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Zinc in PDB 6bqu: Human Gr (418-507) in Complex with Monomeric Dna Binding Site

Protein crystallography data

The structure of Human Gr (418-507) in Complex with Monomeric Dna Binding Site, PDB code: 6bqu was solved by M.A.Pufall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.95 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.231, 88.235, 103.905, 90.00, 90.00, 90.00
R / Rfree (%) 21.3 / 24.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site (pdb code 6bqu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site, PDB code: 6bqu:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 6bqu

Go back to Zinc Binding Sites List in 6bqu
Zinc binding site 1 out of 4 in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Gr (418-507) in Complex with Monomeric Dna Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:54.0
occ:1.00
SG B:CYS441 2.2 52.3 1.0
SG B:CYS424 2.3 63.3 1.0
SG B:CYS438 2.3 56.9 1.0
SG B:CYS421 2.4 56.7 1.0
HB2 B:CYS441 2.9 66.1 1.0
HB3 B:CYS424 3.0 67.9 1.0
H B:CYS424 3.0 68.2 1.0
H B:CYS438 3.1 72.4 1.0
CB B:CYS424 3.2 56.5 1.0
CB B:CYS441 3.2 55.1 1.0
HB B:VAL423 3.4 68.8 1.0
HB3 B:CYS438 3.5 73.9 1.0
HB3 B:CYS421 3.5 79.2 1.0
CB B:CYS421 3.5 66.0 1.0
CB B:CYS438 3.5 61.6 1.0
HH11 B:ARG470 3.6 79.4 1.0
HB2 B:CYS421 3.6 79.2 1.0
N B:CYS424 3.6 56.9 1.0
H B:CYS441 3.7 63.7 1.0
HB3 B:CYS441 3.8 66.1 1.0
HB3 B:ASP426 3.9 80.0 1.0
HH21 B:ARG477 3.9 61.4 1.0
HG B:SER440 3.9 65.6 1.0
N B:CYS438 3.9 60.4 1.0
CA B:CYS424 4.0 56.4 1.0
HB2 B:CYS424 4.0 67.9 1.0
H B:ASP426 4.1 83.6 1.0
NH1 B:ARG470 4.2 66.2 1.0
N B:CYS441 4.2 53.1 1.0
HH12 B:ARG470 4.2 79.4 1.0
CA B:CYS438 4.3 61.9 1.0
CA B:CYS441 4.3 51.5 1.0
HB2 B:CYS438 4.3 73.9 1.0
CB B:VAL423 4.3 57.3 1.0
OG B:SER440 4.3 54.6 1.0
H B:VAL423 4.3 77.5 1.0
HB B:THR437 4.4 74.8 1.0
HD2 B:ARG470 4.4 67.3 1.0
HB2 B:ASP426 4.4 80.0 1.0
HG12 B:VAL423 4.5 69.2 1.0
H B:SER425 4.5 74.3 1.0
CB B:ASP426 4.6 66.7 1.0
HA B:CYS441 4.6 61.7 1.0
C B:VAL423 4.6 55.7 1.0
C B:CYS424 4.6 63.0 1.0
NH2 B:ARG477 4.7 51.2 1.0
HA B:THR437 4.8 76.5 1.0
N B:SER425 4.8 61.9 1.0
HA B:CYS424 4.8 67.7 1.0
CG1 B:VAL423 4.8 57.7 1.0
N B:ASP426 4.8 69.7 1.0
HG11 B:VAL423 4.8 69.2 1.0
HE B:ARG477 4.8 59.5 1.0
HD3 B:ARG470 4.8 67.3 1.0
C B:CYS438 4.9 60.6 1.0
CA B:VAL423 4.9 59.5 1.0
CA B:CYS421 4.9 69.0 1.0
O B:CYS438 4.9 60.1 1.0
N B:VAL423 5.0 64.6 1.0

Zinc binding site 2 out of 4 in 6bqu

Go back to Zinc Binding Sites List in 6bqu
Zinc binding site 2 out of 4 in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Gr (418-507) in Complex with Monomeric Dna Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:44.7
occ:1.00
SG B:CYS463 2.2 40.5 1.0
SG B:CYS457 2.2 45.7 1.0
SG B:CYS473 2.3 38.7 1.0
SG B:CYS476 2.3 53.3 1.0
HB2 B:CYS457 2.9 53.7 1.0
HB2 B:CYS463 3.0 55.6 1.0
CB B:CYS457 3.2 44.7 1.0
HB2 B:CYS476 3.2 56.4 1.0
CB B:CYS463 3.2 46.3 1.0
H B:CYS463 3.3 54.3 1.0
CB B:CYS473 3.4 39.5 1.0
CB B:CYS476 3.4 47.0 1.0
HB3 B:CYS473 3.4 47.4 1.0
HB2 B:CYS473 3.4 47.4 1.0
O B:HOH601 3.6 39.9 1.0
HA B:CYS457 3.6 51.4 1.0
H B:CYS476 3.8 55.0 1.0
H B:ASP462 3.8 53.7 1.0
HA B:ASN461 3.9 54.4 1.0
CA B:CYS457 3.9 42.8 1.0
HB3 B:CYS463 3.9 55.6 1.0
HB3 B:CYS457 3.9 53.7 1.0
H B:ALA458 4.0 53.2 1.0
H B:GLY459 4.0 55.7 1.0
N B:CYS463 4.0 45.3 1.0
HB3 B:CYS476 4.0 56.4 1.0
H B:ASN461 4.1 61.4 1.0
CA B:CYS463 4.2 45.3 1.0
N B:CYS476 4.3 45.9 1.0
N B:ASP462 4.4 44.8 1.0
CA B:CYS476 4.4 46.2 1.0
HB3 B:ALA475 4.5 56.2 1.0
N B:ALA458 4.5 44.3 1.0
H B:ARG460 4.5 61.5 1.0
CA B:ASN461 4.6 45.3 1.0
N B:ASN461 4.6 51.1 1.0
HA B:CYS463 4.6 54.4 1.0
C B:CYS457 4.7 45.4 1.0
HA B:CYS476 4.7 55.4 1.0
N B:GLY459 4.8 46.4 1.0
CA B:CYS473 4.8 41.5 1.0
HA3 B:GLY459 4.9 56.8 1.0
C B:ASN461 4.9 44.3 1.0
HA B:CYS473 4.9 49.8 1.0

Zinc binding site 3 out of 4 in 6bqu

Go back to Zinc Binding Sites List in 6bqu
Zinc binding site 3 out of 4 in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Human Gr (418-507) in Complex with Monomeric Dna Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:41.6
occ:1.00
SG A:CYS463 2.3 49.8 1.0
SG A:CYS473 2.3 49.2 1.0
SG A:CYS457 2.3 48.8 1.0
SG A:CYS476 2.4 45.5 1.0
HB2 A:CYS463 3.0 61.2 1.0
HB2 A:CYS457 3.0 58.6 1.0
HB2 A:CYS476 3.1 53.0 1.0
CB A:CYS457 3.2 48.8 1.0
CB A:CYS463 3.2 51.0 1.0
H A:CYS463 3.3 64.1 1.0
CB A:CYS473 3.3 49.4 1.0
HB2 A:CYS473 3.3 59.3 1.0
HB3 A:CYS473 3.4 59.3 1.0
CB A:CYS476 3.4 44.2 1.0
H A:CYS476 3.6 49.0 1.0
HA A:CYS457 3.6 58.0 1.0
HA A:ASN461 3.6 65.0 1.0
H A:GLY459 3.7 57.7 1.0
H A:ASN461 3.9 63.7 1.0
HB3 A:CYS463 3.9 61.2 1.0
CA A:CYS457 4.0 48.3 1.0
N A:CYS463 4.0 53.4 1.0
H A:ALA458 4.0 57.0 1.0
HB3 A:CYS457 4.0 58.6 1.0
HB3 A:CYS476 4.1 53.0 1.0
N A:CYS476 4.2 40.8 1.0
HB3 A:ALA475 4.2 49.7 1.0
H A:ASP462 4.2 65.6 1.0
CA A:CYS463 4.2 52.8 1.0
CA A:ASN461 4.4 54.1 1.0
CA A:CYS476 4.4 42.4 1.0
N A:ASN461 4.5 53.1 1.0
N A:ALA458 4.5 47.5 1.0
N A:ASP462 4.5 54.7 1.0
N A:GLY459 4.6 48.1 1.0
C A:CYS457 4.7 47.6 1.0
HA3 A:GLY459 4.7 59.1 1.0
HA A:CYS476 4.7 50.9 1.0
CA A:CYS473 4.7 50.1 1.0
HA A:CYS463 4.7 63.4 1.0
C A:ASN461 4.7 55.9 1.0
HA A:CYS473 4.9 60.1 1.0

Zinc binding site 4 out of 4 in 6bqu

Go back to Zinc Binding Sites List in 6bqu
Zinc binding site 4 out of 4 in the Human Gr (418-507) in Complex with Monomeric Dna Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Human Gr (418-507) in Complex with Monomeric Dna Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:51.9
occ:1.00
SG A:CYS438 2.2 64.3 1.0
SG A:CYS441 2.2 54.5 1.0
SG A:CYS424 2.3 58.0 1.0
SG A:CYS421 2.4 52.7 1.0
HB3 A:CYS438 2.9 73.5 1.0
HB2 A:CYS441 2.9 66.6 1.0
H A:CYS438 3.0 67.2 1.0
H A:CYS424 3.0 64.8 1.0
CB A:CYS438 3.1 61.3 1.0
CB A:CYS441 3.2 55.5 1.0
HB3 A:CYS424 3.2 63.8 1.0
HB3 A:CYS421 3.4 74.0 1.0
CB A:CYS424 3.4 53.2 1.0
CB A:CYS421 3.4 61.7 1.0
H A:CYS441 3.5 65.0 1.0
HB A:VAL423 3.5 63.5 1.0
HB2 A:CYS421 3.5 74.0 1.0
HH11 A:ARG470 3.6 75.7 1.0
N A:CYS424 3.7 54.0 1.0
N A:CYS438 3.7 56.0 1.0
HB3 A:CYS441 3.8 66.6 1.0
HH21 A:ARG477 3.8 57.1 1.0
HB2 A:CYS438 3.9 73.5 1.0
H A:ASP426 3.9 75.9 1.0
CA A:CYS438 4.0 58.4 1.0
HB3 A:ASP426 4.0 79.5 1.0
CA A:CYS424 4.1 53.7 1.0
HB2 A:ASP426 4.1 79.5 1.0
N A:CYS441 4.2 54.2 1.0
HB2 A:CYS424 4.2 63.8 1.0
NH1 A:ARG470 4.2 63.0 1.0
H A:SER425 4.2 69.8 1.0
CA A:CYS441 4.3 54.2 1.0
HH12 A:ARG470 4.3 75.7 1.0
HD2 A:ARG470 4.3 70.2 1.0
HG A:SER440 4.4 85.9 1.0
H A:VAL423 4.4 66.5 1.0
HB A:THR437 4.5 66.3 1.0
CB A:VAL423 4.5 52.9 1.0
CB A:ASP426 4.5 66.3 1.0
NH2 A:ARG477 4.6 47.6 1.0
N A:SER425 4.6 58.2 1.0
HA A:CYS441 4.7 65.1 1.0
C A:CYS424 4.7 61.3 1.0
C A:CYS438 4.7 60.4 1.0
HA A:THR437 4.7 70.2 1.0
HG12 A:VAL423 4.7 56.8 1.0
N A:ASP426 4.7 63.2 1.0
C A:VAL423 4.8 53.0 1.0
OG A:SER440 4.8 71.6 1.0
HA A:CYS438 4.8 70.0 1.0
HD3 A:ARG470 4.8 70.2 1.0
HE A:ARG477 4.8 54.7 1.0
CA A:CYS421 4.9 62.8 1.0
C A:THR437 4.9 61.8 1.0
O A:CYS438 4.9 58.3 1.0
HA A:CYS424 4.9 64.4 1.0
CD A:ARG470 5.0 58.5 1.0

Reference:

M.A.Pufall, M.A.Pufall. N/A N/A.
Page generated: Wed Dec 16 11:33:05 2020

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