Atomistry » Zinc » PDB 3kr5-3l22 » 3kve
Atomistry »
  Zinc »
    PDB 3kr5-3l22 »
      3kve »

Zinc in PDB 3kve: Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site

Protein crystallography data

The structure of Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site, PDB code: 3kve was solved by D.Gergiova, M.T.Murakami, M.Perbandt, R.K.Arni, C.Betzel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.40 / 2.57
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 196.978, 95.839, 108.442, 90.00, 92.53, 90.00
R / Rfree (%) 19.1 / 27.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site (pdb code 3kve). 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 Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site, PDB code: 3kve:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 3kve

Go back to Zinc Binding Sites List in 3kve
Zinc binding site 1 out of 4 in the Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn489

b:19.9
occ:1.00
ND1 A:HIS75 2.2 12.2 1.0
O D:HOH490 2.3 2.0 1.0
OE2 D:GLU279 2.4 26.8 1.0
OE1 D:GLU279 2.6 25.6 1.0
O D:HOH491 2.6 11.4 1.0
CD D:GLU279 2.9 27.7 1.0
CE1 A:HIS75 3.1 10.8 1.0
CG A:HIS75 3.2 12.2 1.0
CB A:HIS75 3.5 12.7 1.0
CA A:HIS75 3.8 13.1 1.0
CE A:MET416 4.2 17.9 1.0
NE2 A:HIS75 4.3 10.4 1.0
CD2 A:HIS75 4.3 10.8 1.0
CG D:GLU279 4.4 27.4 1.0
N A:ARG76 4.4 14.0 1.0
C A:HIS75 4.7 13.7 1.0
O A:ARG76 4.9 14.8 1.0
N A:HIS75 4.9 12.2 1.0

Zinc binding site 2 out of 4 in 3kve

Go back to Zinc Binding Sites List in 3kve
Zinc binding site 2 out of 4 in the Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn489

b:19.1
occ:1.00
OE2 C:GLU279 2.1 32.5 1.0
ND1 B:HIS75 2.2 16.5 1.0
O C:HOH490 2.2 2.0 1.0
O C:HOH491 2.4 9.1 1.0
CD C:GLU279 2.8 31.3 1.0
OE1 C:GLU279 2.8 32.1 1.0
CE1 B:HIS75 3.1 16.6 1.0
CG B:HIS75 3.2 14.9 1.0
CB B:HIS75 3.6 13.4 1.0
CA B:HIS75 3.8 13.2 1.0
CG C:GLU279 4.2 31.0 1.0
NE2 B:HIS75 4.2 16.9 1.0
CD2 B:HIS75 4.3 15.5 1.0
CE B:MET416 4.5 20.6 1.0
N B:ARG76 4.5 13.8 1.0
C B:HIS75 4.7 13.5 1.0
SD B:MET416 4.9 20.5 1.0
N B:HIS75 4.9 12.9 1.0
NH1 B:ARG67 4.9 23.7 1.0
O B:ARG76 5.0 14.4 1.0

Zinc binding site 3 out of 4 in 3kve

Go back to Zinc Binding Sites List in 3kve
Zinc binding site 3 out of 4 in the Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn489

b:29.1
occ:1.00
OE2 B:GLU279 1.9 31.1 1.0
ND1 C:HIS75 1.9 17.3 1.0
O C:HOH492 2.2 2.0 1.0
CD B:GLU279 2.6 32.3 1.0
OE1 B:GLU279 2.7 35.0 1.0
CE1 C:HIS75 2.7 17.4 1.0
CG C:HIS75 3.0 16.7 1.0
CB C:HIS75 3.5 16.2 1.0
CA C:HIS75 3.8 16.4 1.0
NE2 C:HIS75 3.9 17.0 1.0
CD2 C:HIS75 4.0 16.8 1.0
CG B:GLU279 4.1 32.7 1.0
N C:ARG76 4.5 17.6 1.0
C C:HIS75 4.7 17.1 1.0
CE C:MET416 4.7 20.6 1.0
SD C:MET416 4.8 23.3 1.0
NH2 C:ARG67 4.9 31.1 1.0
O C:ARG76 4.9 18.8 1.0
N C:HIS75 5.0 15.4 1.0

Zinc binding site 4 out of 4 in 3kve

Go back to Zinc Binding Sites List in 3kve
Zinc binding site 4 out of 4 in the Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn489

b:22.6
occ:1.00
ND1 D:HIS75 1.9 18.7 1.0
OE2 A:GLU279 2.2 32.2 1.0
O A:HOH493 2.4 2.0 1.0
OE1 A:GLU279 2.6 31.3 1.0
CD A:GLU279 2.7 31.6 1.0
CE1 D:HIS75 2.9 18.6 1.0
CG D:HIS75 3.0 16.6 1.0
CB D:HIS75 3.4 14.5 1.0
CA D:HIS75 3.7 14.6 1.0
CE D:MET416 3.8 23.8 1.0
NE2 D:HIS75 4.0 20.0 1.0
CD2 D:HIS75 4.1 18.0 1.0
CG A:GLU279 4.2 31.7 1.0
N D:ARG76 4.6 14.4 1.0
C D:HIS75 4.7 14.6 1.0
N D:HIS75 4.8 14.1 1.0
O D:ARG76 4.9 14.2 1.0

Reference:

D.Gergiova, M.T.Murakami, M.Perbandt, R.K.Arni, C.Betzel. Structure of Native L-Amino Acid Oxidase From Vipera Ammodytes Ammodytes: Stabilization of the Quaternary Structure By Divalent Ions and Structural Changes in the Dynamic Active Site To Be Published.
Page generated: Wed Dec 16 04:31:13 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy