatalvtfplllgrlldsgfplsdgnddharsslis
+ +++++++l+ a+ ++ l++g ++++ + +++ l
C54D1.1 97 MAMGLFSALLQSALPPF-VWLIMGNFVSI---SILR----EEGKLGL 135
lails..................lfavfvliglllqgsfyllagerlgqr
++s+ + +++ ++ ++ +++++ ++ ++ ++++ + e+ ++r
C54D1.1 136 KNLTSdypiddqfahsatpafisMLGLSIAMFIAAFCQRIA--WEISSIR 183
lrkrlfrallrqilglfdsffdtnsvGeltsRl<-*
+ r+ +a++r++l ++ s+++ +++G ++l
C54D1.1 184 QVFRIKKAYIRKLLLMDISWLESRQSGHVAAML 216
M: domain 1 of 1, from 217 to 237: score 9.1, E = 0.94
*->eaKKeLEaelqeLeeelqkLe<-*
++ ++L ae+++L+ee +++
C54D1.1 217 QEFEKLSAEHSKLTEERLRSS 237
Pox_A32: domain 1 of 1, from 381 to 394: score 3.1, E = 8
*->MaivGgsGSGKTty<-*
+aivG+sGSGK t+
C54D1.1 381 IAIVGSSGSGKSTL 394
MobB: domain 1 of 3, from 381 to 394: score 2.9, E = 13
*->kIvqiVGykdSGKTTL<-*
++iVG ++SGK TL
C54D1.1 381 --IAIVGSSGSGKSTL 394
ras: domain 1 of 1, from 380 to 395: score 9.3, E = 0.11
*->KlVliGDsGVGKSsLl<-*
K+ ++G sG GKS+L+
C54D1.1 380 KIAIVGSSGSGKSTLT 395
CoaE: domain 1 of 3, from 381 to 398: score -0.6, E = 87
*->lvvGLTGGIGSGKSTvAnlF<-*
+++ G +GSGKST+++l+
C54D1.1 381 --IAIVGSSGSGKSTLTALL 398
PRK: domain 1 of 2, from 381 to 398: score 8.8, E = 0.18
*->vIGvaGsSGaGKTtvarri<-*
I++ GsSG+GK+t ++ +
C54D1.1 381 -IAIVGSSGSGKSTLTALL 398
DUF87: domain 1 of 1, from 381 to 400: score 3.2, E = 6.9
*->fAvLAvTGaGKSNtVaVlir<-*
+A+ + +G+GKS+++a+l+r
C54D1.1 381 IAIVGSSGSGKSTLTALLLR 400
CbiA: domain 1 of 1, from 380 to 400: score 4.6, E = 2.7
*->rlmvaGTgSgvGKTtltagLcr<-*
+ ++G +Sg+GK+tlta L+r
C54D1.1 380 KIAIVG-SSGSGKSTLTALLLR 400
SKI: domain 1 of 2, from 379 to 403: score 6.5, E = 1.1
*->rnifLIGmmGaGKsTvGrlLAkaLgreFvD<-*
++i ++G G+GKsT+ aL ++F+D
C54D1.1 379 EKIAIVGSSGSGKSTL-----TALLLRFYD 403
[output cut off at A = 10 top alignments]