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Zinc in PDB 7rwm: Structure of CAP5 From Lactococcus Lactis

Protein crystallography data

The structure of Structure of CAP5 From Lactococcus Lactis, PDB code: 7rwm was solved by R.H.Huang, S.Fatma, A.Chakravarti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.19 / 3.40
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 180.772, 180.772, 93.457, 90, 90, 90
R / Rfree (%) 24.9 / 29.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of CAP5 From Lactococcus Lactis (pdb code 7rwm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of CAP5 From Lactococcus Lactis, PDB code: 7rwm:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 7rwm

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Zinc binding site 1 out of 4 in the Structure of CAP5 From Lactococcus Lactis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of CAP5 From Lactococcus Lactis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:92.1
occ:1.00
ND1 A:HIS87 2.1 108.8 1.0
SG A:CYS35 2.3 71.8 1.0
SG A:CYS84 2.3 119.1 1.0
SG A:CYS32 2.3 112.0 1.0
CE1 A:HIS87 3.0 108.4 1.0
CG A:HIS87 3.1 93.1 1.0
CB A:CYS32 3.2 109.4 1.0
CB A:CYS35 3.4 90.6 1.0
CB A:HIS87 3.5 86.4 1.0
CB A:CYS84 3.6 104.2 1.0
N A:CYS35 3.9 83.0 1.0
N A:CYS84 3.9 107.8 1.0
NE2 A:HIS87 4.1 91.7 1.0
CD2 A:HIS87 4.2 96.5 1.0
CA A:CYS35 4.3 85.7 1.0
CA A:CYS84 4.4 94.8 1.0
N A:HIS87 4.5 93.6 1.0
CA A:HIS87 4.6 93.5 1.0
CA A:CYS32 4.6 110.7 1.0
CD A:LYS37 4.8 124.5 1.0
CB A:ILE34 4.9 72.8 1.0
C A:CYS35 4.9 90.0 1.0

Zinc binding site 2 out of 4 in 7rwm

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Zinc binding site 2 out of 4 in the Structure of CAP5 From Lactococcus Lactis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of CAP5 From Lactococcus Lactis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:85.5
occ:1.00
ND1 B:HIS87 2.1 104.7 1.0
SG B:CYS35 2.3 84.7 1.0
SG B:CYS84 2.3 106.2 1.0
SG B:CYS32 2.3 101.8 1.0
CE1 B:HIS87 3.1 101.5 1.0
CG B:HIS87 3.1 83.7 1.0
CB B:CYS32 3.2 101.4 1.0
CB B:HIS87 3.4 87.6 1.0
CB B:CYS35 3.4 97.2 1.0
CB B:CYS84 3.6 94.6 1.0
N B:CYS35 3.9 83.2 1.0
N B:CYS84 3.9 99.7 1.0
NE2 B:HIS87 4.1 76.6 1.0
CD2 B:HIS87 4.1 74.2 1.0
CA B:CYS35 4.2 84.9 1.0
CA B:CYS84 4.4 96.3 1.0
N B:HIS87 4.5 95.3 1.0
CA B:HIS87 4.6 99.9 1.0
CA B:CYS32 4.6 109.2 1.0
CD B:LYS37 4.8 130.5 1.0
CB B:ILE34 4.8 91.4 1.0
C B:CYS35 4.9 87.3 1.0

Zinc binding site 3 out of 4 in 7rwm

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Zinc binding site 3 out of 4 in the Structure of CAP5 From Lactococcus Lactis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of CAP5 From Lactococcus Lactis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:77.1
occ:1.00
ND1 C:HIS87 2.1 96.8 1.0
SG C:CYS84 2.3 80.6 1.0
SG C:CYS35 2.3 73.7 1.0
SG C:CYS32 2.3 85.4 1.0
CE1 C:HIS87 2.9 87.6 1.0
CG C:HIS87 3.0 79.6 1.0
CB C:CYS32 3.1 79.3 1.0
CB C:HIS87 3.4 77.4 1.0
CB C:CYS35 3.6 73.0 1.0
CB C:CYS84 3.7 86.4 1.0
N C:CYS35 3.9 61.2 1.0
N C:CYS84 3.9 80.2 1.0
NE2 C:HIS87 4.0 75.8 1.0
CD2 C:HIS87 4.0 69.4 1.0
CA C:CYS35 4.3 66.7 1.0
CA C:CYS84 4.4 84.5 1.0
N C:HIS87 4.5 83.5 1.0
CA C:CYS32 4.6 71.2 1.0
CA C:HIS87 4.6 82.4 1.0
CB C:ILE34 4.6 74.5 1.0
CD C:LYS37 4.7 133.1 1.0
CG2 C:ILE34 5.0 70.7 1.0
C C:CYS35 5.0 76.2 1.0
C C:ILE34 5.0 69.8 1.0

Zinc binding site 4 out of 4 in 7rwm

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Zinc binding site 4 out of 4 in the Structure of CAP5 From Lactococcus Lactis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of CAP5 From Lactococcus Lactis within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:79.1
occ:1.00
ND1 D:HIS87 2.1 95.3 1.0
SG D:CYS84 2.3 101.4 1.0
SG D:CYS35 2.3 79.8 1.0
SG D:CYS32 2.3 88.7 1.0
CE1 D:HIS87 2.9 90.3 1.0
CG D:HIS87 3.1 77.5 1.0
CB D:CYS32 3.1 70.8 1.0
CB D:HIS87 3.5 75.7 1.0
CB D:CYS35 3.6 76.1 1.0
CB D:CYS84 3.8 88.7 1.0
NE2 D:HIS87 3.9 79.3 1.0
N D:CYS35 4.0 51.9 1.0
N D:CYS84 4.0 78.2 1.0
CD2 D:HIS87 4.0 69.8 1.0
CA D:CYS35 4.4 68.1 1.0
CA D:CYS84 4.5 85.5 1.0
CD D:LYS37 4.5 116.9 1.0
CA D:CYS32 4.5 65.3 1.0
N D:HIS87 4.6 82.1 1.0
CA D:HIS87 4.7 83.8 1.0
CG D:LYS37 4.9 103.2 1.0
CB D:ILE34 4.9 66.5 1.0
CE D:LYS37 4.9 126.8 1.0
C D:CYS35 5.0 73.5 1.0
CB D:LYS37 5.0 88.5 1.0

Reference:

S.Fatma, A.Chakravarti, X.Zeng, R.H.Huang. Structure of CAP5 From Lactococcus Lactis To Be Published.
Page generated: Thu Nov 25 10:57:25 2021

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