Calcium in PDB 6cnp: Crystal Structure of MBD2 Complex with Methylated Cpg Island

Protein crystallography data

The structure of Crystal Structure of MBD2 Complex with Methylated Cpg Island, PDB code: 6cnp was solved by C.Xu, J.Min, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.46 / 2.10
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 40.960, 41.320, 58.670, 101.57, 99.46, 100.54
R / Rfree (%) 18.9 / 21.8

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of MBD2 Complex with Methylated Cpg Island (pdb code 6cnp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of MBD2 Complex with Methylated Cpg Island, PDB code: 6cnp:

Calcium binding site 1 out of 1 in 6cnp

Go back to Calcium Binding Sites List in 6cnp
Calcium binding site 1 out of 1 in the Crystal Structure of MBD2 Complex with Methylated Cpg Island


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of MBD2 Complex with Methylated Cpg Island within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:55.0
occ:1.00
O A:PRO153 2.3 60.7 1.0
O A:LEU155 2.4 47.1 1.0
O A:HOH416 2.5 58.6 1.0
O A:HOH414 2.6 58.5 1.0
C A:PRO153 3.3 59.9 1.0
C A:LEU155 3.5 51.3 1.0
CA A:PRO153 4.0 63.6 1.0
N A:LEU155 4.1 53.8 1.0
C A:ALA154 4.2 58.4 1.0
CA A:PRO156 4.3 53.8 1.0
N A:PRO156 4.3 52.5 1.0
O A:HOH404 4.3 49.4 1.0
N A:ALA154 4.4 57.5 1.0
C A:PRO156 4.4 50.8 1.0
CA A:LEU155 4.5 54.0 1.0
O A:ALA154 4.5 59.6 1.0
CA A:ALA154 4.6 55.9 1.0
O A:PRO156 4.6 49.8 1.0
CB A:PRO153 4.7 60.0 1.0
N A:PRO157 4.7 56.2 1.0
O A:CYS152 4.9 57.5 1.0
CD A:PRO157 5.0 58.0 1.0

Reference:

K.Liu, C.Xu, M.Lei, A.Yang, P.Loppnau, T.R.Hughes, J.Min. Structural Basis For the Ability of Mbd Domains to Bind Methyl-Cg and Tg Sites in Dna. J. Biol. Chem. V. 293 7344 2018.
ISSN: ESSN 1083-351X
PubMed: 29567833
DOI: 10.1074/JBC.RA118.001785
Page generated: Sat Dec 12 06:01:43 2020

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