Calcium in PDB 1zde: 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803

All present enzymatic activity of 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803:
2.7.7.7;

The structure of 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803, PDB code: 1zde was solved by P.Sun, S.Ye, S.Ferrandon, T.C.Evans, M.Q.Xu, Z.Rao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	42.489, 58.224, 67.124, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 22.2

The structure of 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803 also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Calcium atom in the 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803 (pdb code 1zde). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803, PDB code: 1zde:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca291 b:28.2 occ:1.00 O A:HOH402 2.3 35.1 1.0 O A:HOH401 2.4 28.6 1.0 O A:HOH361 2.4 34.0 1.0 O A:HOH341 2.4 24.8 1.0 O A:HOH362 2.4 44.4 1.0 OE1 A:GLU108 2.5 30.7 1.0 OE2 A:GLU108 2.5 36.0 1.0 CD A:GLU108 2.8 35.2 1.0 O A:ASN163 4.3 18.7 1.0 CG A:GLU108 4.3 34.3 1.0 OD1 A:ASP72 4.6 18.4 1.0 NZ A:LYS133 4.6 24.2 1.0 C A:ASN163 4.7 17.2 1.0 CA A:ASN163 4.8 17.2 1.0

Calcium binding site 2 out of 2 in the 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of 1.95 Angstrom Crystal Structure of A Dnae Intein Precursor From Synechocystis Sp. Pcc 6803 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca292 b:45.9 occ:1.00 O A:HOH365 2.3 12.2 1.0 O A:HOH366 2.3 37.7 1.0 O A:HOH367 2.3 35.7 1.0 O A:HOH368 2.4 51.5 1.0 OE2 A:GLU71 2.4 21.5 1.0 O A:MET134 2.4 19.6 1.0 OE1 A:GLU71 2.4 28.0 1.0 CD A:GLU71 2.8 24.1 1.0 C A:MET134 3.6 19.6 1.0 CG A:GLU71 4.3 21.1 1.0 OD2 A:ASP103 4.4 22.5 1.0 CA A:VAL135 4.4 18.4 1.0 N A:VAL135 4.4 18.8 1.0 CB A:MET134 4.6 20.7 1.0 CA A:MET134 4.7 20.5 1.0 N A:LYS136 4.7 17.9 1.0 OD1 A:ASP103 4.9 27.4 1.0 CG A:ASP103 5.0 22.1 1.0

P.Sun, S.Ye, S.Ferrandon, T.C.Evans, M.Q.Xu, Z.Rao. Crystal Structures of An Intein From the Split Dnae Gene of Synechocystis Sp. PCC6803 Reveal the Catalytic Model Without the Penultimate Histidine and the Mechanism of Zinc Ion Inhibition of Protein Splicing J.Mol.Biol. V. 353 1093 2005.
ISSN: ISSN 0022-2836
PubMed: 16219320
DOI: 10.1016/J.JMB.2005.09.039