Zinc in PDB 7cux: Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding

Protein crystallography data

The structure of Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding, PDB code: 7cux was solved by J.Y.Yang, M.Luo, J.Y.Ou, Z.W.Wang, S.Gao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.08 / 3.29
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 211.86, 156.442, 131.459, 90, 110.38, 90
R / Rfree (%) 20.1 / 24.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding (pdb code 7cux). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding, PDB code: 7cux:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 1 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


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 Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:172.9
occ:1.00
ND1 A:HIS266 2.1 201.3 1.0
SG A:CYS302 2.4 187.6 1.0
SG A:CYS303 2.7 152.2 1.0
CE1 A:HIS266 3.0 158.7 1.0
CG A:HIS266 3.2 175.3 1.0
SG A:CYS268 3.3 246.8 1.0
CB A:HIS266 3.6 183.0 1.0
CB A:CYS303 3.6 176.4 1.0
CB A:CYS268 3.6 219.6 1.0
CB A:CYS302 3.7 193.9 1.0
N A:CYS268 3.7 200.5 1.0
O A:GLN270 3.8 235.9 1.0
CA A:HIS266 4.0 165.5 1.0
N A:PHE267 4.0 207.9 1.0
NE2 A:HIS266 4.2 157.8 1.0
N A:CYS303 4.2 202.1 1.0
CA A:CYS268 4.3 206.8 1.0
CD2 A:HIS266 4.3 167.0 1.0
CD A:PRO272 4.3 177.4 1.0
CA A:ARG271 4.5 195.2 1.0
CA A:CYS303 4.5 177.6 1.0
C A:HIS266 4.5 187.7 1.0
C A:CYS302 4.6 201.4 1.0
CA A:CYS302 4.8 190.4 1.0
C A:PHE267 4.8 184.9 1.0
C A:GLN270 4.9 224.0 1.0
CA A:PHE267 5.0 190.3 1.0
C A:CYS268 5.0 209.3 1.0
CE2 A:PHE301 5.0 160.9 1.0
CB A:ARG271 5.0 195.8 1.0

Zinc binding site 2 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 2 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


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 Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:123.0
occ:1.00
ND1 B:HIS266 2.1 146.6 1.0
SG B:CYS302 2.3 147.8 1.0
SG B:CYS303 2.4 144.5 1.0
SG B:CYS268 2.5 190.8 1.0
CE1 B:HIS266 3.0 134.5 1.0
CG B:HIS266 3.2 143.8 1.0
CB B:CYS303 3.2 104.5 1.0
CB B:HIS266 3.6 128.3 1.0
CB B:CYS302 3.8 154.2 1.0
CB B:CYS268 3.8 174.4 1.0
N B:CYS303 3.9 129.8 1.0
CA B:HIS266 3.9 121.9 1.0
N B:CYS268 3.9 139.1 1.0
CD B:PRO272 4.0 156.3 1.0
N B:PHE267 4.0 136.7 1.0
NE2 B:HIS266 4.1 126.2 1.0
CA B:CYS303 4.1 106.3 1.0
CD2 B:HIS266 4.2 150.6 1.0
C B:CYS302 4.4 168.3 1.0
CA B:CYS268 4.5 157.8 1.0
C B:HIS266 4.5 130.8 1.0
CA B:CYS302 4.7 157.1 1.0
CA B:ARG271 4.7 180.7 1.0
CE2 B:PHE301 4.9 136.3 1.0
CG B:PRO272 4.9 155.9 1.0
C B:PHE267 5.0 132.4 1.0

Zinc binding site 3 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 3 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


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 Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:177.6
occ:1.00
ND1 C:HIS266 2.1 207.8 1.0
SG C:CYS302 2.3 203.2 1.0
SG C:CYS303 2.8 164.5 1.0
CE1 C:HIS266 3.0 167.2 1.0
SG C:CYS268 3.1 228.4 1.0
CG C:HIS266 3.3 200.6 1.0
CB C:CYS268 3.5 223.5 1.0
CB C:HIS266 3.7 206.3 1.0
CB C:CYS302 3.7 207.8 1.0
CB C:CYS303 3.8 163.6 1.0
N C:CYS268 3.8 218.7 1.0
O C:GLN270 4.0 228.5 1.0
N C:PHE267 4.1 204.9 1.0
CA C:HIS266 4.1 203.2 1.0
NE2 C:HIS266 4.2 178.3 1.0
CD C:PRO272 4.2 200.6 1.0
CA C:CYS268 4.3 225.0 1.0
N C:CYS303 4.3 205.5 1.0
CD2 C:HIS266 4.3 191.7 1.0
CA C:ARG271 4.5 223.5 1.0
C C:HIS266 4.6 210.7 1.0
CA C:CYS303 4.6 163.3 1.0
C C:CYS302 4.7 201.7 1.0
CA C:CYS302 4.8 207.1 1.0
C C:PHE267 4.8 196.7 1.0

Zinc binding site 4 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 4 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


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 Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:164.4
occ:1.00
ND1 D:HIS266 2.2 190.2 1.0
SG D:CYS268 2.5 232.4 1.0
SG D:CYS303 2.6 168.4 1.0
CE1 D:HIS266 2.8 149.4 1.0
CB D:CYS302 3.0 234.4 1.0
CB D:CYS303 3.3 166.9 1.0
SG D:CYS302 3.4 276.2 1.0
CG D:HIS266 3.4 182.1 1.0
N D:CYS303 3.5 198.8 1.0
CD D:PRO272 3.8 190.4 1.0
CB D:CYS268 3.8 221.6 1.0
C D:CYS302 3.9 192.0 1.0
CA D:CYS303 4.0 165.2 1.0
CA D:CYS302 4.0 188.5 1.0
NE2 D:HIS266 4.0 161.3 1.0
CB D:HIS266 4.0 206.2 1.0
N D:CYS268 4.3 224.3 1.0
CD2 D:HIS266 4.4 176.9 1.0
CA D:HIS266 4.4 201.1 1.0
CA D:ARG271 4.5 231.6 1.0
CE2 D:PHE301 4.5 167.7 1.0
N D:PHE267 4.5 216.5 1.0
CZ D:PHE301 4.6 192.9 1.0
O D:CYS302 4.7 190.6 1.0
CG D:PRO272 4.7 185.5 1.0
CA D:CYS268 4.7 219.7 1.0
N D:PRO272 4.7 200.3 1.0
N D:CYS302 4.7 162.4 1.0

Zinc binding site 5 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 5 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:156.4
occ:1.00
CD2 E:HIS266 2.4 150.6 1.0
SG E:CYS268 2.6 219.6 1.0
SG E:CYS303 2.9 138.3 1.0
CB E:CYS302 3.0 217.6 1.0
NE2 E:HIS266 3.2 154.1 1.0
CG E:HIS266 3.4 167.2 1.0
SG E:CYS302 3.4 269.1 1.0
CB E:CYS303 3.6 136.2 1.0
N E:CYS303 3.8 183.5 1.0
CB E:HIS266 3.9 188.0 1.0
CD E:PRO272 4.0 179.4 1.0
C E:CYS302 4.1 171.8 1.0
CB E:CYS268 4.1 210.6 1.0
CA E:CYS302 4.1 181.4 1.0
O E:GLN270 4.3 245.8 1.0
CA E:CYS303 4.3 145.0 1.0
CE1 E:HIS266 4.4 165.8 1.0
CA E:HIS266 4.4 173.6 1.0
ND1 E:HIS266 4.4 171.8 1.0
CE2 E:PHE301 4.5 180.0 1.0
N E:CYS268 4.6 197.9 1.0
CZ E:PHE301 4.6 182.8 1.0
N E:PHE267 4.7 178.6 1.0
CA E:ARG271 4.7 221.8 1.0
CG E:PRO272 4.8 169.2 1.0
N E:CYS302 4.8 169.8 1.0
O E:CYS302 4.9 175.9 1.0
CA E:CYS268 4.9 211.4 1.0
N E:PRO272 5.0 207.1 1.0

Zinc binding site 6 out of 6 in 7cux

Go back to Zinc Binding Sites List in 7cux
Zinc binding site 6 out of 6 in the Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn401

b:171.9
occ:1.00
ND1 F:HIS266 2.2 178.7 1.0
SG F:CYS302 2.4 178.4 1.0
SG F:CYS303 3.0 143.6 1.0
CE1 F:HIS266 3.1 157.0 1.0
CG F:HIS266 3.2 176.6 1.0
SG F:CYS268 3.2 230.2 1.0
CB F:CYS268 3.4 211.9 1.0
CB F:HIS266 3.6 185.4 1.0
CD F:PRO272 3.6 171.5 1.0
N F:CYS268 3.7 188.1 1.0
CB F:CYS302 3.8 196.9 1.0
CB F:CYS303 3.9 136.4 1.0
CA F:HIS266 4.1 166.4 1.0
N F:PHE267 4.1 182.2 1.0
CA F:CYS268 4.1 197.9 1.0
CA F:ARG271 4.1 204.3 1.0
NE2 F:HIS266 4.2 165.6 1.0
CD2 F:HIS266 4.3 176.7 1.0
N F:CYS303 4.4 193.7 1.0
O F:GLN270 4.5 205.6 1.0
C F:HIS266 4.6 170.9 1.0
N F:PRO272 4.6 188.4 1.0
CG F:PRO272 4.7 163.9 1.0
CB F:ARG271 4.8 208.4 1.0
C F:CYS268 4.8 214.6 1.0
C F:PHE267 4.8 173.1 1.0
CA F:CYS303 4.8 153.7 1.0
C F:CYS302 4.8 187.5 1.0
C F:ARG271 4.8 198.0 1.0
CG F:ARG271 4.9 214.2 1.0
N F:ARG271 4.9 204.3 1.0
CA F:CYS302 4.9 190.6 1.0
O F:CYS268 4.9 216.8 1.0

Reference:

J.Y.Yang, M.Luo, J.Y.Ou, Z.W.Wang, S.Gao. Crystal Structure of Human Schlafen 5 N'-Terminal Domain (SLFN5-N) Involved in Ssrna Cleaving and Dna Binding To Be Published.
Page generated: Fri Sep 24 17:04:34 2021

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy