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CP FROM PDB - Copy PDB file to SPIDER format

(8/17/96)

PURPOSE

Copy a PDB image data file to SPIDER volume.

SEE ALSO

CP FROM ASCII [CoPy FROM ASCII text file to Spider file]
CP FROM JP [CoPy FROM JP file to Spider file]
CP FROM MRC [CoPy FROM MRC files to Spider files]
CP FROM PDB [CoPy FROM PDB file to Spider file]
CP FROM RAW [CoPy FROM RAW image to Spider file]
CP FROM SF3 [CoPy FROM Simple file to 3D Fourier file]
CP FROM SHORT [CoPy FROM SHORT-label file to Spider standard file]
CP FROM TERM [CoPy FROM TERMinal to Spider file]
CP FROM VAX [CoPy FROM VAX to Unix file]
CP FROM VAX16 [CoPy FROM VAX to 16-bit Unix file]
CP TO ASCII [CoPy TO ASCII text file from Spider file]
CP TO BRIX [CoPy TO pre-BRIX file from Spider file]
CP TO MRC [CoPy TO MRC files from Spider files]
CP TO POST [CoPy TO POSTscript format from Spider file]
CP TO RAW [CoPy TO RAW 8-bit Unix file from Spider file]
CP TO SF3 [CoPy TO simple format from 3D Spider Fourier file]
CP TO SGI [CoPy TO SGI format from Spider file]
CP TO TARGA [CoPy TO TARGA format file from Spider file]
CP TO TARGAV [CoPy TO TARGA format from VAX file [on SGI only]]
CP TO TIFF [CoPy TO TIFF file from Spider file]
CP TO VAX [CoPy TO VAX file from Unix file]
CP TO VV [CoPy TO Voxel_View files from Spider Unix 3D volume]

USAGE

.OPERATION: CP FROM PDB

INPUT PDB FILE: TRNA03.PDB [Enter the name of PDB file with extension.]

.VOXEL SIZE (A): 2.2
[Enter the voxel size of SPIDER file in angstroms.]

.VOLUME NSAM, NROW: 75,95

.VOLUME NSLICE: 85
[Enter size of the SPIDER file (number of voxels in each dimension).]

.SPIDER FILE: TRNA03
[Enter the file that will contain the volume.]

NOTES

  1. The program reads atomic coordinates of a structure from a PDB file, then creates a SPIDER volume by adding the Z values times the occupancy factor in each resolution cell. The resulting sum is divided by 1000 for convenience. The density is proportional to the Coulomb potential.

  2. Author: Jun Zhu

SUBROUTINES

READPDB

CALLER

COPY1

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