Atomistry » Zinc » PDB 5ulk-5upg » 5up8
Atomistry »
  Zinc »
    PDB 5ulk-5upg »
      5up8 »

Zinc in PDB 5up8: Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate

Enzymatic activity of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate

All present enzymatic activity of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate, PDB code: 5up8 was solved by J.B.Bailey, L.Zhang, J.C.Chiong, S.Ahn, F.A.Tezcan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.27 / 2.63
Space group I 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 155.810, 155.810, 155.810, 90.00, 90.00, 90.00
R / Rfree (%) 20.9 / 26.2

Other elements in 5up8:

The structure of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate also contains other interesting chemical elements:

Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate (pdb code 5up8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate, PDB code: 5up8:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 5up8

Go back to Zinc Binding Sites List in 5up8
Zinc binding site 1 out of 3 in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate


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 the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:71.3
occ:1.00
O A:HOH302 2.1 75.8 1.0
OE2 A:GLU62 2.1 66.0 1.0
OE2 A:GLU27 2.1 69.8 1.0
ND1 A:HIS65 2.4 93.1 1.0
CD A:GLU62 2.9 85.6 1.0
CD A:GLU27 2.9 80.7 1.0
OE1 A:GLU62 3.0 0.8 1.0
OE1 A:GLU27 3.1 71.8 1.0
ZN A:ZN202 3.2 0.6 1.0
CE1 A:HIS65 3.3 64.1 1.0
CG A:HIS65 3.4 84.4 1.0
OE1 A:GLN141 3.5 95.1 1.0
CB A:HIS65 3.7 74.8 1.0
CG1 A:VAL110 4.1 90.0 1.0
CG A:GLU62 4.3 63.4 1.0
CG A:GLU27 4.4 71.4 1.0
NE2 A:HIS65 4.4 1.0 1.0
CA A:GLU62 4.5 80.0 1.0
CD2 A:HIS65 4.5 87.7 1.0
CD A:GLN141 4.7 73.9 1.0
CB A:GLU62 4.7 63.1 1.0
CB A:GLU27 4.8 70.7 1.0

Zinc binding site 2 out of 3 in 5up8

Go back to Zinc Binding Sites List in 5up8
Zinc binding site 2 out of 3 in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate


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 the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:0.6
occ:1.00
OE1 A:GLU62 1.8 0.8 1.0
OE1 A:GLU107 2.5 80.8 1.0
OE2 A:GLU107 2.7 81.3 1.0
CD A:GLU107 2.9 86.8 1.0
CD A:GLU62 2.9 85.6 1.0
ZN A:ZN201 3.2 71.3 1.0
OE1 A:GLN141 3.4 95.1 1.0
OE2 A:GLU62 3.5 66.0 1.0
CE1 A:HIS65 4.1 64.1 1.0
CG A:GLU62 4.2 63.4 1.0
ND1 A:HIS65 4.2 93.1 1.0
CD A:GLN141 4.2 73.9 1.0
NE2 A:GLN141 4.3 65.9 1.0
O A:HOH302 4.3 75.8 1.0
CG A:GLU107 4.4 91.7 1.0
CE2 A:TYR34 4.6 77.5 1.0
OH A:TYR34 4.8 93.3 1.0
CB A:ALA144 4.9 60.8 1.0

Zinc binding site 3 out of 3 in 5up8

Go back to Zinc Binding Sites List in 5up8
Zinc binding site 3 out of 3 in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate


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 the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:0.2
occ:0.33
OAJ A:BYD205 2.1 82.3 0.2
NE2 A:HIS122 2.2 89.7 1.0
OAH A:BYD205 2.3 87.9 0.2
NAI A:BYD205 2.8 82.8 0.2
CAG A:BYD205 2.9 84.7 0.2
CE1 A:HIS122 3.1 0.4 1.0
CD2 A:HIS122 3.2 88.1 1.0
HAI A:BYD205 3.7 99.4 0.2
ND1 A:HIS122 4.2 0.3 1.0
CG A:HIS122 4.3 96.6 1.0
CAF A:BYD205 4.4 82.6 0.2
HAA A:BYD205 4.9 94.0 0.2

Reference:

J.B.Bailey, L.Zhang, J.A.Chiong, S.Ahn, F.A.Tezcan. Synthetic Modularity of Protein-Metal-Organic Frameworks. J. Am. Chem. Soc. V. 139 8160 2017.
ISSN: ESSN 1520-5126
PubMed: 28590729
DOI: 10.1021/JACS.7B01202
Page generated: Mon Oct 28 11:24:27 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy