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/Y42G9A.6
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Query:  Y42G9A.6  CE21867    status:Partially_confirmed TR:Q9N4Z3 protein_id:AAF60553.1

Scores for sequence family classification (score includes all domains):
Model     Description                                   Score    E-value  N
--------  -----------                                   -----    ------- ---
ABC_tran  ABC transporter                                36.5      2e-09   1
PRK       Phosphoribulokinase / Uridine kinase family     8.0       0.31   1
MobB      Molybdopterin guanine dinucleotide synthesi     7.8        0.5   1
DUF258    Protein of unknown function, DUF258             7.7       0.32   1
Rad17     Rad17 cell cycle checkpoint protein             7.5       0.23   1
HypB_UreG HypB/UreG nucleotide-binding domain             5.6        2.5   1
ATP-bind  Conserved hypothetical ATP binding protein      5.5        1.3   1
FeoB      Ferrous iron transport protein B                4.6       0.94   1
Pox_A32   Poxvirus A32 protein                            4.0        4.4   1
ras       Ras family                                      3.3        6.6   1

Parsed for domains:
Model     Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------  ------- ----- -----    ----- -----      -----  -------
MobB        1/1      93   109 ..     1    17 [.     7.8      0.5
Pox_A32     1/1      96   109 ..    17    30 ..     4.0      4.4
DUF258      1/1      97   113 ..    33    49 ..     7.7     0.32
ABC_tran    1/1      92   113 ..     1    22 [.    36.5    2e-09
Rad17       1/1      82   114 ..    35    70 ..     7.5     0.23
ras         1/1      96   114 ..     1    21 [.     3.3      6.6
ATP-bind    1/1      94   115 ..     1    22 [.     5.5      1.3
HypB_UreG   1/1      97   115 ..    16    34 ..     5.6      2.5
PRK         1/1      94   115 ..     1    22 [.     8.0     0.31
FeoB        1/1      97   118 ..     1    22 [.     4.6     0.94

Alignments of top-scoring domains:
MobB: domain 1 of 1, from 93 to 109: score 7.8, E = 0.5
                   *->kIvqiVGykdSGKTTLI<-*
                       + +i+G+++ GKTTL+
    Y42G9A.6    93    EVTAIIGPSGAGKTTLL    109

Pox_A32: domain 1 of 1, from 96 to 109: score 4.0, E = 4.4
                   *->aivGgsGSGKTtyL<-*
                      ai+G sG GKTt+L
    Y42G9A.6    96    AIIGPSGAGKTTLL    109

DUF258: domain 1 of 1, from 97 to 113: score 7.7, E = 0.32
                   *->faGqSGVGKSSLiNaLl<-*
                      ++G+SG+GK +L+N+L+
    Y42G9A.6    97    IIGPSGAGKTTLLNVLT    113

ABC_tran: domain 1 of 1, from 92 to 113: score 36.5, E = 2e-09
                   *->GevlalvGpNGaGKSTLLklis<-*
                      Gev+a++Gp+GaGK+TLL++++
    Y42G9A.6    92    GEVTAIIGPSGAGKTTLLNVLT    113

Rad17: domain 1 of 1, from 82 to 114: score 7.5, E = 0.23
                   *->LkavflesqkkkklriLLLtGPsGcGKSTtvkvLaK<-*
                      L+ vf +    +++ +  + GPsG+GK+T + vL K
    Y42G9A.6    82    LDSVFGVA---RPGEVTAIIGPSGAGKTTLLNVLTK    114

ras: domain 1 of 1, from 96 to 114: score 3.3, E = 6.6
                   *->KlVliGDsGVGKSsLliRFtd<-*
                         +iG sG GK++Ll+  t+
    Y42G9A.6    96    --AIIGPSGAGKTTLLNVLTK    114

ATP-bind: domain 1 of 1, from 94 to 115: score 5.5, E = 1.3
                   *->ailViGpAGSGKSTfcgalyqh<-*
                         +iGp G+GK+T+ + l+++
    Y42G9A.6    94    VTAIIGPSGAGKTTLLNVLTKR    115

HypB_UreG: domain 1 of 1, from 97 to 115: score 5.6, E = 2.5
                   *->lgGsvGSGKTtLLerliea<-*
                      + G+ G+GKTtLL  l+++
    Y42G9A.6    97    IIGPSGAGKTTLLNVLTKR    115

PRK: domain 1 of 1, from 94 to 115: score 8.0, E = 0.31
                   *->vIGvaGsSGaGKTtvarrivsi<-*
                      v ++ G+SGaGKTt    ++++
    Y42G9A.6    94    VTAIIGPSGAGKTTLLNVLTKR    115

FeoB: domain 1 of 1, from 97 to 118: score 4.6, E = 0.94
                   *->LvGNPNVGKSTLFNALTGanqk<-*
                       +G+  +GK+TL+N LT+ n++
    Y42G9A.6    97    IIGPSGAGKTTLLNVLTKRNLS    118

	[output cut off at A = 10 top alignments]


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