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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm5/seq/Y59A8B.2
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  Y59A8B.2  CE26210    status:Partially_confirmed TR:Q9GRZ4 protein_id:CAC14405.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
UCH      Ubiquitin carboxyl-terminal hydrolase          272.7    1.1e-94   1
zf-C3HC4 Zinc finger, C3HC4 type (RING finger)            6.4       0.24   1
PHD      PHD-finger                                       3.2        7.8   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
zf-C3HC4   1/1     214   235 ..    34    50 .]     6.4     0.24
PHD        1/1     227   238 ..    40    51 .]     3.2      7.8
UCH        1/1      21   354 ..     1   456 []   272.7  1.1e-94

Alignments of top-scoring domains:
zf-C3HC4: domain 1 of 1, from 214 to 235: score 6.4, E = 0.24
                   *->ClerWls.......gnttvkCplC<-*
                      Cl++++s+++ +++  ++  Cp C
    Y59A8B.2   214    CLRSHFSqtkldgdSRWN--CPKC    235

PHD: domain 1 of 1, from 227 to 238: score 3.2, E = 7.8
                   *->egkWlCpeCtpk<-*
                      +  W Cp+C+++
    Y59A8B.2   227    DSRWNCPKCKEP    238

UCH: domain 1 of 1, from 21 to 354: score 272.7, E = 1.1e-94
                   *->egpvGLvNlGNTCYmNSvLQcLfhipelrdyllsnrhylprinnsnp
                      +g+vGL N+GNTC+m+++LQcLf +p l++ +       + +n++++
    Y59A8B.2    21    PGAVGLFNMGNTCFMSATLQCLFQTPGLAEVFTKK-VFVSKVNTQSR 66

                   lgskgqllcaladlfkslqsnqyssppseaelslfeSnavsalnknskpe
                   lgskg ++  +a l  ++++++
    Y59A8B.2    67 LGSKGVISAGFASLSDMIWNGTF--------------------------- 89

                   esisPtqflktlgkinpsFselegyk.l.i.qQqDAqEfllfLLdgLhED
                   ++i P +fl++++           y++l+ ++Q+DA Ef  fLLd+LhED
    Y59A8B.2    90 TAIRPSRFLQLFSDT--------VYQpLsDgRQHDASEFQIFLLDALHED 131

                   lNrvakkpyneehepgldlalee.eeadelkdseaseeawknkstrnesl
                   +N+++                 e++++++  +++ + ++ k++   + s+
    Y59A8B.2   132 TNQAQRISF-------------EqNYHGGAGIAKEAADFLKKHYQFSLSP 168

                   isdlFqGqlesrikCaleCgkvsvtyepFldLslpikpkeasdspksLee
                   +++l + ++ s+i+C l+Cg +s+t+e  + +s+ i    +s s +sL+
    Y59A8B.2   169 VNRLLGSITVSEIRC-LTCGASSATFEENTIISVEI----PSNSSCSLDM 213

                   cLkaFtkeEiLKviegenkyyCdkcgkkqeasKklkisrLPpiLtihLkR
                   cL++ ++  +L   +g+  + C+kc++ + +++++k+++ Pp+ +ihLkR
    Y59A8B.2   214 CLRSHFSQTKL---DGDSRWNCPKCKEPRASTRTSKLWQPPPVMIIHLKR 260

                   FsydgetssnimKindrvefPleeLDlspylnqktnkeraaaeansleee
                   F   +       K+   v+f    +D+ pyl
    Y59A8B.2   261 FALFNGDFE---KNTAAVTFETARFDVRPYLH------------------ 289

                   qqsvnadegnnqeeseestksqeegenpptkYeLvaVvvHsGsslsgGHY
                                         e  +    +Y+L+a   H G  l++GHY
    Y59A8B.2   290 ----------------------EMAPAEKPVYKLYAATLHNG-RLNSGHY 316

                   iayikkldnnkWykFDDsvetVgdwkvvsvvseeevlkesgggtatsesk
                   +a++ +l+ +kW++FDDs  +V      ++++  +v+ +
    Y59A8B.2   317 TAVASHLRSDKWLRFDDS--VV------TPCENFKVDPSL---------- 348

                   rlkryrwAYiLFY<-*
                          AYiLFY
    Y59A8B.2   349 -------AYILFY    354



[DB home][top]