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Cadmium in PDB 1q7z: Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex)

Enzymatic activity of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex)

All present enzymatic activity of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex):
2.1.1.13;

Protein crystallography data

The structure of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex), PDB code: 1q7z was solved by J.C.Evans, D.P.Huddler, M.T.Hilgers, G.Romanchuk, R.G.Matthews, M.L.Ludwig, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 59.540, 85.130, 125.610, 90.00, 100.86, 90.00
R / Rfree (%) 21.6 / 23.7

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex) (pdb code 1q7z). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex), PDB code: 1q7z:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1q7z

Go back to Cadmium Binding Sites List in 1q7z
Cadmium binding site 1 out of 2 in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex)


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd601

b:19.6
occ:1.00
SG A:CYS273 2.4 19.4 1.0
SG A:CYS272 2.4 17.1 1.0
SG A:CYS207 2.5 17.2 1.0
OD1 A:ASN234 2.6 14.4 1.0
N A:CYS273 3.3 18.4 1.0
CB A:CYS207 3.3 14.6 1.0
CB A:CYS273 3.4 19.7 1.0
CB A:CYS272 3.5 16.4 1.0
CG A:ASN234 3.6 16.4 1.0
CA A:CYS207 3.7 16.2 1.0
ND2 A:ASN234 3.9 20.3 1.0
CA A:CYS273 3.9 18.9 1.0
C A:CYS272 4.3 18.2 1.0
CA A:CYS272 4.5 17.6 1.0
N A:CYS207 4.5 14.8 1.0
O A:HOH783 4.6 25.1 1.0
O A:HOH735 4.6 25.2 1.0
N A:SER208 4.7 16.3 1.0
O A:HOH655 4.7 30.9 1.0
C A:CYS207 4.8 15.7 1.0
CB A:ASN234 5.0 17.9 1.0

Cadmium binding site 2 out of 2 in 1q7z

Go back to Cadmium Binding Sites List in 1q7z
Cadmium binding site 2 out of 2 in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex)


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+ Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd602

b:25.8
occ:1.00
SG B:CYS272 2.4 23.6 1.0
SG B:CYS273 2.5 25.5 1.0
SG B:CYS207 2.5 22.3 1.0
OD1 B:ASN234 2.6 22.2 1.0
CB B:CYS207 3.3 21.0 1.0
N B:CYS273 3.4 25.1 1.0
CB B:CYS272 3.5 23.8 1.0
CB B:CYS273 3.5 26.9 1.0
CG B:ASN234 3.5 23.9 1.0
CA B:CYS207 3.7 20.1 1.0
ND2 B:ASN234 3.9 25.3 1.0
CA B:CYS273 4.0 25.4 1.0
O B:HOH630 4.0 31.4 1.0
C B:CYS272 4.3 23.9 1.0
CA B:CYS272 4.5 24.2 1.0
N B:CYS207 4.5 19.2 1.0
O B:HOH715 4.5 35.8 1.0
N B:SER208 4.8 21.8 1.0
C B:CYS207 4.8 19.7 1.0
O B:HOH703 4.8 36.0 1.0
CB B:ASN234 4.9 22.8 1.0

Reference:

J.C.Evans, D.P.Huddler, M.T.Hilgers, G.Romanchuk, R.G.Matthews, M.L.Ludwig. Structures of the N-Terminal Modules Imply Large Domain Motions During Catalysis By Methionine Synthase. Proc.Natl.Acad.Sci.Usa V. 101 3729 2004.
ISSN: ISSN 0027-8424
PubMed: 14752199
DOI: 10.1073/PNAS.0308082100
Page generated: Fri Aug 28 12:20:34 2020
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