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Cobalt in PDB 2oue: Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution

Protein crystallography data

The structure of Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution, PDB code: 2oue was solved by J.E.Wedekind, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.40 / 2.05
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 93.272, 93.272, 131.250, 90.00, 90.00, 120.00
R / Rfree (%) 25.2 / 26.8

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution (pdb code 2oue). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution, PDB code: 2oue:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in 2oue

Go back to Cobalt Binding Sites List in 2oue
Cobalt binding site 1 out of 2 in the Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co101

b:73.9
occ:1.00
CO B:NCO101 0.0 73.9 1.0
N5 B:NCO101 2.0 75.6 1.0
N2 B:NCO101 2.0 79.0 1.0
N3 B:NCO101 2.0 76.6 1.0
N4 B:NCO101 2.0 76.6 1.0
N6 B:NCO101 2.0 76.1 1.0
N1 B:NCO101 2.0 75.1 1.0
O6 B:G12 3.9 47.8 1.0
O6 B:G13 4.0 50.0 1.0
N7 B:G12 4.4 52.1 1.0
O B:HOH205 4.4 54.9 1.0
O2 A:SO4201 4.6 59.0 0.5
C6 B:G12 4.7 46.8 1.0
O3 A:SO4201 4.7 62.4 0.5
O6 B:G11 4.9 54.1 1.0
C5 B:G12 4.9 49.7 1.0
C6 B:G13 5.0 50.7 1.0

Cobalt binding site 2 out of 2 in 2oue

Go back to Cobalt Binding Sites List in 2oue
Cobalt binding site 2 out of 2 in the Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of A Junctionless All-Rna Hairpin Ribozyme at 2.05 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co101

b:38.0
occ:1.00
CO D:NCO101 0.0 38.0 1.0
N5 D:NCO101 2.0 57.8 1.0
N2 D:NCO101 2.0 54.5 1.0
N3 D:NCO101 2.0 56.4 1.0
N4 D:NCO101 2.0 56.8 1.0
N1 D:NCO101 2.0 52.1 1.0
N6 D:NCO101 2.0 54.5 1.0
OP1 D:A40 3.6 73.2 1.0
OP2 C:A20 3.8 82.0 1.0
OP2 D:U41 3.9 65.0 1.0
O6 C:G21 4.0 62.5 1.0
N7 C:G21 4.4 61.6 1.0
P D:A40 4.6 75.8 1.0
OP2 D:A40 4.8 73.1 1.0
C6 C:G21 4.9 60.1 1.0
N7 C:A20 5.0 65.8 1.0

Reference:

J.Salter, J.Krucinska, S.Alam, V.Grum-Tokars, J.E.Wedekind. Water in the Active Site of An All-Rna Hairpin Ribozyme and Effects of GUA8 Base Variants on the Geometry of Phosphoryl Transfer. Biochemistry V. 45 686 2006.
ISSN: ISSN 0006-2960
PubMed: 16411744
DOI: 10.1021/BI051887K
Page generated: Sun Dec 13 10:38:33 2020

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