Zinc in PDB 1vdd: Crystal Structure of Recombinational Repair Protein Recr

The structure of Crystal Structure of Recombinational Repair Protein Recr, PDB code: 1vdd was solved by B.I.Lee, K.H.Kim, S.W.Suh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.39 / 2.50
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	106.218, 121.386, 154.993, 90.00, 90.00, 90.00
R / Rfree (%)	23.3 / 30.1

The binding sites of Zinc atom in the Crystal Structure of Recombinational Repair Protein Recr (pdb code 1vdd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Recombinational Repair Protein Recr, PDB code: 1vdd:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of Recombinational Repair Protein Recr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Recombinational Repair Protein Recr within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn230 b:24.2 occ:1.00 SG A:CYS60 1.9 41.9 1.0 SG A:CYS69 2.0 51.3 1.0 SG A:CYS72 2.2 36.3 1.0 SG A:CYS57 2.5 50.0 1.0 CB A:CYS69 2.9 49.5 1.0 CB A:CYS72 3.3 49.4 1.0 CB A:CYS57 3.4 49.0 1.0 CB A:CYS60 3.5 47.7 1.0 N A:CYS69 3.6 54.5 1.0 N A:CYS60 3.8 52.1 1.0 CA A:CYS69 3.8 53.8 1.0 O A:CYS60 3.9 57.6 1.0 CA A:CYS60 4.1 49.9 1.0 N A:CYS72 4.1 51.0 1.0 C A:CYS60 4.2 49.8 1.0 CA A:CYS72 4.3 48.2 1.0 CB A:ILE59 4.4 56.1 1.0 C A:CYS69 4.5 52.8 1.0 O A:CYS69 4.6 51.4 1.0 CB A:ASN62 4.6 46.2 1.0 C A:LYS68 4.8 57.5 1.0 N A:ASN62 4.9 39.0 1.0 C A:ILE59 4.9 55.9 1.0 CA A:CYS57 4.9 50.2 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of Recombinational Repair Protein Recr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Recombinational Repair Protein Recr within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn231 b:31.9 occ:1.00 SG B:CYS60 2.0 42.5 1.0 SG B:CYS69 2.1 39.8 1.0 SG B:CYS72 2.2 68.1 1.0 SG B:CYS57 2.4 54.1 1.0 CB B:CYS69 3.1 49.3 1.0 O B:CYS60 3.1 65.3 1.0 CB B:CYS57 3.4 54.4 1.0 CB B:CYS72 3.4 61.3 1.0 N B:CYS60 3.5 59.2 1.0 CB B:CYS60 3.6 52.4 1.0 N B:CYS69 3.8 57.8 1.0 CB B:ILE59 3.9 59.9 1.0 C B:CYS60 4.0 58.5 1.0 CA B:CYS69 4.0 54.5 1.0 CA B:CYS60 4.0 57.5 1.0 N B:CYS72 4.2 61.3 1.0 CA B:CYS72 4.4 62.6 1.0 CG1 B:ILE59 4.6 57.6 1.0 O B:CYS69 4.6 57.7 1.0 C B:ILE59 4.6 58.5 1.0 CG2 B:ILE59 4.7 62.0 1.0 CA B:ILE59 4.7 60.5 1.0 C B:CYS69 4.7 55.1 1.0 CB B:ASN62 4.8 48.1 1.0 N B:ILE59 4.8 59.5 1.0 CA B:CYS57 4.8 54.1 1.0 N B:ASN62 4.8 44.6 1.0 C B:LYS68 4.9 58.5 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of Recombinational Repair Protein Recr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Recombinational Repair Protein Recr within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn232 b:40.3 occ:1.00 SG C:CYS69 2.1 39.6 1.0 SG C:CYS57 2.3 33.4 1.0 SG C:CYS72 2.3 45.1 1.0 CB C:CYS60 2.9 50.1 1.0 CB C:CYS57 3.2 23.6 1.0 CB C:CYS69 3.4 30.9 1.0 CB C:CYS72 3.6 42.4 1.0 N C:CYS60 3.6 40.0 1.0 CA C:CYS60 3.7 40.2 1.0 O C:HOH2026 3.9 21.9 1.0 SG C:CYS60 4.2 74.2 1.0 C C:CYS60 4.3 41.7 1.0 N C:CYS69 4.3 34.4 1.0 CB C:ASN62 4.4 32.1 1.0 CA C:CYS69 4.4 31.8 1.0 N C:CYS72 4.5 37.6 1.0 N C:PHE61 4.5 35.3 1.0 N C:ASN62 4.5 35.7 1.0 CA C:CYS72 4.6 37.4 1.0 CA C:CYS57 4.6 26.5 1.0 C C:ILE59 4.6 40.3 1.0 CB C:ILE59 4.7 39.5 1.0 O C:CYS60 5.0 40.3 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of Recombinational Repair Protein Recr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Recombinational Repair Protein Recr within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn233 b:30.2 occ:1.00 SG D:CYS72 2.2 33.8 1.0 SG D:CYS60 2.3 39.1 1.0 SG D:CYS57 2.3 20.8 1.0 SG D:CYS69 2.3 33.4 1.0 CB D:CYS57 3.1 19.5 1.0 CB D:CYS69 3.2 23.7 1.0 CB D:CYS72 3.3 34.2 1.0 CB D:CYS60 3.4 39.9 1.0 N D:CYS60 3.7 35.9 1.0 N D:CYS69 3.8 29.2 1.0 CA D:CYS69 4.0 31.7 1.0 CA D:CYS60 4.1 38.7 1.0 N D:CYS72 4.2 30.0 1.0 CA D:CYS72 4.4 31.1 1.0 CA D:CYS57 4.6 28.1 1.0 CB D:ILE59 4.6 31.3 1.0 C D:ILE59 4.7 37.1 1.0 C D:CYS60 4.7 38.7 1.0 C D:CYS69 4.7 32.0 1.0 CB D:ASN62 4.8 35.2 1.0 N D:PHE61 4.9 37.2 1.0 O D:CYS69 4.9 35.0 1.0

B.I.Lee, K.H.Kim, S.J.Park, S.H.Eom, H.K.Song, S.W.Suh. Ring-Shaped Architecture of Recr: Implications For Its Role in Homologous Recombinational Dna Repair Embo J. V. 23 2029 2004.
ISSN: ISSN 0261-4189
PubMed: 15116069
DOI: 10.1038/SJ.EMBOJ.7600222