do not see any anomalous signal, this is one possibility. I also
> see small blobs around which may resolve to be water molecules.
>
> Anthony
>
> - Original Message -
> From: "hideaki niwa"
> To: CCP4BB@JISCMAIL.AC.UK
> Sent: Thursday, July 11, 2019
2:39 PM
Subject: Re: [ccp4bb] Fo-Fc density close to cysteine residue
Hi Sergei,
At a first glance I thought so too, but if it is an arsenic atom there
should be a strong anomalous signal. Also the distance 2.5A seems a bit
long.
Hideaki Niwa
RIKEN Center for Biosystems Dynamics Research
Yok
- Original Message -
From: "hideaki niwa"
To: CCP4BB@JISCMAIL.AC.UK
Sent: Thursday, July 11, 2019 12:22:39 PM
Subject: Re: [ccp4bb] Fo-Fc density close to cysteine residue
Hi Sergei,
At a first glance I thought so too, but if it is an arsenic atom there
should be a strong
aphy
*From:* CCP4 bulletin board on behalf of Lumbini
Yadav
*Sent:* Wednesday, July 10, 2019 13:12
*To:* CCP4BB@JISCMAIL.AC.UK
*Subject:* Re: [ccp4bb] Fo-Fc density close to cysteine residue
Thank you for the valuable input
On Wed,
Hi Lumbini,
There are couple of queries I have before commenting on this issue.
1) how many Cysteine residues are there in your protein
2) have you calculated their solvent accessible surface area ?
3) What is the final concentration of Sodium dithionite ?
Cysteine is highly prone to get thiol
;
>
>
> *From:* CCP4 bulletin board * On Behalf Of *Lumbini
> Yadav
> *Sent:* Wednesday, July 10, 2019 7:12 AM
> *To:* CCP4BB@JISCMAIL.AC.UK
> *Subject:* Re: [ccp4bb] Fo-Fc density close to cysteine residue
>
>
>
> Thank you for the valuable input
>
>
>
> On
: [ccp4bb] Fo-Fc density close to cysteine residue
Thank you for the valuable input
On Wed, Jul 10, 2019 at 4:25 PM Eleanor Dodson
mailto:eleanor.dod...@york.ac.uk>> wrote:
Well - that more or less proves the residue is a CYS - there is a peak in the
PHAN map right on the S.
And that the
lt;http://pharm.kuleuven.be/anafar>
From: CCP4 bulletin board on behalf of Lumbini Yadav
Sent: Wednesday, July 10, 2019 13:12
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Fo-Fc density close to cysteine residue
Thank you for the valuable input
On Wed, Jul 10,
>>>
>>>>> Best,
>>>>>
>>>>>
>>>>>
>>>>> Dan
>>>>>
>>>>>
>>>>>
>>>>> Daniel A Bonsor PhD.
>>>>>
>>>>> Sundberg Lab
>>>>>
t;>>
>>>> University of Maryland, Baltimore
>>>>
>>>> 725 W Lombard Street N370
>>>>
>>>> Baltimore
>>>>
>>>> Maryland
>>>>
>>>> MD 21201
>>>>
>>>> Tel: (410)
hD.
>>>
>>> Sundberg Lab
>>>
>>> Institute of Human Virology
>>>
>>> University of Maryland, Baltimore
>>>
>>> 725 W Lombard Street N370
>>>
>>> Baltimore
>>>
>>> Maryland
>>>
>>> MD 21201
>>&
an Virology
>>
>> University of Maryland, Baltimore
>>
>> 725 W Lombard Street N370
>>
>> Baltimore
>>
>> Maryland
>>
>> MD 21201
>>
>> Tel: (410) 706-7457
>>
>>
>>
>>
>>
>> *From:* CCP4 bulle
[mailto:CCP4BB@JISCMAIL.AC.UK] *On Behalf Of
> *Lumbini
> Yadav
> *Sent:* Tuesday, July 09, 2019 5:22 AM
> *To:* CCP4BB@JISCMAIL.AC.UK
> *Subject:* [ccp4bb] Fo-Fc density close to cysteine residue
>
>
>
> Dear all,
>
>
>
> We have found a huge Fo-Fc density close
oxygen atom.
>>>
>>> Anthony
>>> ------
>>> *From: *176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk
>>> *To: *CCP4BB@JISCMAIL.AC.UK
>>> *Sent: *Tuesday, July 9, 2019 4:48:32 PM
>>> *Subject: *Re: [ccp4bb] Fo-Fc density c
om.
>>
>> Anthony
>> --
>> *From: *176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk
>> *To: *CCP4BB@JISCMAIL.AC.UK
>> *Sent: *Tuesday, July 9, 2019 4:48:32 PM
>> *Subject: *Re: [ccp4bb] Fo-Fc density close to cysteine residue
>>
>> Any a
---
> *From: *176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk
> *To: *CCP4BB@JISCMAIL.AC.UK
> *Sent: *Tuesday, July 9, 2019 4:48:32 PM
> *Subject: *Re: [ccp4bb] Fo-Fc density close to cysteine residue
>
> Any anomalous diffraction?
>
> On Tue, 9 Jul 2019 at 10:32, Lumbini Yad
Hard to see from a static image, but could it be an alternative
conformation?
Pavel
On Tue, Jul 9, 2019 at 2:32 AM Lumbini Yadav wrote:
> Dear all,
>
>
>
> We have found a huge Fo-Fc density close to cysteine residue (see attached
> image) in the structure with resolution of 1.2A. In the crystal
Sent: Tuesday, July 09, 2019 5:22 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Fo-Fc density close to cysteine residue
Dear all,
We have found a huge Fo-Fc density close to cysteine residue (see attached
image) in the structure with resolution of 1.2A. In the crystallization
condition, we
: Tuesday, July 09, 2019 5:22 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Fo-Fc density close to cysteine residue
Dear all,
We have found a huge Fo-Fc density close to cysteine residue (see attached
image) in the structure with resolution of 1.2A. In the crystallization
condition, we have PEG 3350
: 176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk
To: CCP4BB@JISCMAIL.AC.UK
Sent: Tuesday, July 9, 2019 4:48:32 PM
Subject: Re: [ccp4bb] Fo-Fc density close to cysteine residue
Any anomalous diffraction?
On Tue, 9 Jul 2019 at 10:32, Lumbini Yadav < [ mailto:lumbin...@gmail.com |
lumbin...@gmail.com ] >
Any anomalous diffraction?
On Tue, 9 Jul 2019 at 10:32, Lumbini Yadav wrote:
> Dear all,
>
>
>
> We have found a huge Fo-Fc density close to cysteine residue (see attached
> image) in the structure with resolution of 1.2A. In the crystallization
> condition, we have PEG 3350, Potassium phosphate
Dear all,
We have found a huge Fo-Fc density close to cysteine residue (see attached
image) in the structure with resolution of 1.2A. In the crystallization
condition, we have PEG 3350, Potassium phosphate monobasic, glycerol and
protein was in Tris and NaCl. Before freezing the crystals were so
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