Copper in PDB 3wo7: Crystal Structure of Yidc From Bacillus Halodurans (Form II)

The structure of Crystal Structure of Yidc From Bacillus Halodurans (Form II), PDB code: 3wo7 was solved by K.Kumazaki, T.Tsukazaki, R.Ishitani, O.Nureki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.00 / 3.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.033, 70.058, 82.910, 90.00, 92.05, 90.00
R / Rfree (%)	26 / 29.1

The binding sites of Copper atom in the Crystal Structure of Yidc From Bacillus Halodurans (Form II) (pdb code 3wo7). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Crystal Structure of Yidc From Bacillus Halodurans (Form II), PDB code: 3wo7:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in the Crystal Structure of Yidc From Bacillus Halodurans (Form II)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of Yidc From Bacillus Halodurans (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu301 b:0.8 occ:0.78 OE1 A:GLU34 2.4 0.7 1.0 CD A:GLU34 3.4 0.8 1.0 OE2 A:GLU34 3.8 0.6 1.0 CG A:GLU34 4.6 0.4 1.0 ND2 A:ASN38 5.0 0.1 1.0

Copper binding site 2 out of 4 in the Crystal Structure of Yidc From Bacillus Halodurans (Form II)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of Yidc From Bacillus Halodurans (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu302 b:0.1 occ:1.00 NE2 A:HIS39 2.4 92.2 1.0 CE1 A:HIS39 3.3 94.5 1.0 CD2 A:HIS39 3.4 82.9 1.0 ND1 A:HIS39 4.4 85.3 1.0 CG A:HIS39 4.5 83.5 1.0

Copper binding site 3 out of 4 in the Crystal Structure of Yidc From Bacillus Halodurans (Form II)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure of Yidc From Bacillus Halodurans (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu301 b:0.8 occ:0.69 OE1 B:GLU34 2.1 0.9 1.0 CD B:GLU34 3.1 0.7 1.0 OE2 B:GLU34 3.4 0.1 1.0 CG B:GLU34 4.4 0.7 1.0

Copper binding site 4 out of 4 in the Crystal Structure of Yidc From Bacillus Halodurans (Form II)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure of Yidc From Bacillus Halodurans (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu302 b:0.4 occ:1.00 NE2 B:HIS39 2.1 92.1 1.0 CD2 B:HIS39 2.9 85.4 1.0 CE1 B:HIS39 3.2 88.8 1.0 CG B:HIS39 4.1 85.3 1.0 ND1 B:HIS39 4.2 84.7 1.0 CA B:GLY35 4.9 85.9 1.0

K.Kumazaki, S.Chiba, M.Takemoto, A.Furukawa, K.Nishiyama, Y.Sugano, T.Mori, N.Dohmae, K.Hirata, Y.Nakada-Nakura, A.D.Maturana, Y.Tanaka, H.Mori, Y.Sugita, F.Arisaka, K.Ito, R.Ishitani, T.Tsukazaki, O.Nureki. Structural Basis of Sec-Independent Membrane Protein Insertion By Yidc Nature 2014.
ISSN: ESSN 1476-4687
DOI: 10.1038/NATURE13167