Atomistry » Zinc » PDB 4i7d-4ih7 » 4igm
Atomistry »
  Zinc »
    PDB 4i7d-4ih7 »
      4igm »

Zinc in PDB 4igm: 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd

Enzymatic activity of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd

All present enzymatic activity of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd:
4.1.1.45;

Protein crystallography data

The structure of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd, PDB code: 4igm was solved by F.Liu, A.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.00 / 2.39
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 89.112, 101.878, 233.455, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 28.9

Zinc Binding Sites:

The binding sites of Zinc atom in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd (pdb code 4igm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd, PDB code: 4igm:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 1 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:21.5
occ:1.00
 NE2 A:HIS174 2.1 12.9 1.0
NE2 A:HIS6 2.2 10.7 1.0
OD1 A:ASP291 2.3 26.1 1.0
O A:HOH577 2.3 33.2 1.0
CE1 A:HIS8 2.4 11.8 1.0
CE1 A:HIS6 3.1 11.4 1.0
CE1 A:HIS174 3.1 12.1 1.0
CD2 A:HIS174 3.1 13.2 1.0
CD2 A:HIS6 3.2 11.7 1.0
ND1 A:HIS8 3.3 11.4 1.0
CG A:ASP291 3.3 23.5 1.0
NE2 A:HIS8 3.4 12.8 1.0
OD2 A:ASP291 4.1 28.0 1.0
ND1 A:HIS174 4.2 13.3 1.0
ND1 A:HIS6 4.2 10.6 1.0
CG A:HIS174 4.3 12.8 1.0
CB A:ASP291 4.3 19.4 1.0
O A:HOH576 4.3 33.1 1.0
CG A:HIS6 4.4 11.6 1.0
CG A:HIS8 4.4 11.5 1.0
CD2 A:HIS8 4.5 11.5 1.0
CE1 A:HIS224 4.7 22.1 1.0
CA A:ASP291 4.7 16.5 1.0
NE2 A:HIS224 4.8 21.1 1.0
CG A:PRO77 4.9 15.8 1.0

Zinc binding site 2 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 2 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:22.0
occ:1.00
 OD1 B:ASP291 2.0 25.1 1.0
NE2 B:HIS8 2.2 15.1 1.0
NE2 B:HIS174 2.2 10.7 1.0
NE2 B:HIS6 2.3 13.2 1.0
O B:HOH597 2.8 30.2 1.0
CD2 B:HIS8 3.0 13.9 1.0
CG B:ASP291 3.1 23.9 1.0
CE1 B:HIS174 3.1 9.4 1.0
CE1 B:HIS8 3.2 14.0 1.0
CD2 B:HIS174 3.2 9.9 1.0
CD2 B:HIS6 3.3 14.0 1.0
CE1 B:HIS6 3.3 13.7 1.0
OD2 B:ASP291 3.9 27.1 1.0
CB B:ASP291 4.1 20.1 1.0
CG B:HIS8 4.2 13.3 1.0
ND1 B:HIS8 4.2 13.8 1.0
ND1 B:HIS174 4.3 9.6 1.0
CG B:HIS174 4.4 9.6 1.0
ND1 B:HIS6 4.5 13.6 1.0
CG B:HIS6 4.5 14.1 1.0
O B:HOH598 4.5 29.2 1.0
CA B:ASP291 4.6 18.2 1.0
CE1 B:HIS224 4.6 22.9 1.0
CG B:PRO77 4.7 11.9 1.0
NE2 B:HIS224 5.0 21.7 1.0

Zinc binding site 3 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 3 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:23.6
occ:1.00
 NE2 C:HIS174 2.1 11.9 1.0
NE2 C:HIS6 2.1 14.3 1.0
OD1 C:ASP291 2.2 28.1 1.0
NE2 C:HIS8 2.3 15.7 1.0
O C:HOH579 2.4 32.6 1.0
CE1 C:HIS174 2.9 11.1 1.0
CD2 C:HIS8 3.0 15.2 1.0
CE1 C:HIS6 3.1 15.2 1.0
CG C:ASP291 3.1 25.8 1.0
CD2 C:HIS6 3.2 15.7 1.0
CD2 C:HIS174 3.2 12.0 1.0
CE1 C:HIS8 3.4 15.1 1.0
OD2 C:ASP291 3.7 27.4 1.0
CB C:ASP291 4.1 21.8 1.0
ND1 C:HIS174 4.1 11.9 1.0
ND1 C:HIS6 4.2 15.9 1.0
O C:HOH578 4.3 33.2 1.0
CG C:HIS174 4.3 11.9 1.0
CG C:HIS8 4.3 15.8 1.0
CG C:HIS6 4.3 15.5 1.0
ND1 C:HIS8 4.5 16.0 1.0
CA C:ASP291 4.5 22.7 1.0
CE1 C:HIS224 4.6 23.4 1.0
NE2 C:HIS224 4.8 23.1 1.0
CG C:PRO77 4.8 16.1 1.0

Zinc binding site 4 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 4 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:27.4
occ:1.00
 NE2 D:HIS6 2.1 13.0 1.0
NE2 D:HIS174 2.2 11.2 1.0
OD1 D:ASP291 2.2 26.8 1.0
CE1 D:HIS8 2.3 13.0 1.0
O D:HOH591 2.4 36.0 1.0
CE1 D:HIS6 3.0 13.8 1.0
CD2 D:HIS174 3.1 11.2 1.0
NE2 D:HIS8 3.1 13.5 1.0
CD2 D:HIS6 3.1 13.9 1.0
CE1 D:HIS174 3.2 10.3 1.0
CG D:ASP291 3.3 26.2 1.0
ND1 D:HIS8 3.3 13.1 1.0
O D:HOH592 3.7 29.8 1.0
OD2 D:ASP291 3.9 32.1 1.0
ND1 D:HIS6 4.2 15.0 1.0
CB D:ASP291 4.3 22.4 1.0
CG D:HIS6 4.3 14.4 1.0
CG D:HIS174 4.3 11.1 1.0
ND1 D:HIS174 4.3 11.1 1.0
CD2 D:HIS8 4.3 13.0 1.0
CG D:HIS8 4.4 13.5 1.0
CE1 D:HIS224 4.7 21.3 1.0
CA D:ASP291 4.7 20.7 1.0
CG D:PRO77 4.8 13.9 1.0

Zinc binding site 5 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 5 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:27.0
occ:1.00
 NE2 E:HIS174 2.2 16.7 1.0
NE2 E:HIS6 2.2 19.8 1.0
OD1 E:ASP291 2.4 34.4 1.0
NE2 E:HIS8 2.4 18.5 1.0
CE1 E:HIS174 3.0 15.4 1.0
CD2 E:HIS8 3.2 18.6 1.0
CE1 E:HIS6 3.2 21.1 1.0
CD2 E:HIS6 3.3 19.8 1.0
CG E:ASP291 3.3 31.0 1.0
CD2 E:HIS174 3.3 16.3 1.0
CE1 E:HIS8 3.4 19.2 1.0
OD2 E:ASP291 3.8 32.4 1.0
O E:HOH573 3.8 30.7 1.0
ND1 E:HIS174 4.2 17.5 1.0
CG E:HIS174 4.3 16.7 1.0
CB E:ASP291 4.3 27.5 1.0
ND1 E:HIS6 4.4 18.9 1.0
CG E:HIS8 4.4 18.7 1.0
CG E:HIS6 4.4 19.3 1.0
ND1 E:HIS8 4.5 20.8 1.0
CE1 E:HIS224 4.5 25.1 1.0
CA E:ASP291 4.6 24.0 1.0
CG E:PRO77 4.8 18.5 1.0

Zinc binding site 6 out of 6 in 4igm

Go back to Zinc Binding Sites List in 4igm
Zinc binding site 6 out of 6 in the 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn401

b:30.9
occ:1.00
 OD1 F:ASP291 2.0 30.5 1.0
NE2 F:HIS6 2.1 18.8 1.0
NE2 F:HIS174 2.2 16.4 1.0
NE2 F:HIS8 2.2 21.4 1.0
O F:HOH554 2.9 35.5 1.0
CE1 F:HIS174 3.0 14.6 1.0
CD2 F:HIS8 3.0 20.7 1.0
CG F:ASP291 3.1 29.8 1.0
CE1 F:HIS6 3.1 19.3 1.0
CD2 F:HIS6 3.1 19.9 1.0
CD2 F:HIS174 3.2 15.9 1.0
CE1 F:HIS8 3.2 22.5 1.0
OD2 F:ASP291 3.6 33.5 1.0
O F:HOH553 3.7 34.6 1.0
ND1 F:HIS174 4.1 15.6 1.0
ND1 F:HIS6 4.2 18.9 1.0
CG F:HIS8 4.2 20.9 1.0
CB F:ASP291 4.3 26.6 1.0
CG F:HIS174 4.3 16.0 1.0
CG F:HIS6 4.3 19.6 1.0
ND1 F:HIS8 4.3 21.7 1.0
CG F:PRO77 4.7 30.4 1.0
CA F:ASP291 4.7 27.2 1.0
CE1 F:PHE294 4.7 36.3 1.0
CD1 F:PHE294 4.8 35.8 1.0
NE2 F:HIS224 4.9 28.2 1.0
CE1 F:HIS224 5.0 27.1 1.0

Reference:

F.Liu, A.Liu. 2.39 Angstrom X-Ray Crystal Structure of Human Acmsd To Be Published.
Page generated: Wed Dec 16 05:24:01 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy