Calcium in PDB 1ch0: Rnase T1 Variant with Altered Guanine Binding Segment

All present enzymatic activity of Rnase T1 Variant with Altered Guanine Binding Segment:
3.1.27.3;

The structure of Rnase T1 Variant with Altered Guanine Binding Segment, PDB code: 1ch0 was solved by K.Hoeschler, H.Hoier, P.Orth, B.Hubner, W.Saenger, U.Hahn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.60 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.820, 48.850, 158.770, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 24.1

The structure of Rnase T1 Variant with Altered Guanine Binding Segment also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Calcium atom in the Rnase T1 Variant with Altered Guanine Binding Segment (pdb code 1ch0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Rnase T1 Variant with Altered Guanine Binding Segment, PDB code: 1ch0:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Rnase T1 Variant with Altered Guanine Binding Segment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Rnase T1 Variant with Altered Guanine Binding Segment within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca107 b:41.0 occ:0.80 O A:HOH116 2.3 30.7 1.0 O A:HOH117 2.3 35.1 1.0 O A:HOH130 2.4 28.1 1.0 O A:HOH119 2.4 25.1 1.0 O3P A:2GP105 2.4 27.9 1.0 O A:HOH118 2.5 19.1 1.0 OE2 A:GLU58 3.5 17.6 1.0 OD1 A:ASN36 3.7 43.0 1.0 OH A:TYR38 3.7 13.1 1.0 P A:2GP105 3.8 25.6 1.0 ND2 B:ASN83 3.8 27.5 1.0 NE2 A:HIS92 4.0 20.3 1.0 O2P A:2GP105 4.2 26.7 1.0 OE1 A:GLU58 4.2 20.3 1.0 CD A:GLU58 4.3 19.4 1.0 O B:HOH112 4.4 30.7 1.0 O1P A:2GP105 4.5 28.2 1.0 NE2 A:HIS40 4.5 14.0 1.0 NH2 A:ARG77 4.6 16.6 1.0 CG B:ASN83 4.7 28.8 1.0 CZ A:PHE100 4.7 8.3 1.0 CE1 A:HIS92 4.8 20.8 1.0 OD1 A:ASN98 4.9 18.6 1.0 N3 A:2GP105 4.9 25.4 1.0 OD1 B:ASN83 4.9 29.8 1.0 CG A:ASN36 4.9 41.8 1.0 CZ A:TYR38 4.9 14.4 1.0 O2' A:2GP105 5.0 24.6 1.0

Calcium binding site 2 out of 4 in the Rnase T1 Variant with Altered Guanine Binding Segment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Rnase T1 Variant with Altered Guanine Binding Segment within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca108 b:41.0 occ:0.40 NE2 B:HIS92 3.0 32.6 1.0 O B:HOH115 3.2 34.0 1.0 OE2 B:GLU58 3.6 38.6 1.0 O B:HOH114 3.6 33.6 1.0 NH2 B:ARG77 3.8 22.9 1.0 CE1 B:HIS92 3.8 30.5 1.0 OH B:TYR38 3.9 40.9 1.0 ND2 C:ASN83 4.0 30.3 1.0 CD2 B:HIS92 4.1 30.9 1.0 CZ B:PHE100 4.1 30.0 1.0 CG C:ASN83 4.2 30.6 1.0 OD1 B:ASN98 4.2 70.8 1.0 NE B:ARG77 4.3 25.6 1.0 OD1 C:ASN83 4.4 30.4 1.0 CZ B:ARG77 4.5 25.6 1.0 CD B:GLU58 4.6 36.9 1.0 OE1 B:GLU58 4.7 37.9 1.0 O C:HOH181 4.8 32.8 1.0 CE1 B:PHE100 4.8 32.3 1.0 CE2 B:PHE100 4.9 32.5 1.0 ND1 B:HIS92 5.0 32.6 1.0

Calcium binding site 3 out of 4 in the Rnase T1 Variant with Altered Guanine Binding Segment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Rnase T1 Variant with Altered Guanine Binding Segment within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca109 b:40.3 occ:1.00 O1P C:2GP106 2.1 25.4 1.0 O C:HOH123 2.2 15.4 1.0 O C:HOH124 2.4 19.2 1.0 O C:HOH128 2.5 18.5 1.0 O C:HOH122 2.5 15.5 1.0 CL C:CL111 2.8 35.3 0.8 P C:2GP106 3.2 24.5 1.0 O3P C:2GP106 3.3 27.5 1.0 ND2 C:ASN36 3.5 32.7 1.0 O2' C:2GP106 4.1 23.0 1.0 OE1 C:GLU58 4.1 15.8 1.0 NE2 C:HIS40 4.2 15.4 1.0 OE2 C:GLU58 4.2 17.2 1.0 C1' C:2GP106 4.2 21.1 1.0 O2P C:2GP106 4.3 31.7 1.0 C2' C:2GP106 4.3 20.3 1.0 N3 C:2GP106 4.3 16.7 1.0 OH C:TYR38 4.3 15.0 1.0 CE1 C:HIS40 4.5 17.6 1.0 CD C:GLU58 4.6 17.2 1.0 O C:HOH130 4.6 18.5 1.0 OD1 C:ASN98 4.7 16.5 1.0 CG C:ASN36 4.7 33.3 1.0 N9 C:2GP106 4.8 19.5 1.0 C4 C:2GP106 4.8 16.6 1.0 NE2 C:HIS92 4.9 12.1 1.0

Calcium binding site 4 out of 4 in the Rnase T1 Variant with Altered Guanine Binding Segment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Rnase T1 Variant with Altered Guanine Binding Segment within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca110 b:34.8 occ:0.40 O C:HOH158 2.4 60.9 1.0 O C:HOH157 2.5 43.9 1.0 O C:HOH143 2.5 38.1 1.0 O2P C:2GP106 2.6 31.7 1.0 O C:HOH162 2.6 67.8 1.0 OD1 C:ASN36 2.9 33.9 1.0 O2' C:2GP106 3.1 23.0 1.0 P C:2GP106 3.3 24.5 1.0 O1P C:2GP106 3.8 25.4 1.0 CG C:ASN36 3.9 33.3 1.0 O C:HOH138 3.9 36.9 1.0 ND2 C:ASN36 4.2 32.7 1.0 O C:HOH133 4.4 26.2 1.0 C2' C:2GP106 4.5 20.3 1.0 O C:HOH185 4.5 41.1 1.0 O3' C:2GP106 4.6 21.5 1.0 O3P C:2GP106 4.7 27.5 1.0 C4' C:2GP106 4.7 24.9 1.0 C3' C:2GP106 4.8 21.2 1.0 O4' C:2GP106 4.9 24.6 1.0

K.Hoschler, H.Hoier, B.Hubner, W.Saenger, P.Orth, U.Hahn. Structural Analysis of An Rnase T1 Variant with An Altered Guanine Binding Segment. J.Mol.Biol. V. 294 1231 1999.
ISSN: ISSN 0022-2836
PubMed: 10600381
DOI: 10.1006/JMBI.1999.3324