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/Y71H2B.5
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Query:  Y71H2B.5  CE29003    status:Partially_confirmed TR:Q9N4F1 protein_id:AAK93869.1

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
UPF0021       PP-loop family UPF0021                     59.2    1.4e-15   1
tRNA_Me_trans tRNA methyl transferase                     2.2        5.1   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
tRNA_Me_trans   1/1     657   669 ..     1    13 [.     2.2      5.1
UPF0021         1/1     658   826 ..     1   180 [.    59.2  1.4e-15

Alignments of top-scoring domains:
tRNA_Me_trans: domain 1 of 1, from 657 to 669: score 2.2, E = 5.1
                   *->mkVvVaMSGGVDS<-*
                      +kV+V +SGG DS
    Y71H2B.5   657    DKVLVCLSGGKDS    669

UPF0021: domain 1 of 1, from 658 to 826: score 59.2, E = 1.4e-15
                   *->kiLvAvSGGlDSmvLLylLkklkpkla....pgiineltaaHvdHgl
                      k+Lv +SGG+DS+ LL++L++++ +  + ++ ++  el+a++vd
    Y71H2B.5   658    KVLVCLSGGKDSLSLLHILRHYQQRCNkarsTSF--ELGAITVD--- 699

                   RGeeSde.eakfVkelCkklnipleilrvdvdaiakksglnleeaARec.
                     + S+e   + + e+C++lni++++++ d+   a+++  +l  +   c
    Y71H2B.5   700 --PGSAEyNPRPLIEYCRRLNIDYFYEEQDII-GAARKTPGLRSI---Ca 743

                   yCGvaRYdfferiakkngadvlltAHHaDDqaETfLmrLlRGsgllGLag
                   +C  + +  ++ +a+ +g +vl+ ++H+DD aE f+ + ++     +L+
    Y71H2B.5   744 FCSRMKRGRLAAAAQLHGWNVLAMGQHLDDLAESFFIAAFQNG---NLST 790

                   ikasvrefn.sggrgrivRPLLykvsKeeieeyakkhkip<-*
                   +ka+++  ++ g   r++RPL   v+ + + ++a+ +k+p
    Y71H2B.5   791 MKAQYT--TkDGA-LRVIRPLV-MVREKALRNFAEDKKLP    826



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