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/F30F8.8
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Query:  F30F8.8  CE09819  locus:taf-5 guanine nucleotide-binding protein status:Partially_confirmed TR:O01985 protein_id:CAB05603.1

Scores for sequence family classification (score includes all domains):
Model     Description                                   Score    E-value  N
--------  -----------                                   -----    ------- ---
TFIID_WDA WD40 associated region in TFIID subunit       228.4    1.1e-64   1
WD40      WD domain, G-beta repeat                      111.7    5.4e-30   5
death     Death domain                                    5.9        2.6   1
ShTK      ShTK domain                                     5.3        4.6   1

Parsed for domains:
Model     Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------  ------- ----- -----    ----- -----      -----  -------
TFIID_WDA   1/1      61   203 ..     1   148 [.   228.4  1.1e-64
death       1/1     243   276 ..     1    33 [.     5.9      2.6
WD40        1/5     384   422 ..     1    39 []    37.5  7.2e-09
WD40        2/5     440   460 ..    18    39 .]    11.5     0.18
ShTK        1/1     478   490 ..     1    16 [.     5.3      4.6
WD40        3/5     464   502 ..     1    39 []    38.6  3.6e-09
WD40        4/5     506   544 ..     1    39 []    29.8  1.1e-06
WD40        5/5     564   587 ..    15    39 .]     2.7       56

Alignments of top-scoring domains:
TFIID_WDA: domain 1 of 1, from 61 to 203: score 228.4, E = 1.1e-64
                   *->seaGesvrvsadneendpeaYevayklLrdwiedsLdiYKaELsqLL
                      +eaG+++rv+++n+++++ea++v++++++++++d++d+++aE+sqLL
     F30F8.8    61    REAGPVLRVEGSNGLPPEEAISVEFDTFVQHANDCTDVVQAEFSQLL 107

                   YPiFVhsYLnLvakdhpekAksFferFkGmidlddlhiedirqLsslskp
                   +PiF+hsY++L++k+ +++A++Ff+rFk  i+++++++e+++qLs+++++
     F30F8.8   108 FPIFAHSYIALIEKH-AATARIFFNRFK--IFIPECFSEFVYQLSLIEDA 154

                   ehikeNetallfrenKyrirlSrdtfnlLlrfLqenennggskIislhnq
                   +++++Ne+++++renK+++rlSr+t+++L++++++  ++g+++Ii++h++
     F30F8.8   155 MTLRANEHVHILRENKFLVRLSRPTLKHLESIQTR--VIGVKNIIAKHIC 202

                   h<-*
                   +
     F30F8.8   203 I    203

death: domain 1 of 1, from 243 to 276: score 5.9, E = 2.6
                   *->relekllddp.dlgrdWkrLArkLglseeeIdqi<-*
                      +el++++++++  g+dWk  ++k++  + + d+i
     F30F8.8   243    DELMQNIEKRkTKGKDWKDMGKKMQTHCPQADRI    276

WD40: domain 1 of 5, from 384 to 422: score 37.5, E = 7.2e-09
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                       +    ++gH +pv +v fspd +++l+s+  D+t++lW+
     F30F8.8   384    STTSVRYtGHGGPVFSVNFSPD-RRLLISSAGDRTVRLWS    422

WD40: domain 2 of 5, from 440 to 460: score 11.5, E = 0.18
                   *->fspdsgpylasgSrDgtiklWd<-*
                      f+   g y+a++S+D+t  +W+
     F30F8.8   440    FCSR-GYYFATASADKTAAMWS    460

ShTK: domain 1 of 1, from 478 to 490: score 5.3, E = 4.6
                   *->tCvDyvDpasdCaawa<-*
                      +C    D++++C ++a
     F30F8.8   478    GCI---DYHPNCNYIA    490

WD40: domain 3 of 5, from 464 to 502: score 38.6, E = 3.6e-09
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                        +l+++ +  + v c++++p+ ++y+a gS+D+ +++Wd
     F30F8.8   464    MHPLRIFaDPYGDVGCIDYHPN-CNYIAGGSDDRYVRVWD    502

WD40: domain 4 of 5, from 506 to 544: score 29.8, E = 1.1e-06
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                      g+ +++++gH++++ +v+fsp  g+y++s  + g++ +Wd
     F30F8.8   506    GTRVRIFsGHKASIIAVKFSPC-GRYIVSLDAIGNLMIWD    544

WD40: domain 5 of 5, from 564 to 587: score 2.7, E = 56
                   *->cvafspdsgpylasgSrDgtiklWd<-*
                      ++ fs d g ++a +  + +i l++
     F30F8.8   564    SITFSRD-GGVFAVSHGNSSIQLYS    587



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