Atomistry » Cadmium » PDB 1mws-1qvf » 1q8a
Atomistry »
  Cadmium »
    PDB 1mws-1qvf »
      1q8a »

Cadmium in PDB 1q8a: Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met)

Enzymatic activity of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met)

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

Protein crystallography data

The structure of Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met), PDB code: 1q8a 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 (°) 59.120, 86.190, 126.080, 90.00, 99.99, 90.00
R / Rfree (%) 21.4 / 24.2

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met) (pdb code 1q8a). 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+:L-Hcy Complex, Se-Met), PDB code: 1q8a:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1q8a

Go back to Cadmium Binding Sites List in 1q8a
Cadmium binding site 1 out of 2 in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met)


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+:L-Hcy Complex, Se-Met) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd601

b:21.4
occ:1.00
SG A:CYS272 2.4 16.4 1.0
SD A:HCS701 2.5 14.0 1.0
SG A:CYS273 2.6 23.0 1.0
SG A:CYS207 2.7 22.3 1.0
CB A:CYS207 3.4 16.6 1.0
CG A:HCS701 3.4 19.1 1.0
N A:CYS273 3.6 21.5 1.0
CB A:CYS273 3.7 20.3 1.0
CB A:CYS272 3.8 19.5 1.0
CB A:HCS701 3.9 17.2 1.0
OD1 A:ASN234 4.0 22.1 1.0
CA A:CYS273 4.2 20.7 1.0
CA A:CYS207 4.3 18.6 1.0
ND2 A:ASN206 4.4 13.8 1.0
C A:CYS272 4.6 21.2 1.0
CA A:CYS272 4.6 19.4 1.0
OG1 A:THR147 4.8 15.3 1.0
N A:CYS207 5.0 16.5 1.0

Cadmium binding site 2 out of 2 in 1q8a

Go back to Cadmium Binding Sites List in 1q8a
Cadmium binding site 2 out of 2 in the Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (CD2+:L-Hcy Complex, Se-Met)


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+:L-Hcy Complex, Se-Met) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd602

b:23.7
occ:1.00
SG B:CYS272 2.4 19.7 1.0
SG B:CYS207 2.5 30.6 1.0
SD B:HCS702 2.5 15.8 1.0
SG B:CYS273 2.6 25.9 1.0
CB B:CYS207 3.4 23.0 1.0
CG B:HCS702 3.4 21.4 1.0
N B:CYS273 3.6 21.9 1.0
CB B:CYS273 3.7 24.7 1.0
OD1 B:ASN234 3.7 36.5 1.0
CB B:CYS272 3.8 21.2 1.0
CB B:HCS702 3.9 18.9 1.0
CA B:CYS273 4.2 23.9 1.0
CA B:CYS207 4.4 23.7 1.0
ND2 B:ASN206 4.5 20.2 1.0
C B:CYS272 4.6 23.0 1.0
CA B:CYS272 4.6 21.4 1.0
CG B:ASN234 4.7 35.5 1.0
OG1 B:THR147 4.9 19.3 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: Thu Jul 10 11:16:11 2025

Last articles

Cl in 3RAY
Cl in 3RAD
Cl in 3R9C
Cl in 3R9R
Cl in 3R7C
Cl in 3R9Q
Cl in 3R9L
Cl in 3R8H
Cl in 3R8D
Cl in 3R7T
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy