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<TITLE>Dali: PF04755</TITLE><A name=s001A>
<h1>Results: PF04755</h1>
<h2>Query: <a name="s001A">s001A</a></h2>
                                                                      
<P><A NAME="summary">
Select neighbours (check boxes) for viewing as multiple structural alignment or 3D superimposition. 
The list of neighbours is sorted by Z-score. Similarities with a Z-score lower than 2 are spurious.
Each neighbour has links to pairwise structural alignment with the query structure, 
 and to the PDB format coordinate file where the neighbour
is superimposed onto the query structure. 

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<input TYPE="hidden" NAME="query_sequence" VALUE="GDAKDALYAALEGMNRGIFGMTSEKRSEIHALVELLESKNPTPEPTDKLQDKVDGCWRLVYSTISILGKKRTKLGLRDFISLGDFFQMIDVKEEKAVNVIKFSARALKILSGQLTIEASYKITTKTKVDITLDSSTITPDQLMNIFQKNYDMLLAIFNPEGWLEITYVDESLRIGRDDKANIFVLE"> 
<input TYPE="hidden" NAME="query_dssp" VALUE="LHHHHHHHHHHLLLHHHLLLLLHHHHHHHHHHHHHHHLLLLLLLHHHHHHHHLLEEEEEEEELLLLLHHHHHHLLLLLLEEEEEEEEEELLLLLLLLEEEEEEEHHHLEEEEEEEEEEEEEELLLLEEEEEEEEEEEELHHHHHHHHHHHHHHHHHHLLLEEEEEEEELLLLEEEEELLLLEEEEL"> 
<input TYPE="hidden" NAME="cd1" VALUE=s001A>
<input TYPE="hidden" NAME="pdbresnos" VALUE="186   86    87    88    89    90    91    92    93    94    95    96    97    98    99   100   101   102   103   104   105   106   107   108   109   110   111   112   113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   257   258   259   260   261   262   263   264   265   266   267   268   269   270   271 
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<h2>Summary</h2>
<PRE>
    No:  Chain   Z    rmsd lali nres  %id PDB  Description
<INPUT TYPE="CHECKBOX" NAME="cd2list" VALUE="cd2=2wq9A sequence=erdcrvssfrvKENFDKARFSGTWYAMAKKDPEglflQDNIVAEFSVDetgQMSATAKGRVRllNWDVCADMVGTFTDTeDPAKFKMKYWGVASFLQkGNDDHWIVDTDyDTYAVQYSCRllnldgtcadSYSFVFSRDPNGLPPEAQKIVRQRQEELCLARQYRLIVHNGYC dssp=lllllhhhlllLLLLLHHHHLEEEEEEEEELLLllleEEEEEEEEEELlllLEEEEEEEEEEllLLEEEEEEEEEEEELlLLLEEEEEEEELLLLLLlEEEEEEEEEELlLLEEEEEEEEeellllleeeEEEEEEELLLLLLLHHHHHHHHHHHHHLLLLLLLEELLLLLLL qstarts=41,47,52,81,92,108,123,133,150,158,169,179 sstarts=11,15,19,37,51,64,80,89,93,98,110,130 lengths=4,4,14,11,11,15,9,4,4,11,10,7 u=-0.566861,0.770052,0.292726,-0.819133,-0.564681,-0.100779,0.087692,-0.296910,0.950871 t=-27,-8,-18 segments=12-15,16-19,20-33,38-48,52-62,66-80,82-90,91-94,95-98,100-110,112-121,132-138 compnd=_RETINOL-BINDING_PROTEIN_4;>"   <A HREF=#alignment-1>1</A>:  2wq9-A  9.5  3.3  104   173   11 <A HREF="http://ekhidna2.biocenter.helsinki.fi/cgi-bin/daliviewer/readpdb.cgi?html=1&jobid=pdb&pdbid=2wq9&u=-0.566861,0.770052,0.292726,-0.819133,-0.564681,-0.100779,0.087692,-0.296910,0.950871&t=-27,-8,-18">PDB</A>  MOLECULE: RETINOL-BINDING PROTEIN 4;                                 

</form>
</PRE>
<A NAME="alignments">
<h2>Pairwise Structural Alignments </h2>
Notation: three-state secondary structure definitions by DSSP (reduced to H=helix, E=sheet, L=coil) are shown above the amino acid sequence. Structurally equivalent residues are in uppercase, structurally non-equivalent residues (e.g. in loops) are in lowercase. Amino acid identities are marked by vertical bars.
<a name=alignment-1><h3> No 1: Query=s001A Sbjct=2wq9A Z-score=9.5</h3>

<A HREF="#s001A">back to top</A>
<PRE>
DSSP  lhhhhhhhhhhlllhhhlllllhhhhhhhhhhhhhhhllllLLLHhhHHHHhLLEEEEEE
Query gdakdalyaalegmnrgifgmtsekrseihalvellesknpTPEPtdKLQDkVDGCWRLV   60
ident                                                       | |   
Sbjct ------------------------------erdcrvssfrvKENF--DKAR-FSGTWYAM   27
DSSP  ------------------------------lllllhhhlllLLLL--LHHH-HLEEEEEE


DSSP  EELLLLlhhhhhhlllllleeEEEEEEEELLL---LLLLLEEEEEEehhhlEEEEEEEEE
Query YSTISIlgkkrtklglrdfisLGDFFQMIDVK---EEKAVNVIKFSaralkILSGQLTIE  117
ident                               |       |                     
Sbjct AKKDPE-----------glflQDNIVAEFSVDetgQMSATAKGRVR---llNWDVCADMV   73
DSSP  EEELLL-----------llleEEEEEEEEEELlllLEEEEEEEEEE---llLLEEEEEEE


DSSP  EEEEEL-LLLEEEEEEeEEEEelhhhhhhhhhhhHHHHhhhlLLEEEEEEEEL-LLLEEE
Query ASYKIT-TKTKVDITLdSSTItpdqlmnifqknyDMLLaifnPEGWLEITYVD-ESLRIG  175
ident      |    |                         |           |   |       
Sbjct GTFTDTeDPAKFKMKY-WGVA-------------SFLQ---kGNDDHWIVDTDyDTYAVQ  116
DSSP  EEEEELlLLLEEEEEE-EELL-------------LLLL---lEEEEEEEEEELlLLEEEE


DSSP  EELL----------LLEEEEL------------------------------------
Query RDDK----------ANIFVLE------------------------------------  186
ident                  ||                                      
Sbjct YSCRllnldgtcadSYSFVFSrdpnglppeaqkivrqrqeelclarqyrlivhngyc  173
DSSP  EEEEeellllleeeEEEEEEElllllllhhhhhhhhhhhhhllllllleelllllll


</PRE>
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<H1>PF04755</H1>
<TITLE>Dali logos </TITLE>
<H1>Dali logos </H1>
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