Zinc in PDB 1z6u: NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]

All present enzymatic activity of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]:
6.3.2.19;

The structure of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens], PDB code: 1z6u was solved by J.R.Walker, G.V.Avvakumov, S.Xue, E.M.Newman, F.Mackenzie, M.Sundstrom, C.Arrowsmith, A.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.86 / 2.10
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	64.561, 64.561, 130.313, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 28.3

The binding sites of Zinc atom in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens] (pdb code 1z6u). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens], PDB code: 1z6u:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens] within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:45.3 occ:1.00 ND1 A:HIS750 2.1 39.0 1.0 SG A:CYS768 2.2 35.8 1.0 SG A:CYS748 2.3 30.3 1.0 SG A:CYS771 2.5 41.0 1.0 CE1 A:HIS750 3.1 40.3 1.0 CG A:HIS750 3.1 37.3 1.0 CB A:CYS768 3.1 39.4 1.0 CB A:CYS748 3.3 31.8 1.0 CB A:CYS771 3.3 42.4 1.0 CB A:HIS750 3.4 33.7 1.0 N A:CYS771 3.8 42.6 1.0 O A:CYS748 3.9 33.2 1.0 OG1 A:THR746 3.9 31.6 1.0 CA A:CYS771 4.2 42.7 1.0 NE2 A:HIS750 4.2 39.7 1.0 C A:CYS748 4.2 32.9 1.0 CD2 A:HIS750 4.2 38.6 1.0 CA A:CYS748 4.3 32.0 1.0 CB A:ALA770 4.4 42.0 1.0 N A:HIS750 4.5 33.1 1.0 CA A:CYS768 4.6 39.4 1.0 CB A:HIS773 4.6 43.3 1.0 CA A:HIS750 4.6 33.5 1.0 C A:ALA770 4.7 42.7 1.0 C A:CYS771 4.8 43.5 1.0 CA A:ALA770 4.9 42.4 1.0 N A:ALA770 4.9 41.5 1.0 N A:ARG772 4.9 43.8 1.0 CB A:THR746 4.9 29.2 1.0 C A:CYS768 5.0 39.6 1.0

Zinc binding site 2 out of 4 in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens] within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2 b:43.9 occ:1.00 SG A:CYS756 2.3 32.0 1.0 SG A:CYS736 2.3 32.1 1.0 SG A:CYS733 2.4 29.2 0.5 SG A:CYS733 2.4 31.4 0.5 SG A:CYS753 2.4 32.3 1.0 CB A:CYS733 2.9 30.9 0.5 CB A:CYS753 3.1 30.7 1.0 CB A:CYS736 3.3 34.4 1.0 CB A:CYS733 3.3 31.6 0.5 CB A:CYS756 3.5 33.7 1.0 N A:CYS736 3.6 35.3 1.0 N A:CYS753 4.0 30.6 1.0 CA A:CYS736 4.0 34.5 1.0 CA A:CYS753 4.2 31.3 1.0 CA A:CYS733 4.4 31.6 0.5 CB A:CYS735 4.4 37.7 1.0 O A:HOH50 4.4 49.2 1.0 C A:CYS735 4.6 37.0 1.0 NH2 A:ARG802 4.7 39.5 1.0 CA A:CYS733 4.8 32.2 0.5 CA A:CYS756 4.8 34.2 1.0 C A:CYS733 4.8 32.5 0.5 CA A:CYS735 4.8 37.4 1.0 C A:CYS736 4.9 33.9 1.0 O A:CYS733 4.9 31.7 0.5 N A:CYS735 4.9 36.2 1.0 N A:CYS756 5.0 34.5 1.0 NH2 A:ARG759 5.0 51.9 1.0

Zinc binding site 3 out of 4 in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens] within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn3 b:49.5 occ:1.00 ND1 B:HIS750 2.1 35.8 1.0 SG B:CYS748 2.3 40.5 1.0 SG B:CYS768 2.3 43.4 1.0 SG B:CYS771 2.4 43.1 1.0 CE1 B:HIS750 2.9 37.4 1.0 CB B:CYS768 3.1 47.1 1.0 CG B:HIS750 3.2 36.9 1.0 CB B:CYS748 3.3 41.5 1.0 CB B:CYS771 3.5 46.0 1.0 CB B:HIS750 3.7 36.3 1.0 N B:CYS771 3.9 46.9 1.0 OG1 B:THR746 3.9 38.2 1.0 NE2 B:HIS750 4.1 37.4 1.0 O B:CYS748 4.2 40.3 1.0 CD2 B:HIS750 4.2 34.9 1.0 CA B:CYS771 4.3 46.4 1.0 CB B:ALA770 4.3 47.0 1.0 CA B:CYS748 4.4 40.4 1.0 C B:CYS748 4.4 40.1 1.0 CA B:CYS768 4.6 47.3 1.0 CB B:HIS773 4.7 48.6 1.0 N B:HIS750 4.7 36.8 1.0 C B:ALA770 4.7 47.5 1.0 CA B:HIS750 4.8 36.0 1.0 CA B:ALA770 4.8 47.4 1.0 N B:ALA770 4.9 47.1 1.0 CB B:THR746 4.9 36.6 1.0 C B:CYS771 4.9 46.7 1.0

Zinc binding site 4 out of 4 in the NP95-Like Ring Finger Protein Isoform B [Homo Sapiens]


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of NP95-Like Ring Finger Protein Isoform B [Homo Sapiens] within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn4 b:55.8 occ:1.00 SG B:CYS756 2.3 43.5 1.0 SG B:CYS736 2.4 49.8 1.0 SG B:CYS753 2.4 37.4 1.0 SG B:CYS733 2.5 40.1 1.0 CB B:CYS733 3.1 41.8 1.0 CB B:CYS736 3.1 49.4 1.0 CB B:CYS753 3.1 36.1 1.0 CB B:CYS756 3.5 44.4 1.0 N B:CYS736 3.7 49.5 1.0 CA B:CYS736 4.0 49.8 1.0 N B:CYS753 4.1 35.9 1.0 CA B:CYS753 4.2 35.8 1.0 CB B:CYS735 4.5 49.6 1.0 CA B:CYS733 4.6 43.2 1.0 C B:CYS735 4.8 50.1 1.0 NH2 B:ARG802 4.8 46.0 1.0 CA B:CYS756 4.8 44.5 1.0 C B:CYS736 4.9 50.0 1.0 CA B:CYS735 5.0 50.0 1.0 N B:CYS735 5.0 48.7 1.0 C B:CYS733 5.0 44.4 1.0

J.R.Walker, G.V.Avvakumov, S.Xue, E.M.Newman, F.Mackenzie, M.Sundstrom, C.Arrowsmith, A.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomics Consortium (Sgc). 2.1 Angstrom Crystal Structure of the Human Ubiquitin Liagse Nirf To Be Published.