tarts with c axis reflections including 0,
0, l odd as well as even, which is sort of a hint here
From: MARTYN SYMMONS
To: CCP4BB@JISCMAIL.AC.UK
Sent: Tuesday, 16 April 2013, 14:30
Subject: Re: [ccp4bb] Puzzling Structure
Just as a postscript.
It has
t not over-written).
Cheers
Martyn
From: Michel Fodje
To: CCP4BB@JISCMAIL.AC.UK
Sent: Monday, 15 April 2013, 17:19
Subject: Re: [ccp4bb] Puzzling Structure
Just to round up this topic, a bug report was submitted to PDBe concerning
entry 2wlv and the P
On 15 Apr 2013, at 17:19, Michel Fodje wrote:
> I imagine somebody accidentally deleted a space between P 21 21 2 and 18 and
> tried to fix it by adding it back, between 1 and 8.
As this has now been mentioned twice in this discussion it should probably be
noted for the archives that the la
18 and tried to fix it by adding it back, between 1 and 8.
/Michel
>-Original Message-
>From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>Edward A. Berry
>Sent: April-14-13 9:59 AM
>To: CCP4BB@JISCMAIL.AC.UK
>Subject: Re: [ccp4bb] Puzzling S
Robbie Joosten wrote:
Hi Martyn,
I think the question is where the error was made - seeing the uploaded file
would clear this up. But it seems unlikely to me that the depositor saw a huge
R factor discrepancy at the end of refinement and just blithely uploaded it.
So scenario 3 :-
PDB : we
Hi Robbie,
>Which seems a sort of reasonable attitude to me.
> Not quite, the depositor has to give, i.e. type, the space group
what I don't get is why one needs to type in this information if it is
already present in both, model and data files? Any human typing is typo
prone. Ideally depos
ups but contains not a single ANISOU line!...
> >I'm not a big fan of using ANISOU records for TLS contributions anyway
> >;-) But, more seriously, PDB entries should adhere to the PDB standard.
> >
> >Cheers,
> >Robbie
> >
> >
> >>
> >>
>
this particular case attempting to calculate R-factor using data and
model
> files and making sure that the R you get is not twice as large as
published one
> would entirely suffice -:)
>
> Pavel
>
> ____
>
> From: Robbie Joosten
> To:
sing data and model
files and making sure that the R you get is not twice as large as published one
would entirely suffice -:)
Pavel
From: Robbie Joosten
To: CCP4BB@JISCMAIL.AC.UK
Sent: Friday, 12 April 2013, 22:57
Subject: Re: [ccp4bb] Puzzling Struct
f Of
> Garib N Murshudov
> Sent: Friday, April 12, 2013 21:39
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] Puzzling Structure
>
> It is typo:
> R factor for p212121 - 0.4
>for p21212- around 0.18
>
> Although water seem to have been moved around u
;Michel Fodje"
>> написал:
>>
>> By the way, you will need to show symmetry atoms to see the problem.
>>
>> >-Original Message-
>> >From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>> >Michel Fodje
>> >Sent
t; To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] Puzzling Structure
>
> By the way, you will need to show symmetry atoms to see the problem.
>
>> -Original Message-
>> From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>> Michel Fodje
>&g
i meant to say P21212
On 12 Apr 2013, at 21:47, Savvas Savvides wrote:
> The CRYST1 in the pdb header is problematic.
> CRYST1 95.520 47.815 88.570 90.00 90.00 90.00 P 21 21 218
> it looks like the number '1' was paired to the space group rather than the
> space grop number (i.e.
The CRYST1 in the pdb header is problematic.
CRYST1 95.520 47.815 88.570 90.00 90.00 90.00 P 21 21 218
it looks like the number '1' was paired to the space group rather than the
space grop number (i.e. nr. 18 for P21212)
Table 1 in the paper specifies P212121 as the space group.
ь "Michel Fodje"
> написал:
>
> By the way, you will need to show symmetry atoms to see the problem.
>
> >-Original Message-
> >From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
> >Michel Fodje
> >Sent: April-12-13 1:14 PM
> &
> From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Michel
> Fodje [michel.fo...@lightsource.ca]
> Sent: Friday, April 12, 2013 2:17 PM
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] Puzzling Structure
>
> By the way, you will need to show symmetry atoms to se
ll need to show symmetry atoms to see the problem.
>-Original Message-
>From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>Michel Fodje
>Sent: April-12-13 1:14 PM
>To: CCP4BB@JISCMAIL.AC.UK
>Subject: [ccp4bb] Puzzling Structure
>
>Has anyone else no
2:17 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Puzzling Structure
By the way, you will need to show symmetry atoms to see the problem.
>-Original Message-
>From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>Michel Fodje
>Sent: April-12-13 1:1
By the way, you will need to show symmetry atoms to see the problem.
>-Original Message-
>From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>Michel Fodje
>Sent: April-12-13 1:14 PM
>To: CCP4BB@JISCMAIL.AC.UK
>Subject: [ccp4bb] Puzzling Structure
Has anyone else noticed a problem with the structure of the N-terminal capsid
domain of HIV-2 PDB 2wlv.
Load it up to in coot and navigate to residue B118.
/Michel.
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