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/F37A4.4
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Query:  F37A4.4  CE24953    status:Partially_confirmed SW:P41882 protein_id:AAA50632.2

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
WSN        Domain of unknown function                   106.1    2.9e-28   1
BRCT       BRCA1 C Terminus (BRCT) domain                59.2    8.9e-17   2
ank        Ankyrin repeat                                33.1    1.3e-07   1
RelA_SpoT  Region found in RelA / SpoT proteins           9.1       0.31   1
fusion_gly Fusion glycoprotein F0                         5.3        1.5   1
Mnd1       Mnd1 family                                    5.3          2   1
mce        mce related protein                            4.6        6.1   1
vwa        von Willebrand factor type A domain            3.7        3.1   1
UPF0128    Uncharacterised protein family (UPF0128)       2.9        9.8   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
WSN          1/1      27    95 ..     1    72 []   106.1  2.9e-28
UPF0128      1/1     226   244 ..   206   224 .]     2.9      9.8
vwa          1/1     440   474 ..   151   189 .]     3.7      3.1
Mnd1         1/1     687   696 ..   196   205 .]     5.3        2
fusion_gly   1/1     753   780 ..   489   516 .]     5.3      1.5
mce          1/1     762   795 ..     1    37 [.     4.6      6.1
ank          1/1     856   888 ..     1    33 []    33.1  1.3e-07
RelA_SpoT    1/1     910   925 ..     1    16 [.     9.1     0.31
BRCT         1/2     932  1026 ..     1    99 []    52.2  1.2e-14
BRCT         2/2    1051  1154 ..     1    99 []     6.9     0.83

Alignments of top-scoring domains:
WSN: domain 1 of 1, from 27 to 95: score 106.1, E = 2.9e-28
                   *->skLqtvienlsilaRVtNAIsLqaglingsiksddvIaELLniGtin
                      s+Lq++++ lsil+RVtNAI+Lqa+++++++k+++vI+ELL+   ++
     F37A4.4    27    SQLQQIYDELSILSRVTNAIALQAAALSKTVKIREVITELLK---VD 70

                   psqlselinvdlkkiveglngLkei<-*
                   ++++s+l+++d++++v++l++L+++
     F37A4.4    71 NGNFSNLLSLDPAHLVKNLDELHKK    95

UPF0128: domain 1 of 1, from 226 to 244: score 2.9, E = 9.8
                   *->aLFDvDIAekvdkiLgiLk<-*
                      aL  +DIA+k+   L  +k
     F37A4.4   226    ALNELDIANKIPNMLQKFK    244

vwa: domain 1 of 1, from 440 to 474: score 3.7, E = 3.1
                   *->dadeeeLr.iasepeseghvfyvedfddlwlqlkdlqeal<-*
                      d+ +eeL++++ +  + + v ++++fdd +    ++++++
     F37A4.4   440    DVYFEELEkLTPSN-IKEQVEKITNFDDFL----KIINKF    474

Mnd1: domain 1 of 1, from 687 to 696: score 5.3, E = 2
                   *->GIPEdFdelt<-*
                      GIPE+F +++
     F37A4.4   687    GIPEVFSYID    696

fusion_gly: domain 1 of 1, from 753 to 780: score 5.3, E = 1.5
                   *->svgvsktttsvliiiivlvvllliiill<-*
                      +v+v++ +ts +++++++v+++l++++l
     F37A4.4   753    KVSVQSESTSPIVVVLICVAIVLVLVIL    780

mce: domain 1 of 1, from 762 to 795: score 4.6, E = 6.1
                   *->lglfllvalvvllvvllwfglrslPlprfsgtgpgry<-*
                        ++++++ v++++vl+ ++++   +++f+++g+++y
     F37A4.4   762    SPIVVVLICVAIVLVLVILAIV---GYGFTSNGRNQY    795

ank: domain 1 of 1, from 856 to 888: score 33.1, E = 1.3e-07
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      +GnT+LH+A +rg+ ++v+ L+++GAd    +
     F37A4.4   856    YGNTALHVATRRGYQNLVEILIKHGADRSFLNP    888

RelA_SpoT: domain 1 of 1, from 910 to 925: score 9.1, E = 0.31
                   *->gRvKhiySIyrKmqrk<-*
                       R K+i+SIy+K ++k
     F37A4.4   910    ERFKSIESIYNKYRKK    925

BRCT: domain 1 of 2, from 932 to 1026: score 52.2, E = 1.2e-14
                   *->eklfsgltfvltgtknaaviieamldseer.elkelieklGGkvt.s
                      + +f   +f+++             d ++ +   e+  k+    +++
     F37A4.4   932    PEKFPVSSFHIYI-----------EDRTDDnVTNEFTTKFQSITSdE 967

                   lskktthvivgenagsklekalk....aialgipivteeWlldcikegkl
                    + +tthv+v+++++  le+ +++   +i +g +iv+  W++dc++  kl
     F37A4.4   968 AMITTTHVVVKTTEDGILETDDLnlliWIFHGSIIVRDTWMVDCLRDEKL 1017

                   lpe.dpyll<-*
                   ++ +++yl+
     F37A4.4  1018 IEKdCDYLV    1026

BRCT: domain 2 of 2, from 1051 to 1154: score 6.9, E = 0.83
                   *->eklfsgltfvltgtknaaviieamldseer.elkelieklGGkvt.s
                       ++++g+++ l+             + +   +l ++i+  GG+  +
     F37A4.4  1051    TPFLYGVHVALCM-----------KNCPYLaSLTAIIQGQGGTMLdK 1086

                   l.........skktthvivgenagsklekalk.....aialgipivteeW
                   +++++  +++s+   h  +g+       + +++  ++++++ + + te+
     F37A4.4  1087 FpdkdafnkgSHPYLHKNLGPIFLLHDGTGDLdlyrsDPDKMFTLFTEQQ 1136

                   lldcikegkllpedpyll<-*
                   + d++ ++++   ++ ++
     F37A4.4  1137 FMDLLFKREINKDTNPKI    1154

	[output cut off at A = 10 top alignments]


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