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:            hmm5/seq/Y47D3A.26
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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]


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