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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm5/seq/Y47D3A.26
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Y47D3A.26 CE25302 status:Partially_confirmed TR:Q9U2C1 protein_id:CAB57898.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SMC_N RecF/RecN/SMC N terminal domain 177.8 1.7e-49 1
SMC_C SMC family, C-terminal domain 91.4 4.8e-26 3
ABC_tran ABC transporter 17.9 0.0005 2
Ribonuclease_P Ribonuclease P 6.2 3.6 1
OEP Outer membrane efflux protein 5.6 1.6 1
MarR MarR family 5.2 3.9 1
PDEase 3'5'-cyclic nucleotide phosphodiestera 4.7 0.44 1
FAD_Synth Riboflavin kinase / FAD synthetase 3.8 9.9 1
NEAT Iron Transport-associated domain 3.7 7.6 1
ERM Ezrin/radixin/moesin family 3.6 8.3 1
DUF137 Protein of unknown function DUF137 3.2 7.7 1
Dynamitin Dynamitin 1.7 9.7 1
Rota_NS53 Rotavirus RNA-binding Protein 53 (NS53 0.1 9.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ABC_tran 1/2 29 39 .. 5 15 .. 1.3 33
SMC_N 1/1 1 166 [. 1 330 [] 177.8 1.7e-49
DUF137 1/1 194 206 .. 181 193 .] 3.2 7.7
FAD_Synth 1/1 362 378 .. 125 141 .] 3.8 9.9
PDEase 1/1 415 446 .. 229 279 .] 4.7 0.44
ERM 1/1 415 457 .. 222 264 .. 3.6 8.3
SMC_C 1/3 682 715 .. 34 67 .. -1.1 1.4e+02
MarR 1/1 772 808 .. 70 107 .] 5.2 3.9
OEP 1/1 871 908 .. 180 217 .] 5.6 1.6
Dynamitin 1/1 868 910 .. 362 405 .] 1.7 9.7
NEAT 1/1 927 946 .. 129 148 .] 3.7 7.6
Rota_NS53 1/1 969 977 .. 485 493 .] 0.1 9.4
Ribonuclease_P 1/1 1096 1116 .. 100 120 .] 6.2 3.6
SMC_C 2/3 1037 1123 .. 1 90 [. 17.8 0.00035
ABC_tran 2/2 1162 1219 .. 119 172 .. 16.4 0.0014
SMC_C 3/3 1167 1255 .. 120 210 .] 73.0 1.4e-20
Alignments of top-scoring domains:
ABC_tran: domain 1 of 2, from 29 to 39: score 1.3, E = 33
*->alvGpNGaGKS<-*
++vG+NG+GKS
Y47D3A.26 29 VVVGRNGSGKS 39
SMC_N: domain 1 of 1, from 1 to 166: score 177.8, E = 1.7e-49
*->mylkrielegFKSYagktvigpFspgFtaIvGPNGSGKSNilDAIlF
m++k+++++gF+SY++ t + Fsp+ +++vG+NGSGKSN++ AI F
Y47D3A.26 1 MKIKEVRITGFRSYKDNTNVSGFSPRSNVVVGRNGSGKSNFFHAIQF 47
VLGegrsakkLRaerlsdLIhkgsggkppanksAeVtitFdnedkenise
VL++ + +L e++ +L h+++g p + +A V+itFdn+ k
Y47D3A.26 48 VLSD-EY-AHLKEEQRLGLLHESTG--PKVA-HARVEITFDNSEK----- 87
lgqhirdgpldeenpevtItRrvyrlglgdGstSeYyiWknlrlNgkrvt
+ en ev I R+v + ++ ++Yyi ++k v+
Y47D3A.26 88 -------RLMAFENSEVKIVRQVGK-----KK-DQYYI------DNKMVP 118
klkevqelLesagIdiElatLangvskyRayaWCFHWDkELiLleqIswR
+ +ev +l+esag++
Y47D3A.26 119 R-AEVVNLMESAGFSR---------------------------------- 133
aeYeaLapeiETCqlFLPElLtvSFqrGWeKetdYaEvLarnFERDkqLg
Y47D3A.26 - -------------------------------------------------- -
YTqGPqKADLRlRAnGlPVEDvLSRGQLKLknpyfiilQGeyltrekgrh
+npy+i+ QG+
Y47D3A.26 134 ------------------------------SNPYYIVKQGK--------- 144
ClYLvedIasmkPkeRreldeGLlellEEisGt<-*
+ ++a+ + +++ +ll+E++Gt
Y47D3A.26 145 ----INELATSPDAYKL-------KLLREVAGT 166
DUF137: domain 1 of 1, from 194 to 206: score 3.2, E = 7.7
*->lelIaeRLknlel<-*
l++I+eRL+ le
Y47D3A.26 194 LKYIDERLQTLEN 206
FAD_Synth: domain 1 of 1, from 362 to 378: score 3.8, E = 9.9
*->LkkqIakDvetArella<-*
Lk +I D +A+e+la
Y47D3A.26 362 LKTDIRIDESRAKEILA 378
PDEase: domain 1 of 1, from 415 to 446: score 4.7, E = 0.44
*->ePvfklLadvvekGRttseaiDanhLCWvaLDeevRnddiaplldri
e ++k+Ladv + +e n+ i+ + +i
Y47D3A.26 415 ETIQKELADVERE-------------------DEKLNNEIQSISRTI 442
ednR<-*
++nR
Y47D3A.26 443 DENR 446
ERM: domain 1 of 1, from 415 to 457: score 3.6, E = 8.3
*->aqleeelekkeeEaeqlqtelrsaqekeeeaneellevlaapt<-*
++++ el+++e E e+l e++s +++++e + e +++a++t
Y47D3A.26 415 ETIQKELADVEREDEKLNNEIQSISRTIDENRYEMDTFAAKST 457
SMC_C: domain 1 of 3, from 682 to 715: score -1.1, E = 1.4e+02
*->elvekledleeerkkllevieeldkkrleeFmea<-*
el ++++++++e ++l++ + e +k+ +e++ ea
Y47D3A.26 682 ELHTQKDRFTKELAELQKSLAEAEKMVRERTQEA 715
MarR: domain 1 of 1, from 772 to 808: score 5.2, E = 3.9
*->relfleealpkraeaieellanltaeEketLekllakL<-*
rel l +++ +e+ + ++lt++E +t++kl +k+
Y47D3A.26 772 REL-LAQKENFEQEIGSNMSSQLTSDEEQTVKKLRKKV 808
OEP: domain 1 of 1, from 871 to 908: score 5.6, E = 1.6
*->lysAraeladakydleqalaaLaallGggleellklkl<-*
l++A a+l+ + ++e + +La++++++ ++++k k
Y47D3A.26 871 LENANAQLTSLLTRMESTRKQLATAISELQDYETKEKA 908
Dynamitin: domain 1 of 1, from 868 to 910: score 1.7, E = 9.7
*->qqkiekslaqnkelLievqetmkqnLatVeeklakvEarvaaLk<-*
+ k+e+ aq + lL+ ++t kq Lat + l E + +aL+
Y47D3A.26 868 RHKLENANAQLTSLLTRMESTRKQ-LATAISELQDYETKEKALQ 910
[output cut off at A = 10 top alignments]