[Chimera-users] TERs in PDB ?

Marek Maly marek.maly at ujep.cz
Tue Nov 21 16:03:42 PST 2017


Hello,

is it possible to save the given molecular model (which is open in  
Chimera) in PDB format but with
the TER string between consequent residues ?

example:
---------------------------
ATOM      1  Si1 CEN A   1      56.395  15.633  50.147  1.00   
0.00          Si
TER
ATOM      2  C1  RE1 A   2      54.892  16.772  50.453  1.00   
0.00           C
ATOM      3  H1  RE1 A   2      54.289  16.821  49.538  1.00   
0.00           H
ATOM      4  H2  RE1 A   2      54.219  16.552  51.290  1.00   
0.00           H
ATOM      5  C2  RE1 A   2      55.394  18.185  50.780  1.00   
0.00           C
ATOM      6  H3  RE1 A   2      55.896  18.665  49.932  1.00   
0.00           H
ATOM      7  H4  RE1 A   2      56.038  18.053  51.659  1.00   
0.00           H
ATOM      8  C3  RE1 A   2      54.181  19.075  51.202  1.00   
0.00           C
ATOM      9  H6  RE1 A   2      53.674  18.496  51.984  1.00   
0.00           H
ATOM     10  H5  RE1 A   2      53.589  19.325  50.313  1.00   
0.00           H
ATOM     11  Si3 RE1 A   2      54.714  20.646  51.949  1.00   
0.00          Si
ATOM     12  C4  RE1 A   2      53.140  21.420  52.746  1.00   
0.00           C
ATOM     13  H8  RE1 A   2      53.430  22.271  53.376  1.00   
0.00           H
ATOM     14  H7  RE1 A   2      52.690  20.675  53.413  1.00   
0.00           H
ATOM     15  H9  RE1 A   2      52.466  21.649  51.911  1.00   
0.00           H
ATOM     16  C5  RE1 A   2      55.491  21.841  50.620  1.00   
0.00           C
ATOM     17  H12 RE1 A   2      56.423  21.426  50.217  1.00   
0.00           H
ATOM     18  H10 RE1 A   2      55.768  22.733  51.196  1.00   
0.00           H
ATOM     19  H11 RE1 A   2      54.875  22.300  49.836  1.00   
0.00           H
TER
ATOM     20  C1  RE1 A   3      57.436  16.272  48.673  1.00   
0.00           C
ATOM     21  H1  RE1 A   3      58.039  17.117  49.028  1.00   
0.00           H
ATOM     22  H2  RE1 A   3      58.209  15.633  48.228  1.00   
0.00           H
ATOM     23  C2  RE1 A   3      56.488  16.820  47.464  1.00   
0.00           C
ATOM     24  H3  RE1 A   3      55.675  17.467  47.819  1.00   
0.00           H
ATOM     25  H4  RE1 A   3      55.960  16.034  46.910  1.00   
0.00           H
ATOM     26  C3  RE1 A   3      57.354  17.603  46.475  1.00   
0.00           C
ATOM     27  H6  RE1 A   3      58.241  17.015  46.210  1.00   
0.00           H
ATOM     28  H5  RE1 A   3      57.812  18.464  46.978  1.00   
0.00           H
ATOM     29  Si3 RE1 A   3      56.645  18.300  44.851  1.00   
0.00          Si
ATOM     30  C4  RE1 A   3      55.474  17.030  44.146  1.00   
0.00           C
ATOM     31  H8  RE1 A   3      54.666  17.578  43.646  1.00   
0.00           H
ATOM     32  H7  RE1 A   3      54.864  16.542  44.918  1.00   
0.00           H
ATOM     33  H9  RE1 A   3      55.893  16.349  43.396  1.00   
0.00           H
ATOM     34  C5  RE1 A   3      58.034  18.987  43.812  1.00   
0.00           C
ATOM     35  H12 RE1 A   3      59.000  18.584  44.141  1.00   
0.00           H
ATOM     36  H10 RE1 A   3      58.180  20.062  43.974  1.00   
0.00           H
ATOM     37  H11 RE1 A   3      58.009  18.601  42.786  1.00   
0.00           H
TER
ATOM     38  C1  RE1 A   4      57.426  15.522  51.783  1.00   
0.00           C
ATOM     39  H1  RE1 A   4      58.370  14.991  51.606  1.00   
0.00           H
ATOM     40  H2  RE1 A   4      57.769  16.539  52.007  1.00   
0.00           H
ATOM     41  C2  RE1 A   4      56.787  14.966  52.995  1.00   
0.00           C
ATOM     42  H3  RE1 A   4      57.587  14.881  53.741  1.00   
0.00           H
ATOM     43  H4  RE1 A   4      56.321  13.982  52.869  1.00   
0.00           H
ATOM     44  C3  RE1 A   4      55.776  15.938  53.682  1.00   
0.00           C
ATOM     45  H6  RE1 A   4      54.722  15.759  53.439  1.00   
0.00           H
ATOM     46  H5  RE1 A   4      55.920  17.004  53.467  1.00   
0.00           H
ATOM     47  Si3 RE1 A   4      55.756  16.172  55.603  1.00   
0.00          Si
ATOM     48  C4  RE1 A   4      57.359  16.942  56.191  1.00   
0.00           C
ATOM     49  H8  RE1 A   4      57.601  17.853  55.629  1.00   
0.00           H
ATOM     50  H7  RE1 A   4      58.242  16.306  56.061  1.00   
0.00           H
ATOM     51  H9  RE1 A   4      57.248  17.148  57.263  1.00   
0.00           H
ATOM     52  C5  RE1 A   4      55.827  14.369  56.251  1.00   
0.00           C
ATOM     53  H12 RE1 A   4      56.581  13.702  55.818  1.00   
0.00           H
ATOM     54  H10 RE1 A   4      54.854  13.866  56.186  1.00   
0.00           H
ATOM     55  H11 RE1 A   4      56.205  14.393  57.280  1.00   
0.00           H
TER
.
.
.

---------------------------



If yes, how to do it ?

     Thank you in advance for your advice.

Best wishes,

     Marek



-- 
Vytvořeno poštovní aplikací Opery: http://www.opera.com/mail/


More information about the Chimera-users mailing list