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Zinc in PDB 6uzi: Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1

Enzymatic activity of Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1

All present enzymatic activity of Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1:
1.8.1.4;

Protein crystallography data

The structure of Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1, PDB code: 6uzi was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.25 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 74.060, 106.800, 255.700, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 23

Other elements in 6uzi:

The structure of Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 (pdb code 6uzi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1, PDB code: 6uzi:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 6uzi

Go back to Zinc Binding Sites List in 6uzi
Zinc binding site 1 out of 4 in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1


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 Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:95.3
occ:1.00
 OE2 A:GLU450 2.2 91.3 1.0
ND1 A:HIS445 2.2 68.5 1.0
OE2 B:GLU325 2.4 81.9 1.0
OE1 B:GLU325 2.9 82.2 1.0
CD B:GLU325 3.0 80.6 1.0
CE1 A:HIS445 3.0 70.9 1.0
CD A:GLU450 3.0 63.4 1.0
OE1 A:GLU450 3.3 69.7 1.0
CG A:HIS445 3.3 65.1 1.0
CL A:CL503 3.8 74.5 1.0
CB A:HIS445 3.8 52.0 1.0
CE1 A:HIS466 4.0 48.1 1.0
NE2 A:HIS466 4.1 49.3 1.0
NE2 A:HIS445 4.1 68.5 1.0
CD2 A:HIS445 4.3 68.5 1.0
CG A:GLU450 4.4 43.1 1.0
CG B:GLU325 4.5 75.1 1.0
ND1 A:HIS466 4.7 46.2 1.0
CB A:GLU450 4.8 34.1 1.0
CA A:HIS445 4.9 43.9 1.0
CD2 A:HIS466 5.0 46.7 1.0

Zinc binding site 2 out of 4 in 6uzi

Go back to Zinc Binding Sites List in 6uzi
Zinc binding site 2 out of 4 in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1


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 Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn508

b:65.5
occ:1.00
 ND1 B:HIS445 2.2 64.7 1.0
OE2 A:GLU325 2.2 65.1 1.0
OE1 B:GLU450 2.2 69.2 1.0
OE1 A:GLU325 2.6 56.4 1.0
CD A:GLU325 2.8 53.2 1.0
CE1 B:HIS445 2.9 53.0 1.0
CD B:GLU450 3.2 50.9 1.0
CG B:HIS445 3.2 55.9 1.0
OE2 B:GLU450 3.5 50.8 1.0
CB B:HIS445 3.7 42.8 1.0
CL B:CL502 3.8 82.2 1.0
O B:HOH644 3.9 39.4 1.0
NE2 B:HIS445 4.0 50.8 1.0
CE1 B:HIS466 4.2 42.0 1.0
CD2 B:HIS445 4.2 53.3 1.0
CG A:GLU325 4.3 41.2 1.0
NE2 B:HIS466 4.4 40.9 1.0
CG B:GLU450 4.5 43.8 1.0
CA B:HIS445 4.8 30.9 1.0
ND1 B:HIS466 5.0 40.5 1.0

Zinc binding site 3 out of 4 in 6uzi

Go back to Zinc Binding Sites List in 6uzi
Zinc binding site 3 out of 4 in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1


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 Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn502

b:0.4
occ:1.00
 OE2 C:GLU450 2.3 64.1 1.0
ND1 C:HIS445 2.4 73.5 1.0
OE1 D:GLU325 2.6 81.1 1.0
OE2 D:GLU325 3.0 78.6 1.0
CE1 C:HIS445 3.1 74.3 1.0
CD C:GLU450 3.1 57.0 1.0
CD D:GLU325 3.2 70.6 1.0
OE1 C:GLU450 3.4 59.3 1.0
CL C:CL503 3.5 76.2 1.0
CG C:HIS445 3.5 73.1 1.0
CE1 C:HIS466 4.0 55.2 1.0
CB C:HIS445 4.0 61.4 1.0
NE2 C:HIS466 4.2 59.0 1.0
NE2 C:HIS445 4.3 75.9 1.0
CG C:GLU450 4.4 51.8 1.0
CD2 C:HIS445 4.5 76.3 1.0
CG D:GLU325 4.7 56.3 1.0
ND1 C:HIS466 4.7 52.4 1.0
CB C:GLU450 4.7 50.9 1.0
CA C:HIS445 5.0 57.2 1.0
CD2 C:HIS466 5.0 57.5 1.0

Zinc binding site 4 out of 4 in 6uzi

Go back to Zinc Binding Sites List in 6uzi
Zinc binding site 4 out of 4 in the Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1


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 Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn505

b:92.5
occ:1.00
 OE1 D:GLU450 1.9 90.9 1.0
ND1 D:HIS445 2.2 66.2 1.0
OE2 C:GLU325 2.4 64.7 1.0
OE1 C:GLU325 2.7 63.2 1.0
CD C:GLU325 2.9 61.7 1.0
CD D:GLU450 2.9 72.8 1.0
CE1 D:HIS445 3.1 65.3 1.0
CG D:HIS445 3.3 62.8 1.0
OE2 D:GLU450 3.3 70.8 1.0
CB D:HIS445 3.7 51.7 1.0
CE1 D:HIS466 4.1 58.4 1.0
NE2 D:HIS445 4.2 64.9 1.0
CG D:GLU450 4.2 63.3 1.0
CD2 D:HIS445 4.3 66.1 1.0
NE2 D:HIS466 4.4 61.4 1.0
CG C:GLU325 4.4 61.4 1.0
CA D:HIS445 4.6 50.7 1.0
CB D:GLU450 4.7 46.9 1.0
ND1 D:HIS466 4.9 57.4 1.0

Reference:

J.Abendroth, D.M.Dranow, D.D.Lorimer, P.S.Horanyi, T.E.Edwards. Crystal Structure of Dihydrolipoyl Dehydrogenase From Elizabethkingia Anophelis NUHP1 To Be Published.
Page generated: Tue Oct 29 08:51:25 2024

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