Pairwise fitting emdb-1386 on pdb-3jd8 by gmfit










Pairwise fitting of target emdb-1386 on reference pdb-3jd8 by gmfit(PID:1466436).





RANK[1] Corr.Coeff:0.577

[JSmol]
[Molmil]






  

      
        
      
    








TARGET(emdb-1386)

display:



color:



Averaging tens to hundreds of icosahedral particle images to resolve protein secondary structure elements using a Multi-Path Simulated Annealing optimization algorithm. [Ngauss:20]

[Download superimposed target map (CCP4) (emdb-1386)]







REFERENCE(pdb-3jd8)

display:



color:


b'CRYO-EM STRUCTURE OF THE FULL-LENGTH HUMAN NPC1 AT 4.4 ANGSTROM       ' [Ngauss:20]



[Download the reference pdb]





Other Transformations
rank
1
2
3
4
5
6
7
8
9
10




Corr.Coeff.
0.577
0.524
0.512
0.494
0.396
0.351
0.348
0.347
0.245
0.243







Procedures to view this superposition in your local computer by "UCSF Chimera".

    

  1.  Download the Reference molecule "3jd8"(PDB-format) or 
 "3jd8"(mmCIF-format), and read it.

  2.  Download the Target map "emd_1386.map.gz", and read it.

  3.  Copy following two command lines into a file 'transf.com'.

    turn 0.226728,-0.898738,-0.375320 152.137414 center 0,0,0 model #1
move 126.268884,127.920000,159.318099 model #1

    

  4.  Open 'transf.com' to execute it.

    
 * Don't move the map/molecule by your mouse until the step 4 have been finished !!