Re: [ccp4bb] Unidentified density

-- Vandana kukshal

Re: [ccp4bb] Dye for protein affinity measurement

1-877-225-2034 Regd. England 2177994, VAT Reg. GB 480 7371 36 -- Vandana kukshal

Re: [ccp4bb] a PDB tool

you introduce me a server so that I can convert it to another PDB file starting from 200 to 300? Cheers, Dialing -- Vandana kukshal

Re: [ccp4bb] How to add add atoms by Coot

to getting your reply. Cheers, Dialing -- Vandana kukshal

Re: [ccp4bb] Hydrophobic interactions

** ** Amit -- Vandana kukshal

Re: [ccp4bb] How can improve diffraction quality

but it was diffracted only 4 A. The conditions of crystallization recipes are 4.5% PEG 1000, 0.1M Tris and 25mM Na citrate. I really need your suggestions regarding how can i improve my diffraction quality? Your support is highly appreciable. Best Regards AFSHAN -- Vandana kukshal

Re: [ccp4bb] data processing problem with ice rings

? Any suggestion about this super ice rings? Thanks! Tiantian -- Shanghai Institute of Materia Medica, Chinese Academy of Sciences Address: Room 101, 646 Songtao Road, Zhangjiang Hi-Tech Park, Shanghai, 201203 -- Vandana kukshal

Re: [ccp4bb] stoichiometry of complex and incubator

-- -- Vandana Kukshal Postdoc Fellow structure biology group international Center For Genetic Engineering and Biotechnolgy India

[ccp4bb] mising atoms

chain atom is this wil be correct way to do these calculation. welcome ur valuable sugessions . -- Vandana Kukshal Postdoc Fellow structure biology group international Center For Genetic Engineering and Biotechnolgy India

Re: [ccp4bb] Influence of symmetry related molecules on a protomer conformation in crystal structures

related molecules for a given crystal structure. But I'm looking for some program/software (for batch) by which I can find out the number of symmetry related molecules (distance cutoff = 5A) interacting with a given chain in a crystal structure. Thanking you, suku NIBIO, Osaka -- Vandana

Re: [ccp4bb] B factor

Fellow The Radolf Laboratory Department of Medicine University of Connecticut Health Center [w] http://spirocheteresearch.uchc.edu -- Vandana Kukshal Postdoc Fellow structure biology group international Center For Genetic Engineering and Biotechnolgy India

Re: [ccp4bb] about the working solution

? Best wishes Xinghua Qin -- Xinghua Qin Room 4022, Center for Life Sciences, China Agricultural University, No.2, Yuan Ming Yuan West Road, Haidian District， Beijing，China，100193 Tel: +86-10-62732672 -- Vandana Kukshal Postdoc Fellow structure biology group international Center

Re: [ccp4bb] how to Collecting Data from Long Unit Cell Axes ?

hello if u are getting merged spot then try to increase detector distance it may work . instead of this u try to reduce delta phi (gonimeter phi angle per frame) default it is 1 degree u can try 0.5, 0.25 degree.

Re: [ccp4bb] metal binds?

take it to synchrotron which is far away? thanks Careina -- Vandana Kukshal Postdoc Fellow structure biology group international Center For Genetic Engineering and Biotechnolgy Aruna Asaf Ali Marg 110 067 New Delhi INDIA

Re: [ccp4bb] determining the domain for overexpression and crystallization

to determine the sequence that can fold into a compact and stable 3D domain. What kinds of methods can we choose? -- Best regards, XH Wu -- Best regards, Xianhui -- Vandana Kukshal Postdoc Fellow structure biology group international Center For Genetic Engineering and Biotechnolgy

[ccp4bb] Fwd: [ccp4bb] use of beta-mercaptoethanol in crystallization

instead of Beta mercaptoethanol. for one of my crystallization experiment i used 1- 10 mM of Beta mercaptoethanol. -- vandana kukshal CSIR-senior research fellow X ray lab ,MSB division central drug research institute lucknow -- Vandana Kukshal Postdoc Fellow structure biology group

[ccp4bb]

hello sir , recently i have collected one data of 3.0 A of a protein having no sequence homology with any known PDB . but while fold prediction i got 100 %  identical fold with some of the protein . space group of my protein is P622 and showing 6 molecule in a assymetric unit. the

[ccp4bb] covalent bond

how to make covalent bond between ligand and protein residue by using CCp4 package

[ccp4bb]

i have one Query . after using phenix auto build for building model R factor and R free reduced but B factor is increesed for all the atom .what next i should do to decrease the B factor of atoms.

[ccp4bb]

hello  this is not a new question i was searching this in archives but i did'nt get . just send me link for this . i want to link AMP covalently with lysine in my structure (phosphoamide bond)how i will do this  in coot and refmac . in turbo there is option make bond but in this

[ccp4bb] multi domain protein

i have one query. that if we have a multi domain protein structure to solve ,and we know about only one small domain of the protein for MR . other domain structure is not known then how we can proceed. is there any procedure to utilize  phase from the solution with known domain .

[ccp4bb] multi domain protein

hello     i  have 3.25 A data of multidomain protein with 4 individual domain .one domains structure is already known . and for others domain 40 % simmilar structure is known . when i am running phaser with one known domain i am getting the solution but after getting solution i

[ccp4bb]

hi i am solving one structure in which after refinement i got R factor=27 and R free =27.7 i want to know that is it correct or i did some over refinment the Resolution is 3.0 A

[ccp4bb]

i am using restrain refmac for refine ment and coot for fiting its resolution range is 116.248 -3.00 number of used reflections 20215 the R factor is 27.7 and R free is 27.0 and if i am doing further restrain refinement with 0.03 geometry weight  R factor is going down to 25.5 but R