Hi Eleanor:
Do you have some references in mind that discussed the value of CC (say
>0.5) to be able to build the structure? Didn't find one for right now:-(
By the way, probably a "weak" question, In the case "a lousy model will
give poor CCs even if the map is brilliant", we still accept this model
dispite the poor CC, right? Sorry that I didn't get practically involved
too much in real model building, but I just heard that model is more
frequently built manually by eyes, not CC etc.
Best Regards, Hailiang
> If you ask for CORR SECTion then overlapmap does just that - the CC will
> have a certain value for each section regardless of the CHAIN
> parameters. If you want correlation residue by residue you must ask for
> CORR RESI
>
> As someone said - a lousy model will give poor CCs even if the map is
> brilliant..
> But once your refinement is finished it is intresting to go back and
> check the CC of the initial maps.
>
> There is a belief that you need a CC of >0.5 to be able to build the
> structure but different problems and different builders achieve
> different results..
> Eleanor
>
> 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
>
>
>
