Zinc in PDB 4x3g: Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide

All present enzymatic activity of Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide:
3.4.19.12;

The structure of Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide, PDB code: 4x3g was solved by J.R.Walker, A.Dong, Q.Zhang, X.Huang, Y.Li, C.Bountra, A.M.Edwards, C.H.Arrowsmith, Y.Tong, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.45 / 2.34
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	41.343, 88.092, 59.590, 90.00, 103.24, 90.00
R / Rfree (%)	22.2 / 25.1

The binding sites of Zinc atom in the Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide (pdb code 4x3g). 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 SIAH1 Sina Domain in Complex with A USP19 Peptide, PDB code: 4x3g:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide


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 SIAH1 Sina Domain in Complex with A USP19 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:89.2 occ:1.00 NE2 A:HIS152 1.9 85.3 1.0 SG A:CYS128 2.2 88.4 1.0 NE2 A:HIS147 2.3 77.7 1.0 SG A:CYS135 2.4 97.4 1.0 CE1 A:HIS152 2.5 85.5 1.0 CE1 A:HIS147 2.9 79.7 1.0 CD2 A:HIS152 3.2 85.5 1.0 CB A:CYS135 3.3 93.3 1.0 CB A:CYS128 3.4 84.0 1.0 CD2 A:HIS147 3.4 77.2 1.0 ND1 A:HIS152 3.7 86.5 1.0 CG A:HIS152 4.0 84.5 1.0 ND1 A:HIS147 4.1 81.0 1.0 SG A:CYS130 4.4 90.5 1.0 CG A:HIS147 4.4 77.4 1.0 CB A:TRP137 4.4 81.0 1.0 CA A:CYS128 4.7 81.6 1.0 CB A:CYS130 4.7 86.1 1.0 CA A:CYS135 4.7 94.4 1.0 CB A:GLN151 4.8 86.7 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide


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 SIAH1 Sina Domain in Complex with A USP19 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:82.4 occ:1.00 SG A:CYS105 2.2 87.0 1.0 SG A:CYS121 2.2 90.9 1.0 SG A:CYS98 2.5 80.2 1.0 NE2 A:HIS117 2.7 98.9 1.0 CB A:CYS105 3.2 84.1 1.0 CD2 A:HIS117 3.3 99.5 1.0 CB A:CYS98 3.3 78.5 1.0 CB A:CYS121 3.4 85.6 1.0 CE1 A:HIS117 3.7 97.7 1.0 CG A:HIS117 4.5 97.1 1.0 CA A:CYS121 4.5 84.3 1.0 CA A:CYS105 4.6 85.4 1.0 CD2 A:TYR100 4.6 76.8 1.0 CD1 A:ILE107 4.7 0.9 1.0 ND1 A:HIS117 4.7 98.0 1.0 CA A:CYS98 4.7 79.6 1.0 CB A:TYR100 5.0 76.7 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide


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 SIAH1 Sina Domain in Complex with A USP19 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:90.5 occ:1.00 NE2 B:HIS152 1.9 91.0 1.0 NE2 B:HIS147 2.2 97.4 1.0 SG B:CYS135 2.3 0.0 1.0 SG B:CYS128 2.5 86.5 1.0 CD2 B:HIS152 2.7 90.4 1.0 CE1 B:HIS152 3.0 89.5 1.0 CD2 B:HIS147 3.1 95.9 1.0 CE1 B:HIS147 3.2 99.6 1.0 CB B:CYS135 3.3 0.0 1.0 CB B:CYS128 3.6 84.4 1.0 CG B:HIS152 3.8 87.1 1.0 ND1 B:HIS152 4.0 88.6 1.0 CG B:HIS147 4.2 95.8 1.0 ND1 B:HIS147 4.3 0.2 1.0 CB B:TRP137 4.4 1.0 1.0 CA B:CYS135 4.7 0.6 1.0 CB B:GLN151 4.8 94.9 1.0 CA B:CYS128 4.9 83.1 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide


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 SIAH1 Sina Domain in Complex with A USP19 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:0.2 occ:1.00 SG B:CYS98 2.3 0.4 1.0 SG B:CYS121 2.3 0.9 1.0 SG B:CYS105 2.3 0.1 1.0 NE2 B:HIS117 2.6 0.5 1.0 CB B:CYS98 3.2 0.3 1.0 CD2 B:HIS117 3.2 0.3 1.0 CB B:CYS105 3.4 0.6 1.0 CB B:CYS121 3.4 0.7 1.0 CE1 B:HIS117 3.7 0.9 1.0 CG B:HIS117 4.4 0.7 1.0 CG2 B:ILE107 4.6 0.1 1.0 CA B:CYS98 4.7 0.1 1.0 CD2 B:TYR100 4.7 0.9 1.0 ND1 B:HIS117 4.7 0.3 1.0 CA B:CYS121 4.7 0.0 1.0 CB B:TYR100 4.8 0.6 1.0 CA B:CYS105 4.8 0.6 1.0

J.R.Walker, A.Dong, Q.Zhang, X.Huang, Y.Li, C.Bountra, A.M.Edwards, C.H.Arrowsmith, Y.Tong, Structural Genomics Consortium (Sgc). Crystal Structure of SIAH1 Sina Domain in Complex with A USP19 Peptide To Be Published.