I see. It is like the CC for each "slide" along the Z direction. But, do
you know does CCP4, or any other programs, calculate CC for a group of
residues at all?
Thanks!
Hailiang
> You might find some useful examples in $CCP4/examples/unix/runnable
> OVERLAPMAP is used in mapcorrelation_procedures, overlapmap.exam,
> waterpeaks.
>
> As I understand it, CORR SECT does a map correlation by map section, so
> you get a single CC value per map section.
> This mode does not use MAPIN3, and doesn't use atom or residue
> information. So yes, it will ignore the CHAIN keyword.
>
> "section" refers to map section:
>
> Number of columns, rows, sections ............... 96 152 17
>
> and not a section of your atomic model.
>
> HTH
> Martyn
>
>
>
> On Tue, 2010-05-25 at 23:51 -0400, Hailiang Zhang wrote:
>> Hi,
>>
>> I am working on a real space correlation on a specif protein section
>> using
>> CCP4 OVERLAPMAP. I am using the following scripts, not sure whether it
>> is
>> good or not (didn't find in OVERLAPMAP documentation).
>>
>> overlapmap \
>> mapin1 ${PDB}-1.map \
>> mapin2 ${PDB}-2.map \
>> mapin3 ${PDB}-mask.map \
>> <<eof
>> CORR SECT
>> CHAIN A $START $END
>> END
>>
>> There is no error message, but the results make no difference no matter
>> how I change $START and $END. I am not sure whether the above script is
>> ok.
>>
>> By the way, more importantly to me, if corr sect works at all, will it
>> print out a single CC value by integrating over the WHOLE region define
>> by
>> the section range?
>>
>> Thanks!
>>
>> Best Regards, Hailiang
> --
> ***********************************************************************
> * *
> * Dr. Martyn Winn *
> * *
> * STFC Daresbury Laboratory, Daresbury, Warrington, WA4 4AD, U.K. *
> * Tel: +44 1925 603455 E-mail: [email protected] *
> * Fax: +44 1925 603634 Skype name: martyn.winn *
> * URL: http://www.ccp4.ac.uk/martyn/ *
> ***********************************************************************
>
>
