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Magnesium in PDB 3goc: Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196

Enzymatic activity of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196

All present enzymatic activity of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196:
3.1.21.7;

Protein crystallography data

The structure of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196, PDB code: 3goc was solved by F.Forouhar, M.Abashidze, M.Hussain, J.Seetharaman, F.Fang, R.Xiao, K.Cunningham, L.Ma, L.Owens, C.X.Chen, J.K.Everett, R.Nair, T.B.Acton, B.Rost, G.T.Montelione, L.Tong, J.F.Hunt, Northeast Structural Genomicsconsortium (Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.83 / 1.60
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 123.742, 40.563, 107.422, 90.00, 121.61, 90.00
R / Rfree (%) 17.7 / 19.4

Other elements in 3goc:

The structure of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 (pdb code 3goc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196, PDB code: 3goc:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 3goc

Go back to Magnesium Binding Sites List in 3goc
Magnesium binding site 1 out of 4 in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:15.3
occ:1.00
 OD1 A:ASP46 2.2 12.2 1.0
OD1 A:ASP217 2.2 7.9 1.0
O A:HOH305 2.3 13.8 1.0
O A:HOH344 2.3 15.1 1.0
O A:HOH366 2.3 16.2 1.0
MG A:MG302 2.4 30.7 1.0
CG A:ASP46 3.1 13.4 1.0
CG A:ASP217 3.3 7.6 1.0
OD2 A:ASP46 3.4 7.6 1.0
CB A:ASP217 3.7 7.1 1.0
O A:VAL47 4.0 8.8 1.0
OD1 A:ASP114 4.0 14.2 1.0
O A:HOH637 4.1 34.5 1.0
CA A:ASP217 4.2 5.8 1.0
O A:HOH634 4.3 32.1 1.0
OD2 A:ASP217 4.3 13.3 1.0
O A:HOH437 4.4 26.6 1.0
O A:HOH323 4.4 19.9 1.0
NE A:ARG221 4.4 22.2 1.0
O A:HOH410 4.5 17.7 1.0
O A:HOH290 4.5 24.5 1.0
CB A:ASP46 4.5 8.4 1.0
NH1 A:ARG221 4.6 25.9 1.0
SG A:CYS220 4.8 8.1 1.0
O A:HOH743 4.9 35.2 1.0
CZ A:ARG221 4.9 29.2 1.0

Magnesium binding site 2 out of 4 in 3goc

Go back to Magnesium Binding Sites List in 3goc
Magnesium binding site 2 out of 4 in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:30.7
occ:1.00
 MG A:MG301 2.4 15.3 1.0
OD2 A:ASP46 2.5 7.6 1.0
O A:HOH437 2.5 26.6 1.0
O A:HOH743 2.6 35.2 1.0
OD1 A:ASP114 2.9 14.2 1.0
O A:HOH366 3.1 16.2 1.0
OD1 A:ASP46 3.2 12.2 1.0
CG A:ASP46 3.2 13.4 1.0
O A:HOH290 3.4 24.5 1.0
O A:HOH344 3.4 15.1 1.0
O A:HOH305 3.8 13.8 1.0
O A:VAL47 3.9 8.8 1.0
CG A:ASP114 4.0 11.6 1.0
O A:HOH265 4.1 22.6 1.0
O A:HOH485 4.4 30.4 1.0
O A:HOH634 4.4 32.1 1.0
CB A:ASP114 4.5 8.1 1.0
OD1 A:ASP217 4.6 7.9 1.0
CB A:ASP46 4.6 8.4 1.0
N A:VAL47 4.8 5.3 1.0
O A:ASP114 4.9 13.8 1.0
OD2 A:ASP114 5.0 13.5 1.0

Magnesium binding site 3 out of 4 in 3goc

Go back to Magnesium Binding Sites List in 3goc
Magnesium binding site 3 out of 4 in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg301

b:32.6
occ:1.00
 O B:HOH546 2.4 26.8 1.0
OD1 B:ASP46 2.4 17.9 1.0
O B:HOH414 2.4 23.1 1.0
OD1 B:ASP217 2.5 17.4 1.0
O B:HOH356 2.5 19.2 1.0
MG B:MG302 2.9 28.6 1.0
CG B:ASP46 3.3 16.1 1.0
CG B:ASP217 3.4 17.6 1.0
OD2 B:ASP46 3.4 12.9 1.0
O B:HOH544 3.7 33.0 1.0
CB B:ASP217 3.8 11.9 1.0
OD1 B:ASP114 4.0 16.6 1.0
O B:VAL47 4.1 11.4 1.0
O B:HOH425 4.1 28.2 1.0
CA B:ASP217 4.3 11.5 1.0
OD2 B:ASP217 4.4 24.6 1.0
O B:HOH696 4.4 34.2 1.0
O B:HOH393 4.5 27.9 1.0
NE B:ARG221 4.5 26.1 1.0
NH1 B:ARG221 4.6 32.7 1.0
CB B:ASP46 4.7 11.6 1.0
CZ B:ARG221 5.0 35.7 1.0

Magnesium binding site 4 out of 4 in 3goc

Go back to Magnesium Binding Sites List in 3goc
Magnesium binding site 4 out of 4 in the Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:28.6
occ:1.00
 OD2 B:ASP46 2.4 12.9 1.0
OD1 B:ASP114 2.4 16.6 1.0
O B:HOH425 2.4 28.2 1.0
O B:HOH544 2.5 33.0 1.0
O B:HOH646 2.5 26.4 1.0
MG B:MG301 2.9 32.6 1.0
O B:HOH546 3.1 26.8 1.0
CG B:ASP46 3.2 16.1 1.0
OD1 B:ASP46 3.3 17.9 1.0
CG B:ASP114 3.4 15.7 1.0
CB B:ASP114 3.8 11.7 1.0
O B:HOH414 4.1 23.1 1.0
O B:ASP114 4.2 17.8 1.0
O B:VAL47 4.4 11.4 1.0
O B:HOH480 4.4 31.8 1.0
OD2 B:ASP114 4.4 16.7 1.0
O B:HOH356 4.4 19.2 1.0
O B:HOH589 4.5 33.9 1.0
O B:HOH586 4.6 31.7 1.0
CB B:ASP46 4.6 11.6 1.0
N B:VAL47 4.8 9.9 1.0

Reference:

F.Forouhar, M.Abashidze, M.Hussain, J.Seetharaman, F.Fang, R.Xiao, K.Cunningham, L.Ma, L.Owens, C.X.Chen, J.K.Everett, R.Nair, T.B.Acton, B.Rost, G.T.Montelione, L.Tong, J.F.Hunt, Northeast Structural Genomics Consortium (Nesg). Crystal Structure of the Endonuclease V (SAV1684) From Streptomyces Avermitilis. Northeast Structural Genomics Consortium Target SVR196. To Be Published.
Page generated: Wed Aug 14 14:52:45 2024

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