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:            hmm3/seq/F45E4.3a
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Query:  F45E4.3a  CE24980    status:Partially_confirmed TR:Q9BI66 protein_id:AAK29821.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
C2       C2 domain                                       88.7    3.7e-24   1
RseA_C   Anti sigma-E protein RseA, C-terminal domain     6.3        4.2   2
ferritin Ferritin-like domain                             5.3        2.9   1
PDZ      PDZ domain (Also known as DHR or GLGF)           5.1          6   1
Ocnus    Janus/Ocnus family (Ocnus)                       4.8        6.5   1
MyTH4    MyTH4 domain                                     4.7          6   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
MyTH4      1/1     212   227 ..   103   118 .]     4.7        6
RseA_C     1/2     494   512 ..    49    67 .]     1.4       96
ferritin   1/1     662   682 ..     1    22 [.     5.3      2.9
RseA_C     2/2     700   712 ..     1    13 [.     4.1       17
Ocnus      1/1     878   891 ..   101   115 .]     4.8      6.5
PDZ        1/1     882   969 ..     1    84 []     5.1        6
C2         1/1    1039  1128 ..     1    88 []    88.7  3.7e-24

Alignments of top-scoring domains:
MyTH4: domain 1 of 1, from 212 to 227: score 4.7, E = 6
                   *->GsRkypPsrlEieAik<-*
                      ++Rk+ + ++EieA++
    F45E4.3a   212    IQRKQRLEATEIEANQ    227

RseA_C: domain 1 of 2, from 494 to 512: score 1.4, E = 96
                   *->elqlrrwsesrlpqylrqh<-*
                      ++ ++ +s+ r+ +y +qh
    F45E4.3a   494    DYPRGTRSDVRDFTYRQQH    512

ferritin: domain 1 of 1, from 662 to 682: score 5.3, E = 2.9
                   *->eaaLNeqlnlElyAsylYlsma<-*
                      + +L +q+n+ ++ s++Y++++
    F45E4.3a   662    RSRLVDQMNQGYN-SNQYHHHS    682

RseA_C: domain 2 of 2, from 700 to 712: score 4.1, E = 17
                   *->pelPvlqTlPfnG<-*
                      ++l+++q +P+ +
    F45E4.3a   700    NQLAQQQGIPMQN    712

Ocnus: domain 1 of 1, from 878 to 891: score 4.8, E = 6.5
                   *->keILlswtK.YkdykI<-*
                      k+ILl  t +Yk+++I
    F45E4.3a   878    KRILL--TRsYKHHNI    891

PDZ: domain 1 of 1, from 882 to 969: score 5.1, E = 6
                   *->evtleke.vkrgglGfsikggsdk.....givvsevlpGsgaAeagG
                      +++  k++++ + lG++++gg+ + +++ +++vs ++      +  G
    F45E4.3a   882    LTRSYKHhNIYNDLGVRVVGGKRQmngelSAYVSQLHST-ANNQTLG 927

                   rLkeGDvIlsvNGqdvenmsheravlaikgsggsevtLtvlRd<-*
                    +k+GD +++ NG  +++ + e++  +  +s+g e+ ++++
    F45E4.3a   928 QIKIGDEVVEWNGILLRGKTFEEVERIVNKSHG-EIEMVIRTY    969

C2: domain 1 of 1, from 1039 to 1128: score 88.7, E = 3.7e-24
                   *->LrVtvieAknLppkDkkngksDPYVkvslggdpkd.qkkkTkvikkt
                      L+ ++i+A++L+ +D + + ++P+Vkv+l++ +k ++k++T+ +  +
    F45E4.3a  1039    LVAKIIRARGLKSRDQSRSAPNPFVKVYLLPGRKVsHKRRTRFVDSS 1085

                   lNPvWNEtFtFevpppdlqe.tLeitVyDydrfgrddflGevs<-*
                   + P+WN++++++v p++l+   Le+tV+Dy r   d  lG v+
    F45E4.3a  1086 CAPEWNQVLEYQVAPHTLNTmFLEFTVCDYQRDVDDLPLGNVQ    1128



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