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:            hmm4/seq/T05A12.4
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Query:  T05A12.4  CE26384   helicase status:Partially_confirmed TR:Q9GYK7 protein_id:AAF98590.1

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
SNF2_N     SNF2 family N-terminal domain                 85.2    1.6e-22   1
helicase_C Helicase conserved C-terminal domain          36.2    8.8e-09   1
zf-C3HC4   Zinc finger, C3HC4 type (RING finger)         16.3    6.9e-05   1
DUF683     Protein of unknown function (DUF683)          11.3       0.12   1
PHD        PHD-finger                                     4.9        2.2   1
HgmA       homogentisate 1,2-dioxygenase                  1.8        8.8   1
HSP70      Hsp70 protein                                  1.1        9.3   1
DUF163     Uncharacterized ACR, COG1576                   0.0        9.7   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
HgmA         1/1      89   103 ..   460   474 .]     1.8      8.8
DUF163       1/1     238   244 ..   157   163 .]     0.0      9.7
PHD          1/1     474   486 ..    39    51 .]     4.9      2.2
SNF2_N       1/1     316   650 ..     1   223 [.    85.2  1.6e-22
DUF683       1/1    1073  1101 ..    39    67 .]    11.3     0.12
HSP70        1/1    1087  1108 ..   599   620 .]     1.1      9.3
zf-C3HC4     1/1    1334  1380 ..     1    50 []    16.3  6.9e-05
helicase_C   1/1    1478  1525 ..    25    72 .]    36.2  8.8e-09

Alignments of top-scoring domains:
HgmA: domain 1 of 1, from 89 to 103: score 1.8, E = 8.8
                   *->qddYdkcWqgLkshf<-*
                      +++Y++ W +L++++
    T05A12.4    89    DEEYIETWKDLPKNR    103

DUF163: domain 1 of 1, from 238 to 244: score 0.0, E = 9.7
                   *->irghPYH<-*
                      + +h+YH
    T05A12.4   238    TMKHKYH    244

PHD: domain 1 of 1, from 474 to 486: score 4.9, E = 2.2
                   *->pegkWlCpeCtpk<-*
                      +++k++C +Ct++
    T05A12.4   474    KNEKFQCSKCTSE    486

SNF2_N: domain 1 of 1, from 316 to 650: score 85.2, E = 1.6e-22
                   *->YQleGvnWLislyknlvk.......................kendsc
                      YQ++ v+W+  ++ n   +++++ +   ++++  + +++++ e+
    T05A12.4   316    YQKDTVRWMLYRELN--HepdgniewmiksekymtieerkdIEKRFT 360

                   glggILADEMGLGKTlQtIsllayllelkpkae.................
                     ggILADEMGLGKT+Q+ sl+a++ + ++ +  +++++ ++ +++++++
    T05A12.4   361 LKGGILADEMGLGKTIQALSLIATNRKHSKVEIydesgevetvnrdesks 410

                   ..................................................
                   ++++  ++ +  +++  + ++ ++++ + + + ++  ++++   ++ ++
    T05A12.4   411 tnssiaqqiklaessyaemkgarqnqadirynlnsfcdgetilcsncsqm 460

                   .............................k.rigpfLvVcPlStldnWln
                    + +  + + ++ ++++ + ++ ++++++ +  g +L++ P+S++ +W
    T05A12.4   461 csakicgwdfdkfknekfqcskctsesenRrAVGTTLIILPESLIFQWFT 510

                   EfekWapddlnivvyygdgnsrdqirkdellrnflkdggrlkydvlitsY
                   E+ k+++d++++ +y+g  +          l++  +d     ydv++t+Y
    T05A12.4   511 EISKHCSDNIKVMFYFGIRKHG-------YLQPCEMDS----YDVILTTY 549

                   eiirkNkLl...................kdkdeLkklginwdylilDEgH
                   +++r+   ++ +++++++++ ++++++    ++L++  +++ ++i+DE
    T05A12.4   550 DTLRN--EMsfseekgpprnlrnesktlNLTSSLMH--VEFWRIIVDES- 594

                   HrlKNe..dSklrkskalnklkhtrnRLlLTGTPlQNnLkElwsLlnFlm
                     + +++  S+l  ++ l+kl  + n ++ TGTPl  +++  + L+nFl+
    T05A12.4   595 -QVLPHgvSSQL--TRMLMKLH-AENWWCVTGTPLVKSIAGIYPLFNFLN 640

                   PgiFgsleeyindgksF<-*
                     +Fgs+       + F
    T05A12.4   641 LFPFGSP-------QFF    650

DUF683: domain 1 of 1, from 1073 to 1101: score 11.3, E = 0.12
                   *->eildvArkTydafaeLdeakaeLaalEaa<-*
                      +++dv  kT d f+ +de+++eL+ +++
    T05A12.4  1073    SLPDVMSKTLDHFKKIDEKRKELDQKANK    1101

HSP70: domain 1 of 1, from 1087 to 1108: score 1.1, E = 9.3
                   *->eikakteeLqkvvqkigekmyq<-*
                      +i +k++eL++  +k++e +++
    T05A12.4  1087    KIDEKRKELDQKANKLVEFIMK    1108

zf-C3HC4: domain 1 of 1, from 1334 to 1380: score 16.3, E = 6.9e-05
                   *->CrICleelkepsndfplilpCgHsGslkyfCrsClerWls...gntt
                      C+IC+    +      ++  CgH+      C+ C e++   +++  +
    T05A12.4  1334    CPICCAS-IDCF----MVFTCGHR-----ICQNCFEKMRAlqrRAGS 1370

                   ....vkCplC<-*
                    ++ v+Cp C
    T05A12.4  1371 aedvVACPTC    1380

helicase_C: domain 1 of 1, from 1478 to 1525: score 36.2, E = 8.8e-09
                   *->ngkskvLvaTdvaarGiDipdvnlVInydlpwnpesyiQRiGRaGRa
                      +++ ++L++ ++ a G++ +++n++I++d+p   +++ Q+iGR+ R+
    T05A12.4  1478    EDTKVLLCSLSLCANGLNMTGANHIIFLDPPHLQSVLNQAIGRINRF 1524

                   G<-*
                   G
    T05A12.4  1525 G    1525



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