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Zinc in PDB 1sw1: Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine

Protein crystallography data

The structure of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine, PDB code: 1sw1 was solved by A.Schiefner, G.Holtmann, K.Diederichs, W.Welte, E.Bremer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 64.400, 78.400, 67.800, 90.00, 91.70, 90.00
R / Rfree (%) 18 / 21.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine (pdb code 1sw1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine, PDB code: 1sw1:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 1sw1

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Zinc binding site 1 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:29.8
occ:1.00
OD2 A:ASP239 1.9 30.6 1.0
OD2 B:ASP239 1.9 28.9 1.0
OE2 B:GLU238 2.0 28.1 1.0
OE2 A:GLU238 2.0 31.5 1.0
CG B:ASP239 2.7 26.5 1.0
CG A:ASP239 2.8 26.2 1.0
OD1 B:ASP239 2.9 27.8 1.0
OD1 A:ASP239 2.9 26.4 1.0
CD A:GLU238 3.0 31.5 1.0
CD B:GLU238 3.0 25.7 1.0
CG A:GLU238 3.3 29.6 1.0
CG B:GLU238 3.4 28.3 1.0
OE1 A:GLU238 4.1 31.7 1.0
OE1 B:GLU238 4.1 27.4 1.0
CB B:ASP239 4.2 26.9 1.0
CB A:ASP239 4.2 27.6 1.0
O A:HOH458 4.2 42.8 1.0
CD B:LYS104 4.7 38.2 1.0
O A:HOH491 4.7 41.1 1.0
CD A:LYS104 4.8 39.1 1.0
CB B:LYS104 4.8 29.1 1.0
N B:ASP239 4.8 26.3 1.0
CB A:GLU238 4.8 28.8 1.0
CB A:LYS104 4.8 30.4 1.0
CB B:GLU238 4.8 28.4 1.0
N A:ASP239 4.8 26.7 1.0
CE A:LYS104 4.9 43.1 1.0

Zinc binding site 2 out of 6 in 1sw1

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Zinc binding site 2 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:32.9
occ:1.00
O A:HOH441 1.4 24.0 1.0
OD2 A:ASP242 1.9 28.7 1.0
OD2 B:ASP81 2.0 32.7 1.0
OD2 A:ASP244 2.0 32.4 1.0
OD1 A:ASP244 2.7 34.5 1.0
CG A:ASP242 2.7 29.1 1.0
OD1 B:ASP81 2.7 29.3 1.0
CG B:ASP81 2.7 30.7 1.0
CG A:ASP244 2.7 30.3 1.0
OD1 A:ASP242 2.9 23.6 1.0
O A:HOH420 3.9 29.5 1.0
OG1 A:THR245 4.1 28.3 1.0
CB A:ASP242 4.1 26.3 1.0
CB A:ASP244 4.2 27.9 1.0
CB B:ASP81 4.2 30.0 1.0
N A:THR245 4.5 26.3 1.0
O A:HOH486 4.8 40.0 1.0
O B:HOH536 4.9 38.1 1.0
CA A:ASP244 5.0 27.5 1.0
N A:ASP244 5.0 26.2 1.0

Zinc binding site 3 out of 6 in 1sw1

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Zinc binding site 3 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn404

b:42.5
occ:1.00
O A:HOH503 1.8 40.3 1.0
OD1 A:ASP136 2.1 28.5 1.0
O A:HOH490 2.3 37.7 1.0
O A:HOH519 2.4 43.3 1.0
OD2 A:ASP136 2.6 29.8 1.0
CG A:ASP136 2.7 30.1 1.0
O A:HOH423 4.1 27.7 1.0
O A:GLU133 4.1 29.2 1.0
CB A:ASP136 4.2 29.4 1.0
CG A:GLN137 4.4 36.4 1.0
CD A:GLN137 4.8 44.2 1.0
N A:ASP136 4.9 28.4 1.0
CA A:ASP136 4.9 29.4 1.0
OE1 A:GLN137 5.0 47.2 1.0

Zinc binding site 4 out of 6 in 1sw1

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Zinc binding site 4 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn406

b:46.9
occ:0.50
O A:HOH448 2.1 30.1 0.5
O A:HOH449 2.1 30.7 0.5
O A:LYS275 2.3 49.7 1.0
C A:LYS275 3.2 50.0 1.0
CE A:LYS269 4.4 41.5 1.0
O A:HOH492 4.4 42.5 1.0
CA A:LYS275 4.6 49.9 1.0

Zinc binding site 5 out of 6 in 1sw1

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Zinc binding site 5 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:35.1
occ:1.00
O B:HOH454 1.3 24.8 1.0
OD2 A:ASP81 2.0 30.7 1.0
OD2 B:ASP242 2.0 29.7 1.0
OD2 B:ASP244 2.1 33.3 1.0
OD1 B:ASP244 2.6 37.8 1.0
CG A:ASP81 2.7 32.1 1.0
CG B:ASP244 2.7 31.5 1.0
OD1 A:ASP81 2.7 29.1 1.0
CG B:ASP242 2.8 27.8 1.0
OD1 B:ASP242 2.9 24.3 1.0
O B:HOH511 3.9 46.8 1.0
O B:HOH448 3.9 34.7 1.0
OG1 B:THR245 4.1 26.7 1.0
CB B:ASP244 4.2 28.4 1.0
CB B:ASP242 4.2 26.1 1.0
CB A:ASP81 4.2 30.0 1.0
N B:THR245 4.5 26.4 1.0
O B:HOH426 4.9 35.2 1.0
CA B:ASP244 4.9 27.8 1.0
CB A:GLN83 5.0 31.4 1.0
N B:ASP244 5.0 26.6 1.0

Zinc binding site 6 out of 6 in 1sw1

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Zinc binding site 6 out of 6 in the Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Prox From Archeoglobus Fulgidus in Complex with Proline Betaine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn405

b:35.6
occ:1.00
OD1 B:ASP136 2.0 29.5 1.0
O B:HOH423 2.1 33.5 1.0
O B:HOH450 2.1 45.3 1.0
O B:HOH421 2.4 36.6 1.0
OD2 B:ASP136 2.7 33.1 1.0
CG B:ASP136 2.7 29.8 1.0
O B:HOH408 4.0 22.4 1.0
O B:GLU133 4.1 28.7 1.0
OE1 B:GLN137 4.1 45.1 1.0
CB B:ASP136 4.2 29.3 1.0
CG B:GLN137 4.2 35.9 1.0
CD B:GLN137 4.4 41.8 1.0
N B:ASP136 4.7 27.9 1.0
CA B:ASP136 4.8 29.3 1.0
C B:ASP136 4.9 29.9 1.0

Reference:

A.Schiefner, G.Holtmann, K.Diederichs, W.Welte, E.Bremer. Structural Basis For the Binding of Compatible Solutes By Prox From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus. J.Biol.Chem. V. 279 48270 2004.
ISSN: ISSN 0021-9258
PubMed: 15308642
DOI: 10.1074/JBC.M403540200
Page generated: Mon Jan 25 16:13:31 2021

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