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Zinc in PDB 5ems: Crystal Structure of An Iodinated Insulin Analog

Protein crystallography data

The structure of Crystal Structure of An Iodinated Insulin Analog, PDB code: 5ems was solved by M.C.Lawrence, V.Pandyarajan, Z.Wan, M.A.Weiss, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.85 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 46.430, 61.630, 58.580, 90.00, 111.38, 90.00
R / Rfree (%) 16.3 / 23.3

Other elements in 5ems:

The structure of Crystal Structure of An Iodinated Insulin Analog also contains other interesting chemical elements:

Iodine (I) 6 atoms
Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of An Iodinated Insulin Analog (pdb code 5ems). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of An Iodinated Insulin Analog, PDB code: 5ems:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5ems

Go back to Zinc Binding Sites List in 5ems
Zinc binding site 1 out of 2 in the Crystal Structure of An Iodinated Insulin Analog


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 An Iodinated Insulin Analog within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn101

b:23.7
occ:1.00
NE2 F:HIS10 2.0 27.5 1.0
NE2 J:HIS10 2.1 24.3 1.0
NE2 B:HIS10 2.1 27.7 1.0
CL F:CL101 2.3 28.2 1.0
CD2 F:HIS10 3.0 27.2 1.0
CE1 F:HIS10 3.0 26.7 1.0
CE1 J:HIS10 3.0 24.5 1.0
CD2 B:HIS10 3.1 23.4 1.0
CE1 B:HIS10 3.1 25.9 1.0
CD2 J:HIS10 3.1 19.8 1.0
ND1 F:HIS10 4.1 29.2 1.0
CG F:HIS10 4.1 32.1 1.0
ND1 J:HIS10 4.2 23.7 1.0
ND1 B:HIS10 4.2 32.2 1.0
CG B:HIS10 4.2 23.8 1.0
CG J:HIS10 4.2 19.5 1.0
O B:LEU6 4.8 30.0 1.0
O J:LEU6 4.8 31.3 1.0
O F:LEU6 4.9 35.9 1.0
CB B:LEU6 5.0 22.1 1.0
CB J:LEU6 5.0 24.4 1.0

Zinc binding site 2 out of 2 in 5ems

Go back to Zinc Binding Sites List in 5ems
Zinc binding site 2 out of 2 in the Crystal Structure of An Iodinated Insulin Analog


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 An Iodinated Insulin Analog within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn101

b:30.3
occ:1.00
NE2 D:HIS10 2.0 25.6 1.0
NE2 L:HIS10 2.0 29.8 1.0
NE2 H:HIS10 2.1 27.4 1.0
CL D:CL102 2.2 27.9 1.0
CE1 L:HIS10 2.9 22.8 1.0
CE1 D:HIS10 2.9 24.8 1.0
CD2 H:HIS10 3.0 25.9 1.0
CD2 D:HIS10 3.0 25.2 1.0
CD2 L:HIS10 3.1 22.8 1.0
CE1 H:HIS10 3.1 37.8 1.0
ND1 L:HIS10 4.0 27.6 1.0
ND1 D:HIS10 4.1 26.3 1.0
CG D:HIS10 4.1 26.6 1.0
CG H:HIS10 4.2 28.1 1.0
CG L:HIS10 4.2 22.5 1.0
ND1 H:HIS10 4.2 27.5 1.0
O H:LEU6 4.6 24.1 1.0
CB H:LEU6 4.8 25.2 1.0
O D:LEU6 4.8 33.3 1.0
O L:LEU6 4.8 25.4 1.0
CB L:LEU6 5.0 29.0 1.0

Reference:

K.El Hage, V.Pandyarajan, N.B.Phillips, B.J.Smith, J.G.Menting, J.Whittaker, M.C.Lawrence, M.Meuwly, M.A.Weiss. Extending Halogen-Based Medicinal Chemistry to Proteins: Iodo-Insulin As A Case Study. J. Biol. Chem. V. 291 27023 2016.
ISSN: ESSN 1083-351X
PubMed: 27875310
DOI: 10.1074/JBC.M116.761015
Page generated: Wed Dec 16 06:10:12 2020

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