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Zinc in PDB 4lw9: Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg

Protein crystallography data

The structure of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg, PDB code: 4lw9 was solved by F.S.Vago, K.Raghunathan, J.C.Jens, W.J.Wedemeyer, M.Bagdasarian, J.S.Brunzelle, D.N.Arvidson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.54 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 88.610, 70.015, 131.544, 90.00, 103.29, 90.00
R / Rfree (%) 20.2 / 24.5

Other elements in 4lw9:

The structure of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg also contains other interesting chemical elements:

Platinum (Pt) 12 atoms
Calcium (Ca) 14 atoms
Chlorine (Cl) 9 atoms
Sodium (Na) 6 atoms

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Zinc atom in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg (pdb code 4lw9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 32 binding sites of Zinc where determined in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg, PDB code: 4lw9:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 32 in 4lw9

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Zinc binding site 1 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:21.4
occ:1.00
OE2 A:GLU44 1.8 19.3 1.0
OD2 A:ASP48 2.0 21.6 1.0
NE2 B:HIS141 2.1 24.3 1.0
NE2 B:HIS140 2.1 24.7 1.0
OE1 A:GLU44 2.2 24.8 1.0
CD A:GLU44 2.4 20.4 1.0
CG A:ASP48 2.7 19.8 1.0
OD1 A:ASP48 2.8 18.7 1.0
CD2 B:HIS141 3.0 25.4 1.0
CD2 B:HIS140 3.0 25.8 1.0
CE1 B:HIS141 3.1 26.9 1.0
CE1 B:HIS140 3.1 25.8 1.0
O A:HOH319 3.9 33.7 1.0
CG A:GLU44 4.0 20.2 1.0
ND1 B:HIS141 4.1 25.8 1.0
CG B:HIS141 4.1 25.8 1.0
ND1 B:HIS140 4.2 26.3 1.0
CB A:ASP48 4.2 18.8 1.0
CG B:HIS140 4.2 26.1 1.0
O B:HOH322 4.2 27.2 1.0
OH A:TYR57 4.3 26.5 1.0
O A:GLU44 4.5 15.6 1.0

Zinc binding site 2 out of 32 in 4lw9

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Zinc binding site 2 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:26.4
occ:1.00
OE1 A:GLU139 1.9 28.2 1.0
NE2 A:HIS144 2.1 34.7 1.0
ND1 A:HIS142 2.1 24.2 1.0
CE1 A:HIS144 2.1 32.6 1.0
CD A:GLU139 2.9 29.1 1.0
CG A:HIS142 3.0 22.7 1.0
CE1 A:HIS142 3.1 23.9 1.0
CB A:HIS142 3.3 23.9 1.0
OE2 A:GLU139 3.4 31.2 1.0
CD2 A:HIS144 3.5 35.5 1.0
ND1 A:HIS144 3.5 36.8 1.0
CG A:HIS144 4.1 37.1 1.0
CG A:GLU139 4.1 28.8 1.0
CD2 A:HIS142 4.2 21.3 1.0
NE2 A:HIS142 4.2 21.3 1.0
CA A:HIS142 4.8 25.8 1.0
O A:GLU139 4.9 22.4 1.0
CA A:GLU139 5.0 22.9 1.0

Zinc binding site 3 out of 32 in 4lw9

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Zinc binding site 3 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:20.5
occ:1.00
OD2 B:ASP48 2.0 18.4 1.0
OE2 B:GLU44 2.0 20.8 1.0
NE2 A:HIS141 2.1 22.3 1.0
NE2 A:HIS140 2.1 19.6 1.0
CD B:GLU44 2.7 21.0 1.0
CG B:ASP48 2.8 19.3 1.0
OE1 B:GLU44 2.8 19.7 1.0
OD1 B:ASP48 2.9 18.0 1.0
CD2 A:HIS141 3.0 22.2 1.0
CE1 A:HIS141 3.0 23.8 1.0
CD2 A:HIS140 3.0 20.5 1.0
CE1 A:HIS140 3.1 20.6 1.0
ND1 A:HIS141 4.1 24.2 1.0
O B:HOH357 4.1 32.9 1.0
CG A:HIS141 4.1 23.8 1.0
CG B:GLU44 4.2 19.8 1.0
ND1 A:HIS140 4.2 19.8 1.0
CG A:HIS140 4.2 19.7 1.0
CB B:ASP48 4.2 18.2 1.0
OH B:TYR57 4.4 23.1 1.0
O A:HOH311 4.4 23.2 1.0
O B:GLU44 4.6 17.1 1.0

Zinc binding site 4 out of 32 in 4lw9

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Zinc binding site 4 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn203

b:30.0
occ:1.00
OE1 B:GLU139 1.9 35.8 1.0
NE2 B:HIS144 2.1 38.0 1.0
ND1 B:HIS142 2.1 26.0 1.0
CD B:GLU139 2.6 33.5 1.0
CD2 B:HIS144 2.8 39.3 1.0
OE2 B:GLU139 2.9 35.0 1.0
CE1 B:HIS142 3.1 25.9 1.0
CG B:HIS142 3.1 25.0 1.0
CE1 B:HIS144 3.2 40.2 1.0
CB B:HIS142 3.4 25.8 1.0
CG B:GLU139 4.0 32.6 1.0
CG B:HIS144 4.0 40.6 1.0
NE2 B:HIS142 4.2 24.7 1.0
ND1 B:HIS144 4.2 40.8 1.0
CD2 B:HIS142 4.2 24.2 1.0
CA B:GLU139 4.9 27.8 1.0
CA B:HIS142 4.9 27.7 1.0
CB B:GLU139 4.9 30.4 1.0
O B:GLU139 5.0 26.4 1.0

Zinc binding site 5 out of 32 in 4lw9

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Zinc binding site 5 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn201

b:22.4
occ:1.00
OE2 D:GLU44 1.9 21.8 1.0
OD2 D:ASP48 2.0 21.1 1.0
NE2 C:HIS140 2.1 24.7 1.0
NE2 C:HIS141 2.1 21.9 1.0
CD D:GLU44 2.7 21.5 1.0
CG D:ASP48 2.7 21.8 1.0
OE1 D:GLU44 2.8 21.1 1.0
OD1 D:ASP48 2.8 21.4 1.0
CD2 C:HIS141 3.0 22.9 1.0
CE1 C:HIS140 3.0 25.3 1.0
CD2 C:HIS140 3.0 25.3 1.0
CE1 C:HIS141 3.1 25.3 1.0
O D:HOH328 4.0 32.0 1.0
CG D:GLU44 4.1 20.8 1.0
ND1 C:HIS140 4.1 26.8 1.0
CG C:HIS141 4.1 25.3 1.0
CB D:ASP48 4.2 20.7 1.0
ND1 C:HIS141 4.2 24.6 1.0
CG C:HIS140 4.2 25.4 1.0
O C:HOH312 4.2 28.9 1.0
O D:GLU44 4.5 16.0 1.0
OH D:TYR57 4.5 25.4 1.0

Zinc binding site 6 out of 32 in 4lw9

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Zinc binding site 6 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


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 Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn202

b:23.0
occ:1.00
OD2 C:ASP48 2.0 20.9 1.0
OE2 C:GLU44 2.0 22.8 1.0
NE2 D:HIS141 2.1 24.2 1.0
NE2 D:HIS140 2.1 22.0 1.0
CD C:GLU44 2.7 22.6 1.0
CG C:ASP48 2.7 20.8 1.0
OE1 C:GLU44 2.8 21.8 1.0
OD1 C:ASP48 2.9 19.4 1.0
CD2 D:HIS141 2.9 25.6 1.0
CD2 D:HIS140 3.0 24.5 1.0
CE1 D:HIS140 3.1 23.5 1.0
CE1 D:HIS141 3.1 26.1 1.0
CG D:HIS141 4.1 24.5 1.0
ND1 D:HIS141 4.1 26.1 1.0
CG C:GLU44 4.1 22.4 1.0
ND1 D:HIS140 4.1 24.6 1.0
CG D:HIS140 4.1 24.6 1.0
CB C:ASP48 4.2 22.2 1.0
O D:HOH306 4.3 29.2 1.0
OH C:TYR57 4.4 26.9 1.0
O C:GLU44 4.6 17.7 1.0

Zinc binding site 7 out of 32 in 4lw9

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Zinc binding site 7 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn203

b:51.3
occ:1.00
NE2 R:HIS143 2.1 48.1 1.0
ND1 C:HIS143 2.1 49.6 1.0
CG C:HIS143 2.5 48.0 1.0
CE1 C:HIS143 2.7 50.3 1.0
CE1 R:HIS143 3.0 47.1 1.0
CB C:HIS143 3.1 45.7 1.0
CD2 R:HIS143 3.1 46.4 1.0
CD2 C:HIS143 3.2 49.3 1.0
NE2 C:HIS143 3.3 50.2 1.0
ND1 R:HIS143 4.1 47.0 1.0
O C:HOH353 4.1 29.8 1.0
CG R:HIS143 4.2 44.8 1.0
CA C:HIS143 4.2 43.8 1.0

Zinc binding site 8 out of 32 in 4lw9

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Zinc binding site 8 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn201

b:27.7
occ:1.00
OE1 D:GLU139 2.0 28.1 1.0
OD2 R:ASP135 2.0 24.0 1.0
NE2 D:HIS144 2.1 34.6 1.0
ND1 D:HIS142 2.1 24.8 1.0
CG R:ASP135 2.7 25.4 1.0
OD1 R:ASP135 2.8 25.4 1.0
CE1 D:HIS144 2.8 35.5 1.0
CD D:GLU139 2.9 29.4 1.0
CG D:HIS142 3.1 25.9 1.0
CE1 D:HIS142 3.1 25.6 1.0
OE2 D:GLU139 3.1 31.9 1.0
CD2 D:HIS144 3.3 36.8 1.0
CB D:HIS142 3.3 26.1 1.0
O R:HOH338 3.8 36.9 1.0
ND1 D:HIS144 4.0 36.9 1.0
CB R:ASP135 4.2 23.7 1.0
NE2 D:HIS142 4.2 24.2 1.0
CD2 D:HIS142 4.2 23.7 1.0
CG D:GLU139 4.3 29.7 1.0
CG D:HIS144 4.3 38.0 1.0
CB R:ASN132 4.5 19.2 1.0
CB D:GLU139 4.7 27.1 1.0
CA D:GLU139 4.7 25.3 1.0
O D:GLU139 4.8 22.4 1.0
CA D:HIS142 4.8 27.0 1.0
O D:HOH342 4.9 46.0 1.0

Zinc binding site 9 out of 32 in 4lw9

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Zinc binding site 9 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn202

b:49.5
occ:1.00
OD1 D:ASP61 2.0 41.5 1.0
CG D:ASP61 2.9 37.6 1.0
OD2 D:ASP61 3.1 39.2 1.0
CB D:ASP61 4.3 32.9 1.0
CA D:ASP61 4.9 29.9 1.0

Zinc binding site 10 out of 32 in 4lw9

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Zinc binding site 10 out of 32 in the Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn203

b:63.0
occ:1.00
CB D:HIS143 3.3 38.5 1.0
O C:HOH353 4.0 29.8 1.0
CA D:HIS143 4.3 37.7 1.0
NE2 R:HIS143 4.9 48.1 1.0
CE1 R:HIS143 5.0 47.1 1.0

Reference:

F.S.Vago, K.Raghunathan, J.C.Jens, W.J.Wedemeyer, M.Bagdasarian, J.S.Brunzelle, D.N.Arvidson. Crystal Structure of Vibrio Cholera Major Pseudopilin Epsg To Be Published.
Page generated: Wed Dec 16 05:33:48 2020

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