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Magnesium in PDB 6sbj: X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed

Enzymatic activity of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed

All present enzymatic activity of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed:
3.7.1.5; 4.1.1.112;

Protein crystallography data

The structure of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed, PDB code: 6sbj was solved by B.Rupp, A.Naschberger, A.K.H.Weiss, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.65 / 2.22
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 52.401, 69.959, 107.557, 90.00, 92.25, 90.00
R / Rfree (%) 19.3 / 25.7

Other elements in 6sbj:

The structure of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed (pdb code 6sbj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed, PDB code: 6sbj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 6sbj

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Magnesium binding site 1 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:15.9
occ:1.00
 O A:LYS21 2.3 10.9 1.0
O B:LYS21 2.4 10.2 1.0
O B:HOH423 2.5 3.7 1.0
OD1 A:ASN22 2.6 11.4 1.0
OD1 B:ASN22 2.7 9.3 1.0
O A:HOH403 2.7 5.4 1.0
C A:LYS21 3.2 11.3 1.0
C B:LYS21 3.3 10.0 1.0
CG A:ASN22 3.6 11.5 1.0
CG B:ASN22 3.7 9.3 1.0
CA A:ASN22 3.7 11.3 1.0
CA B:ASN22 3.7 9.4 1.0
N A:ASN22 3.8 11.5 1.0
N B:ASN22 3.9 9.6 1.0
CB A:ASN22 4.1 11.3 1.0
CB B:ASN22 4.2 9.4 1.0
CA A:LYS21 4.2 11.6 1.0
CA B:LYS21 4.3 10.4 1.0
N B:SER52 4.4 10.9 1.0
N A:SER52 4.5 9.6 1.0
CB A:LYS21 4.6 11.8 1.0
ND2 A:ASN22 4.6 11.7 1.0
CB B:LYS21 4.6 10.6 1.0
ND2 B:ASN22 4.7 9.4 1.0
CA B:PRO51 4.7 10.3 1.0
CA A:PRO51 4.7 9.5 1.0
O A:LYS50 4.9 8.8 1.0
O B:LYS50 4.9 10.2 1.0
C A:ASN22 4.9 11.1 1.0
CB B:SER52 5.0 11.5 1.0
C B:ASN22 5.0 9.1 1.0

Magnesium binding site 2 out of 6 in 6sbj

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Magnesium binding site 2 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:9.8
occ:1.00
 OE2 A:GLU76 1.8 8.9 1.0
O A:HOH402 2.1 9.9 1.0
OE1 A:GLU74 2.1 16.5 1.0
O A:HOH408 2.2 12.0 1.0
OD2 A:ASP105 2.2 11.6 1.0
O A:HOH422 2.3 14.4 1.0
CD A:GLU76 2.8 8.8 1.0
CG A:ASP105 3.3 11.8 1.0
OE1 A:GLU76 3.3 8.9 1.0
CD A:GLU74 3.4 19.7 1.0
CB A:ASP105 3.6 12.4 1.0
O A:VAL26 3.7 14.7 1.0
NZ A:LYS126 4.1 21.3 1.0
CG A:GLU76 4.1 8.7 1.0
OE2 A:GLU74 4.1 24.5 1.0
O A:GLY27 4.1 24.7 1.0
CB A:GLU74 4.3 14.2 1.0
CA A:GLY194 4.4 9.5 1.0
OD1 A:ASP105 4.4 10.9 1.0
CG A:GLU74 4.4 16.2 1.0
N A:THR195 4.6 9.5 1.0
CZ A:PHE48 4.6 23.2 1.0
CG2 A:THR195 4.7 10.0 1.0
CB A:THR195 4.7 9.9 1.0
C A:GLY194 4.7 9.5 1.0
O A:HOH433 4.8 11.4 1.0
N A:GLY194 4.9 9.2 1.0
O A:HOH432 5.0 4.1 1.0
C A:VAL26 5.0 15.4 1.0

Magnesium binding site 3 out of 6 in 6sbj

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Magnesium binding site 3 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg301

b:12.3
occ:1.00
 O B:HOH436 1.9 13.0 1.0
OD2 B:ASP105 2.0 20.0 1.0
O B:HOH422 2.0 14.2 1.0
OE1 B:GLU74 2.1 14.4 1.0
O B:HOH410 2.1 4.4 1.0
OE2 B:GLU76 2.2 11.6 1.0
CG B:ASP105 3.1 14.9 1.0
CD B:GLU74 3.3 14.9 1.0
CD B:GLU76 3.3 11.4 1.0
NZ B:LYS126 3.6 15.0 1.0
CB B:ASP105 3.6 14.8 1.0
OE1 B:GLU76 3.8 11.5 1.0
O B:VAL26 3.8 20.4 1.0
OE2 B:GLU74 4.0 14.8 1.0
CZ B:PHE48 4.1 11.5 1.0
OD1 B:ASP105 4.2 12.9 1.0
O B:GLY27 4.3 57.1 1.0
CG B:GLU74 4.4 14.0 1.0
CB B:GLU74 4.5 13.6 1.0
CE2 B:PHE48 4.5 11.7 1.0
CG B:GLU76 4.6 11.5 1.0
CA B:GLY194 4.8 11.9 1.0
CE B:LYS126 4.8 15.2 1.0
CG2 B:THR195 4.9 15.2 1.0
N B:THR195 4.9 14.0 1.0
C B:VAL26 5.0 19.7 1.0
CB B:THR195 5.0 15.5 1.0

Magnesium binding site 4 out of 6 in 6sbj

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Magnesium binding site 4 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg301

b:29.6
occ:1.00
 OE1 C:GLU74 1.9 41.2 1.0
O C:HOH402 2.2 20.3 1.0
OE2 C:GLU76 2.2 26.4 1.0
O C:HOH412 2.2 17.9 1.0
OD2 C:ASP105 2.8 19.9 1.0
CD C:GLU74 3.1 42.7 1.0
CD C:GLU76 3.3 26.1 1.0
OE2 C:GLU74 3.8 43.6 1.0
O C:GLY27 3.9 56.5 1.0
OE1 C:GLU76 3.9 24.5 1.0
CG C:ASP105 3.9 21.8 1.0
O C:VAL26 3.9 32.7 1.0
CG2 C:THR195 4.1 38.2 1.0
NZ C:LYS126 4.2 31.3 1.0
CB C:ASP105 4.2 24.2 1.0
CG C:GLU74 4.2 39.0 1.0
CB C:THR195 4.3 39.3 1.0
N C:THR195 4.3 37.0 1.0
CB C:GLU74 4.3 38.6 1.0
CA C:GLY194 4.4 29.5 1.0
CG C:GLU76 4.5 28.1 1.0
C C:GLY194 4.6 32.6 1.0
C C:GLY27 4.8 44.8 1.0
CZ C:PHE48 4.9 19.4 1.0
CA C:THR195 4.9 38.4 1.0
OD1 C:ASP105 5.0 20.8 1.0

Magnesium binding site 5 out of 6 in 6sbj

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Magnesium binding site 5 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg301

b:23.4
occ:1.00
 O C:LYS21 2.2 25.9 1.0
O D:LYS21 2.4 29.4 1.0
OD1 D:ASN22 2.5 17.5 1.0
O C:HOH408 2.6 15.4 1.0
OD1 C:ASN22 2.6 23.1 1.0
O D:HOH407 2.9 20.3 1.0
C C:LYS21 3.2 26.7 1.0
C D:LYS21 3.3 26.8 1.0
CG D:ASN22 3.5 21.8 1.0
CG C:ASN22 3.6 22.3 1.0
CA C:ASN22 3.6 24.8 1.0
CA D:ASN22 3.8 24.2 1.0
N C:ASN22 3.8 26.2 1.0
N D:ASN22 3.9 24.7 1.0
CB C:ASN22 4.1 24.0 1.0
CB D:ASN22 4.1 22.8 1.0
CA C:LYS21 4.2 27.8 1.0
CA D:LYS21 4.3 28.1 1.0
N C:SER52 4.3 30.7 1.0
ND2 D:ASN22 4.4 21.8 1.0
CB D:LYS21 4.5 34.0 1.0
CB C:LYS21 4.6 28.4 1.0
ND2 C:ASN22 4.6 20.7 1.0
N D:SER52 4.6 20.6 1.0
CA C:PRO51 4.6 30.5 1.0
O C:LYS50 4.8 24.5 1.0
C C:ASN22 4.8 25.1 1.0
C C:PRO51 4.9 30.0 1.0
CB C:SER52 4.9 31.0 1.0
CA D:PRO51 4.9 22.9 1.0

Magnesium binding site 6 out of 6 in 6sbj

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Magnesium binding site 6 out of 6 in the X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of X-Ray Structure of Mus Musculus Fumarylacetoacetate Hydrolase Domain Containing Protein 1 (FAHD1) Apo-Form Uuncomplexed within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg302

b:22.8
occ:1.00
 OE2 D:GLU76 2.0 17.9 1.0
O D:HOH401 2.0 10.5 1.0
OE1 D:GLU74 2.1 34.4 1.0
OD2 D:ASP105 2.3 26.0 1.0
O D:HOH419 2.5 30.2 1.0
CD D:GLU76 3.1 17.3 1.0
CD D:GLU74 3.4 38.6 1.0
CG D:ASP105 3.4 22.2 1.0
OE1 D:GLU76 3.6 14.9 1.0
O D:VAL26 3.6 40.3 1.0
CB D:ASP105 3.8 20.1 1.0
NZ D:LYS126 4.0 26.1 1.0
OE2 D:GLU74 4.1 58.9 1.0
O D:GLY27 4.1 40.2 1.0
CG D:GLU76 4.4 17.5 1.0
CZ D:PHE48 4.4 20.5 1.0
CB D:GLU74 4.4 29.1 1.0
CG D:GLU74 4.5 33.2 1.0
CA D:GLY194 4.5 19.1 1.0
OD1 D:ASP105 4.6 19.8 1.0
O D:HOH412 4.6 11.8 1.0
CG2 D:THR195 4.6 25.2 1.0
N D:THR195 4.6 21.7 1.0
CB D:THR195 4.7 25.4 1.0
CE1 D:PHE48 4.8 20.7 1.0
C D:GLY194 4.8 21.6 1.0
C D:VAL26 4.8 32.9 1.0

Reference:

A.K.H.Weiss, A.Naschberger, E.Cappuccio, C.Metzger, L.Mottes, M.Holzknecht, J.Von Velsen, M.W.Bowler, B.Rupp, P.Jansen-Durr. Structural and Functional Comparison of Fumarylacetoacetate Domain Containing Protein 1 (FAHD1) in Human and Mouse. Biosci.Rep. 2020.
ISSN: ISSN 0144-8463
PubMed: 32068790
DOI: 10.1042/BSR20194431
Page generated: Tue Oct 1 17:50:56 2024

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