Atomistry » Zinc » PDB 6dit-6dxq » 6dka
Atomistry »
  Zinc »
    PDB 6dit-6dxq »
      6dka »

Zinc in PDB 6dka: Yeast DDI2 Cyanamide Hydratase

Protein crystallography data

The structure of Yeast DDI2 Cyanamide Hydratase, PDB code: 6dka was solved by S.A.Moore, W.Xiao, J.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.97 / 2.90
Space group P 3 2 1
Cell size a, b, c (Å), α, β, γ (°) 263.430, 263.430, 119.214, 90.00, 90.00, 120.00
R / Rfree (%) 19.8 / 23

Zinc Binding Sites:

The binding sites of Zinc atom in the Yeast DDI2 Cyanamide Hydratase (pdb code 6dka). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Yeast DDI2 Cyanamide Hydratase, PDB code: 6dka:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 1 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:68.9
occ:0.67
HE2 A:HIS88 1.5 52.5 1.0
N2 A:CNN302 2.0 69.1 0.7
OD2 A:ASP89 2.1 79.4 1.0
NE2 A:HIS55 2.2 41.0 1.0
NE2 A:HIS88 2.2 43.7 1.0
C A:CNN302 2.7 71.5 0.7
CG A:ASP89 3.0 74.6 1.0
CD2 A:HIS88 3.0 43.1 1.0
HD2 A:HIS88 3.0 51.8 1.0
CE1 A:HIS55 3.1 41.3 1.0
CD2 A:HIS55 3.2 41.3 1.0
HE1 A:HIS55 3.2 49.6 1.0
CE1 A:HIS88 3.3 44.2 1.0
OD1 A:ASP89 3.3 82.8 1.0
HD2 A:HIS55 3.4 49.6 1.0
HG13 A:VAL157 3.5 50.9 1.0
HD21 A:ASN161 3.5 56.0 1.0
HG11 A:VAL157 3.5 50.9 1.0
HE1 A:HIS88 3.6 53.0 1.0
HG22 A:VAL157 3.6 50.3 1.0
N1 A:CNN302 3.8 72.8 0.7
HN11 A:CNN302 3.9 87.4 0.7
HZ2 A:TRP186 3.9 53.2 1.0
CG1 A:VAL157 4.0 42.4 1.0
CG A:HIS88 4.2 43.1 1.0
ND1 A:HIS55 4.2 42.0 1.0
HG21 A:VAL157 4.2 50.3 1.0
HB2 A:ASP89 4.2 74.4 1.0
CB A:ASP89 4.2 62.0 1.0
CG A:HIS55 4.2 42.1 1.0
ND1 A:HIS88 4.3 44.0 1.0
CG2 A:VAL157 4.3 41.9 1.0
ND2 A:ASN161 4.4 46.6 1.0
HE1 A:PHE190 4.4 50.5 1.0
HN12 A:CNN302 4.4 87.4 0.7
HG22 A:VAL59 4.5 57.9 1.0
HG12 A:VAL157 4.7 50.9 1.0
CE1 A:PHE190 4.7 42.0 1.0
CB A:VAL157 4.7 42.0 1.0
CZ2 A:TRP186 4.8 44.3 1.0
HB3 A:ASP89 4.8 74.4 1.0
HD22 A:ASN161 4.8 56.0 1.0
HD2 A:HIS137 4.9 53.2 1.0
HD1 A:HIS55 4.9 50.4 1.0
NE2 A:HIS137 4.9 44.3 1.0
HD1 A:PHE190 5.0 50.6 1.0

Zinc binding site 2 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 2 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn302

b:82.5
occ:0.67
HE2 B:HIS88 1.5 45.4 1.0
N2 B:CNN303 2.0 83.3 0.7
OD2 B:ASP89 2.1 0.4 1.0
NE2 B:HIS55 2.2 43.1 1.0
NE2 B:HIS88 2.2 37.9 1.0
C B:CNN303 2.8 85.9 0.7
CG B:ASP89 2.9 95.1 1.0
CD2 B:HIS88 3.0 37.0 1.0
HD2 B:HIS88 3.0 44.4 1.0
CD2 B:HIS55 3.1 43.2 1.0
CE1 B:HIS55 3.1 43.1 1.0
CE1 B:HIS88 3.3 38.5 1.0
HD2 B:HIS55 3.3 51.9 1.0
HG12 B:VAL157 3.3 58.3 1.0
OD1 B:ASP89 3.3 0.4 1.0
HE1 B:HIS55 3.3 51.7 1.0
HD21 B:ASN161 3.4 54.4 1.0
HG22 B:VAL157 3.5 58.5 1.0
HG11 B:VAL157 3.5 58.3 1.0
HE1 B:HIS88 3.5 46.2 1.0
CG1 B:VAL157 3.8 48.6 1.0
HZ2 B:TRP186 3.9 53.8 1.0
N1 B:CNN303 4.0 87.2 0.7
HG21 B:VAL157 4.1 58.5 1.0
HN11 B:CNN303 4.1 0.7 0.7
HB2 B:ASP89 4.1 91.8 1.0
CG B:HIS88 4.1 37.1 1.0
CG2 B:VAL157 4.1 48.7 1.0
CB B:ASP89 4.2 76.5 1.0
ND1 B:HIS55 4.2 43.9 1.0
CG B:HIS55 4.2 44.0 1.0
ND1 B:HIS88 4.2 38.0 1.0
ND2 B:ASN161 4.3 45.4 1.0
HG21 B:VAL59 4.3 58.5 1.0
HE1 B:PHE190 4.4 45.2 1.0
HN12 B:CNN303 4.5 0.7 0.7
HG13 B:VAL157 4.6 58.3 1.0
CB B:VAL157 4.6 48.0 1.0
CE1 B:PHE190 4.7 37.7 1.0
CZ2 B:TRP186 4.7 44.9 1.0
HD22 B:ASN161 4.7 54.4 1.0
HB3 B:ASP89 4.8 91.8 1.0
HH2 B:TRP186 4.8 55.0 1.0
HA B:VAL157 4.9 56.6 1.0
HD2 B:HIS137 4.9 53.1 1.0
NE2 B:HIS137 4.9 44.3 1.0
OD1 B:ASN161 4.9 46.3 1.0
HD1 B:HIS55 5.0 52.7 1.0
HG23 B:VAL157 5.0 58.5 1.0

Zinc binding site 3 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 3 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:62.7
occ:0.67
N2 C:CNN302 2.0 63.8 0.7
OD2 C:ASP89 2.1 70.4 1.0
NE2 C:HIS55 2.2 35.4 1.0
NE2 C:HIS88 2.2 33.2 1.0
C C:CNN302 2.3 67.0 0.7
CG C:ASP89 2.9 65.4 1.0
CD2 C:HIS88 3.0 33.2 1.0
CE1 C:HIS55 3.0 35.3 1.0
HD2 C:HIS88 3.0 39.8 1.0
HE1 C:HIS55 3.2 42.4 1.0
CD2 C:HIS55 3.2 35.5 1.0
HN11 C:CNN302 3.2 82.8 0.7
OD1 C:ASP89 3.2 71.3 1.0
N1 C:CNN302 3.2 69.0 0.7
HG23 C:VAL157 3.2 43.6 1.0
CE1 C:HIS88 3.3 33.3 1.0
HD21 C:ASN161 3.3 45.2 1.0
HD2 C:HIS55 3.4 42.7 1.0
HG12 C:VAL157 3.5 45.9 1.0
HE1 C:HIS88 3.6 40.0 1.0
HG11 C:VAL157 3.6 45.9 1.0
HN12 C:CNN302 3.9 82.8 0.7
HZ2 C:TRP186 3.9 37.1 1.0
CG1 C:VAL157 4.0 38.2 1.0
ND1 C:HIS55 4.1 35.6 1.0
CG C:HIS88 4.2 33.5 1.0
ND2 C:ASN161 4.2 37.7 1.0
CG2 C:VAL157 4.2 36.4 1.0
CG C:HIS55 4.2 36.0 1.0
CB C:ASP89 4.3 55.2 1.0
ND1 C:HIS88 4.3 33.5 1.0
HB2 C:ASP89 4.3 66.2 1.0
HE1 C:PHE190 4.4 42.4 1.0
HG21 C:VAL59 4.4 47.4 1.0
HG21 C:VAL157 4.6 43.6 1.0
HD22 C:ASN161 4.6 45.2 1.0
HH2 C:TRP186 4.7 37.1 1.0
CZ2 C:TRP186 4.7 30.9 1.0
CB C:VAL157 4.7 37.0 1.0
CE1 C:PHE190 4.7 35.4 1.0
HG22 C:VAL157 4.8 43.6 1.0
HG13 C:VAL157 4.8 45.9 1.0
HB3 C:ASP89 4.8 66.2 1.0
HD2 C:HIS137 4.8 50.2 1.0
NE2 C:HIS137 4.9 41.9 1.0
HD1 C:HIS55 4.9 42.8 1.0
HA C:VAL157 4.9 43.9 1.0
OD1 C:ASN161 5.0 37.7 1.0

Zinc binding site 4 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 4 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn302

b:71.1
occ:0.67
N2 D:CNN303 2.0 74.1 0.7
OD2 D:ASP89 2.1 82.4 1.0
NE2 D:HIS55 2.2 73.1 1.0
NE2 D:HIS88 2.2 35.8 1.0
C D:CNN303 2.5 79.1 0.7
CG D:ASP89 2.9 77.2 1.0
CD2 D:HIS88 3.0 35.1 1.0
HD2 D:HIS88 3.0 42.1 1.0
CE1 D:HIS55 3.1 74.6 1.0
CD2 D:HIS55 3.1 74.6 1.0
HG13 D:VAL157 3.2 57.4 1.0
OD1 D:ASP89 3.2 85.5 1.0
CE1 D:HIS88 3.3 36.1 1.0
HE1 D:HIS55 3.3 89.5 1.0
HD2 D:HIS55 3.3 89.5 1.0
N1 D:CNN303 3.4 82.5 0.7
HG11 D:VAL157 3.5 57.4 1.0
HD21 D:ASN161 3.5 54.4 1.0
HG22 D:VAL157 3.5 56.7 1.0
HE1 D:HIS88 3.5 43.3 1.0
HN12 D:CNN303 3.7 99.0 0.7
CG1 D:VAL157 3.8 47.8 1.0
HN11 D:CNN303 3.8 99.0 0.7
HZ2 D:TRP186 4.0 51.1 1.0
HG21 D:VAL157 4.0 56.7 1.0
CG2 D:VAL157 4.2 47.2 1.0
CG D:HIS88 4.2 35.1 1.0
ND1 D:HIS55 4.2 75.0 1.0
HB2 D:ASP89 4.2 76.3 1.0
CB D:ASP89 4.2 63.6 1.0
CG D:HIS55 4.2 69.5 1.0
ND1 D:HIS88 4.3 35.6 1.0
ND2 D:ASN161 4.4 45.3 1.0
HG21 D:VAL59 4.4 53.0 1.0
HE1 D:PHE190 4.5 63.9 1.0
HG12 D:VAL157 4.5 57.4 1.0
CB D:VAL157 4.6 47.5 1.0
HB3 D:ASP89 4.8 76.3 1.0
CZ2 D:TRP186 4.8 42.6 1.0
CE1 D:PHE190 4.8 53.2 1.0
HH2 D:TRP186 4.8 52.0 1.0
HA D:VAL157 4.9 57.7 1.0
HD22 D:ASN161 4.9 54.4 1.0
HD1 D:HIS55 5.0 90.0 1.0
HD2 D:HIS137 5.0 52.0 1.0

Zinc binding site 5 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 5 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn301

b:67.7
occ:0.67
N2 E:CNN302 2.0 68.9 0.7
OD2 E:ASP89 2.1 67.7 1.0
NE2 E:HIS55 2.2 39.9 1.0
NE2 E:HIS88 2.2 62.8 1.0
C E:CNN302 2.5 72.5 0.7
CG E:ASP89 2.9 62.4 1.0
CD2 E:HIS88 3.0 63.0 1.0
CE1 E:HIS55 3.0 40.1 1.0
HD2 E:HIS88 3.0 75.7 1.0
OD1 E:ASP89 3.1 70.0 1.0
HE1 E:HIS55 3.2 48.1 1.0
CD2 E:HIS55 3.2 40.1 1.0
HG23 E:VAL157 3.2 47.4 1.0
CE1 E:HIS88 3.3 63.0 1.0
HD21 E:ASN161 3.4 48.3 1.0
HD2 E:HIS55 3.4 48.1 1.0
N1 E:CNN302 3.4 75.2 0.7
HG12 E:VAL157 3.5 49.9 1.0
HE1 E:HIS88 3.6 75.6 1.0
HG11 E:VAL157 3.6 49.9 1.0
HN11 E:CNN302 3.6 90.2 0.7
HZ2 E:TRP186 3.9 53.5 1.0
HN12 E:CNN302 3.9 90.2 0.7
CG1 E:VAL157 4.0 41.6 1.0
ND1 E:HIS55 4.1 40.6 1.0
CG E:HIS88 4.2 55.9 1.0
CG2 E:VAL157 4.2 39.5 1.0
CG E:HIS55 4.2 40.8 1.0
ND2 E:ASN161 4.2 40.2 1.0
CB E:ASP89 4.2 49.8 1.0
ND1 E:HIS88 4.3 62.8 1.0
HB2 E:ASP89 4.3 59.7 1.0
HE1 E:PHE190 4.3 47.8 1.0
HG22 E:VAL59 4.4 48.6 1.0
HG21 E:VAL157 4.6 47.4 1.0
HG22 E:VAL157 4.7 47.4 1.0
CB E:VAL157 4.7 40.2 1.0
CE1 E:PHE190 4.7 39.9 1.0
HD22 E:ASN161 4.7 48.3 1.0
CZ2 E:TRP186 4.7 44.6 1.0
HH2 E:TRP186 4.8 53.8 1.0
HG13 E:VAL157 4.8 49.9 1.0
HB3 E:ASP89 4.8 59.7 1.0
HD1 E:HIS55 4.9 48.7 1.0
HA E:VAL157 4.9 48.3 1.0
OD1 E:ASN161 4.9 39.3 1.0
HD2 E:HIS137 4.9 50.2 1.0
NE2 E:HIS137 5.0 41.9 1.0
HD1 E:PHE190 5.0 47.9 1.0

Zinc binding site 6 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 6 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn302

b:69.3
occ:0.67
N2 F:CNN303 2.0 70.7 0.7
OD2 F:ASP89 2.1 85.3 1.0
NE2 F:HIS55 2.2 43.7 1.0
NE2 F:HIS88 2.2 41.0 1.0
C F:CNN303 2.5 73.9 0.7
CG F:ASP89 3.0 80.8 1.0
CD2 F:HIS88 3.0 41.0 1.0
CE1 F:HIS55 3.1 43.8 1.0
HD2 F:HIS88 3.1 49.2 1.0
CD2 F:HIS55 3.2 43.5 1.0
HE1 F:HIS55 3.2 52.6 1.0
HG12 F:VAL157 3.2 54.8 1.0
CE1 F:HIS88 3.2 41.3 1.0
OD1 F:ASP89 3.3 89.3 1.0
HG23 F:VAL157 3.3 55.3 1.0
HD2 F:HIS55 3.4 52.2 1.0
N1 F:CNN303 3.4 75.5 0.7
HD21 F:ASN161 3.5 58.9 1.0
HE1 F:HIS88 3.5 49.6 1.0
HG13 F:VAL157 3.5 54.8 1.0
HN12 F:CNN303 3.8 90.6 0.7
HN11 F:CNN303 3.8 90.6 0.7
CG1 F:VAL157 3.8 45.6 1.0
HZ2 F:TRP186 4.0 53.6 1.0
ND1 F:HIS55 4.2 44.0 1.0
CG F:HIS88 4.2 41.0 1.0
CG2 F:VAL157 4.2 46.0 1.0
CG F:HIS55 4.3 43.5 1.0
HG21 F:VAL59 4.3 62.3 1.0
ND1 F:HIS88 4.3 41.1 1.0
CB F:ASP89 4.3 67.3 1.0
HB2 F:ASP89 4.3 80.8 1.0
ND2 F:ASN161 4.3 49.0 1.0
HE1 F:PHE190 4.4 57.3 1.0
HG11 F:VAL157 4.6 54.8 1.0
HG21 F:VAL157 4.6 55.3 1.0
CB F:VAL157 4.6 45.9 1.0
CE1 F:PHE190 4.8 47.7 1.0
CZ2 F:TRP186 4.8 44.7 1.0
HD22 F:ASN161 4.8 58.9 1.0
HG22 F:VAL157 4.8 55.3 1.0
HB3 F:ASP89 4.8 80.8 1.0
HA F:VAL157 4.8 56.3 1.0
HH2 F:TRP186 4.9 53.9 1.0
OD1 F:ASN161 4.9 48.4 1.0
HD1 F:HIS55 4.9 52.8 1.0

Zinc binding site 7 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 7 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn301

b:0.6
occ:0.67
HE2 G:HIS55 1.5 72.0 1.0
N2 G:CNN302 2.0 0.2 0.7
OD2 G:ASP89 2.1 0.9 1.0
NE2 G:HIS88 2.2 53.8 1.0
NE2 G:HIS55 2.2 60.0 1.0
C G:CNN302 2.6 0.3 0.7
CG G:ASP89 3.0 0.9 1.0
CD2 G:HIS55 3.0 61.3 1.0
CD2 G:HIS88 3.0 52.3 1.0
CE1 G:HIS55 3.1 60.6 1.0
HD2 G:HIS88 3.1 62.8 1.0
HD2 G:HIS55 3.2 73.6 1.0
CE1 G:HIS88 3.2 53.9 1.0
HD21 G:ASN161 3.3 81.7 1.0
OD1 G:ASP89 3.3 0.9 1.0
HE1 G:HIS55 3.4 72.8 1.0
HG22 G:VAL157 3.5 78.8 1.0
HE1 G:HIS88 3.5 64.6 1.0
HG12 G:VAL157 3.5 81.6 1.0
HN11 G:CNN302 3.5 0.9 0.7
N1 G:CNN302 3.6 0.9 0.7
HG11 G:VAL157 3.6 81.6 1.0
HZ2 G:TRP186 3.8 95.3 1.0
CG1 G:VAL157 4.0 68.0 1.0
ND2 G:ASN161 4.1 68.1 1.0
CG G:HIS55 4.1 63.4 1.0
ND1 G:HIS55 4.2 62.5 1.0
CG G:HIS88 4.2 51.8 1.0
CG2 G:VAL157 4.2 65.7 1.0
HB2 G:ASP89 4.3 0.5 1.0
ND1 G:HIS88 4.3 52.8 1.0
HG21 G:VAL157 4.3 78.8 1.0
CB G:ASP89 4.3 0.2 1.0
HN12 G:CNN302 4.3 0.9 0.7
HG21 G:VAL59 4.3 69.7 1.0
HE1 G:PHE190 4.5 74.0 1.0
HD22 G:ASN161 4.6 81.7 1.0
CZ2 G:TRP186 4.6 79.4 1.0
HH2 G:TRP186 4.6 96.8 1.0
CB G:VAL157 4.7 66.2 1.0
HG13 G:VAL157 4.8 81.6 1.0
CE1 G:PHE190 4.8 61.6 1.0
HA G:VAL157 4.8 79.9 1.0
HB3 G:ASP89 4.8 0.5 1.0
OD1 G:ASN161 4.9 70.4 1.0
HD1 G:HIS55 4.9 75.0 1.0
CG G:ASN161 5.0 69.0 1.0

Zinc binding site 8 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 8 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn301

b:0.7
occ:0.65
OD2 H:ASP89 2.1 0.7 1.0
NE2 H:HIS55 2.2 80.9 1.0
NE2 H:HIS88 2.2 0.7 1.0
HD2 H:HIS88 2.8 0.9 1.0
CD2 H:HIS88 2.8 0.4 1.0
CG H:ASP89 2.9 0.8 1.0
OD1 H:ASP89 3.0 0.9 1.0
CD2 H:HIS55 3.1 81.0 1.0
CE1 H:HIS55 3.2 80.2 1.0
HG13 H:VAL157 3.3 0.3 1.0
HD2 H:HIS55 3.3 97.3 1.0
HE1 H:HIS55 3.3 96.3 1.0
CE1 H:HIS88 3.4 0.9 1.0
HG22 H:VAL157 3.4 0.1 1.0
HG11 H:VAL157 3.6 0.3 1.0
HD21 H:ASN161 3.7 0.5 1.0
HE1 H:HIS88 3.7 0.5 1.0
CG1 H:VAL157 3.9 0.6 1.0
HZ2 H:TRP186 3.9 0.1 1.0
HG21 H:VAL157 4.1 0.1 1.0
CG H:HIS88 4.1 0.4 1.0
CG2 H:VAL157 4.1 0.8 1.0
ND1 H:HIS55 4.2 80.0 1.0
CB H:ASP89 4.2 0.7 1.0
CG H:HIS55 4.3 80.9 1.0
ND1 H:HIS88 4.3 0.8 1.0
HB2 H:ASP89 4.3 0.9 1.0
HG21 H:VAL59 4.3 0.9 1.0
HE1 H:PHE190 4.4 88.1 1.0
ND2 H:ASN161 4.5 91.3 1.0
CB H:VAL157 4.6 0.3 1.0
HH2 H:TRP186 4.6 0.3 1.0
HG12 H:VAL157 4.7 0.3 1.0
CZ2 H:TRP186 4.7 84.3 1.0
HB3 H:ASP89 4.8 0.9 1.0
NE2 H:HIS137 4.8 90.3 1.0
HA H:VAL157 4.8 0.2 1.0
CE1 H:PHE190 4.8 73.4 1.0
HD1 H:PHE190 4.9 87.9 1.0
HG23 H:VAL157 5.0 0.1 1.0
HD2 H:HIS137 5.0 0.0 1.0
HD22 H:ASN161 5.0 0.5 1.0

Zinc binding site 9 out of 9 in 6dka

Go back to Zinc Binding Sites List in 6dka
Zinc binding site 9 out of 9 in the Yeast DDI2 Cyanamide Hydratase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Yeast DDI2 Cyanamide Hydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn500

b:0.4
occ:0.65
OD2 I:ASP89 2.1 0.6 1.0
NE2 I:HIS88 2.2 0.5 1.0
NE2 I:HIS55 2.2 0.1 1.0
CE1 I:HIS55 3.0 0.3 1.0
CG I:ASP89 3.0 0.7 1.0
CD2 I:HIS88 3.0 0.8 1.0
HE1 I:HIS55 3.1 0.0 1.0
HD2 I:HIS88 3.1 0.0 1.0
HD21 I:ASN161 3.1 0.8 1.0
OD1 I:ASP89 3.2 0.4 1.0
CD2 I:HIS55 3.3 0.9 1.0
CE1 I:HIS88 3.3 0.1 1.0
HG23 I:VAL157 3.4 0.3 1.0
HE1 I:HIS88 3.5 0.2 1.0
HD2 I:HIS55 3.5 0.1 1.0
HZ2 I:TRP186 3.6 0.8 1.0
HG13 I:VAL157 3.7 0.7 1.0
HE1 I:PHE190 3.9 0.5 1.0
ND2 I:ASN161 4.0 0.5 1.0
ND1 I:HIS55 4.1 0.1 1.0
HG11 I:VAL157 4.2 0.7 1.0
CG I:HIS88 4.2 0.5 1.0
CG2 I:VAL157 4.3 0.1 1.0
CG I:HIS55 4.3 0.7 1.0
ND1 I:HIS88 4.3 0.4 1.0
CB I:ASP89 4.3 0.7 1.0
HG22 I:VAL59 4.4 0.5 1.0
HG21 I:VAL157 4.4 0.3 1.0
HB2 I:ASP89 4.4 0.1 1.0
CG1 I:VAL157 4.4 0.1 1.0
HD22 I:ASN161 4.4 0.8 1.0
CE1 I:PHE190 4.4 0.4 1.0
CZ2 I:TRP186 4.5 0.5 1.0
HH2 I:TRP186 4.5 0.9 1.0
OD1 I:ASN161 4.8 1.0 1.0
HA I:VAL157 4.8 0.9 1.0
HD1 I:HIS55 4.8 0.4 1.0
HB3 I:ASP89 4.8 0.1 1.0
CG I:ASN161 4.8 0.5 1.0
CB I:VAL157 4.9 0.4 1.0
CH2 I:TRP186 4.9 0.2 1.0
HZ I:PHE190 4.9 0.4 1.0
HG23 I:VAL59 4.9 0.5 1.0
HG22 I:VAL157 5.0 0.3 1.0
CZ I:PHE190 5.0 0.7 1.0

Reference:

J.Li, Y.Jia, A.Lin, M.Hanna, L.Chelico, W.Xiao, S.A.Moore. Structure of DDI2, A Highly Inducible Detoxifying Metalloenzyme Fromsaccharomyces Cerevisiae. J.Biol.Chem. V. 294 10674 2019.
ISSN: ESSN 1083-351X
PubMed: 31152065
DOI: 10.1074/JBC.RA118.006394
Page generated: Mon Oct 28 19:36:53 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