Zinc in PDB 1k2f: Siah, Seven in Absentia Homolog

The structure of Siah, Seven in Absentia Homolog, PDB code: 1k2f was solved by G.Polekhina, C.M.House, N.Traficante, J.P.Mackay, F.Relaix, D.A.Sassoon, M.W.Parker, D.D.L.Bowtell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	66.474, 73.966, 80.554, 90.00, 90.00, 90.00
R / Rfree (%)	22 / 27.7

The binding sites of Zinc atom in the Siah, Seven in Absentia Homolog (pdb code 1k2f). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Siah, Seven in Absentia Homolog, PDB code: 1k2f:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:50.8 occ:1.00 NE2 A:HIS147 1.9 48.9 1.0 NE2 A:HIS152 2.1 56.0 1.0 SG A:CYS128 2.1 51.9 1.0 SG A:CYS135 2.2 63.5 1.0 CD2 A:HIS152 2.7 57.9 1.0 CE1 A:HIS147 2.7 48.0 1.0 CD2 A:HIS147 3.0 49.3 1.0 CB A:CYS128 3.1 49.4 1.0 CB A:CYS135 3.2 59.2 1.0 CE1 A:HIS152 3.3 57.4 1.0 ND1 A:HIS147 3.9 48.3 1.0 CG A:HIS152 4.0 59.9 1.0 CG A:HIS147 4.0 49.6 1.0 CB A:TRP137 4.2 50.2 1.0 ND1 A:HIS152 4.2 57.6 1.0 CA A:CYS128 4.4 48.6 1.0 CA A:CYS135 4.6 58.9 1.0 SG A:CYS130 4.8 46.5 1.0 CG A:TRP137 4.9 48.4 1.0 CB A:CYS130 5.0 40.2 1.0

Zinc binding site 2 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn603 b:47.0 occ:1.00 NE2 A:HIS202 2.0 41.3 1.0 OD2 A:ASP200 2.0 41.6 1.0 CG A:ASP200 2.7 42.9 1.0 OD1 A:ASP200 2.7 42.4 1.0 ND1 B:HIS202 2.8 52.0 1.0 CG B:HIS202 2.9 50.1 1.0 CE1 A:HIS202 2.9 40.2 1.0 CD2 A:HIS202 3.1 42.2 1.0 CB B:HIS202 3.2 48.7 1.0 CE1 B:HIS202 3.4 51.9 1.0 CD2 B:HIS202 3.6 51.2 1.0 NE2 B:HIS202 3.8 52.1 1.0 ND1 A:HIS202 4.1 40.9 1.0 CG A:HIS202 4.2 41.2 1.0 CB A:ASP200 4.2 41.0 1.0 CB A:LYS198 4.3 46.6 1.0 CG A:LYS198 4.4 47.4 1.0 CB B:TYR199 4.6 51.2 1.0 OE1 A:GLN204 4.6 42.1 1.0 CA B:HIS202 4.7 48.6 1.0

Zinc binding site 3 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn604 b:42.1 occ:1.00 OE2 A:GLU269 1.9 36.1 1.0 NE2 A:HIS230 2.0 37.9 1.0 CD A:GLU269 2.7 36.8 1.0 OE1 A:GLU269 2.7 36.2 1.0 CE1 A:HIS230 2.8 40.7 1.0 CD2 A:HIS230 3.1 39.9 1.0 ND1 A:HIS230 4.0 41.0 1.0 CG A:GLU269 4.1 37.1 1.0 CG A:HIS230 4.2 39.0 1.0 O A:HOH33 4.3 42.3 1.0

Zinc binding site 4 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn605 b:91.4 occ:1.00 NE2 A:HIS117 2.1 91.5 1.0 SG A:CYS121 2.3 79.3 1.0 SG A:CYS98 2.3 98.8 1.0 SG A:CYS105 2.7 97.5 1.0 CD2 A:HIS117 2.8 91.7 1.0 CE1 A:HIS117 3.3 91.8 1.0 CB A:CYS121 3.4 78.7 1.0 CG2 A:ILE107 3.8 98.4 1.0 CB A:CYS98 3.9 96.8 1.0 CG A:HIS117 4.0 92.0 1.0 CB A:CYS105 4.2 98.3 1.0 ND1 A:HIS117 4.2 91.6 1.0 CD1 A:TYR100 4.4 74.2 1.0 CB A:TYR100 4.4 80.5 1.0 CA A:CYS121 4.5 78.3 1.0 O A:HIS117 4.8 92.7 1.0 CA A:CYS98 4.9 96.1 1.0 CG A:TYR100 4.9 76.5 1.0

Zinc binding site 5 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:48.2 occ:1.00 NE2 B:HIS152 2.1 48.7 1.0 NE2 B:HIS147 2.1 43.0 1.0 SG B:CYS135 2.3 38.9 1.0 SG B:CYS128 2.3 41.4 1.0 CE1 B:HIS152 2.8 49.5 1.0 CE1 B:HIS147 2.9 42.5 1.0 CB B:CYS128 3.2 43.4 1.0 CD2 B:HIS147 3.2 43.0 1.0 CD2 B:HIS152 3.3 48.9 1.0 CB B:CYS135 3.3 38.9 1.0 ND1 B:HIS152 4.0 50.3 1.0 ND1 B:HIS147 4.0 42.5 1.0 CG B:HIS147 4.2 42.8 1.0 CG B:HIS152 4.3 51.2 1.0 CB B:TRP137 4.3 42.5 1.0 SG B:CYS130 4.4 44.0 1.0 CA B:CYS128 4.5 45.1 1.0 CB B:GLN151 4.7 44.1 1.0 CA B:CYS135 4.7 40.4 1.0 CB B:CYS130 4.8 44.8 1.0

Zinc binding site 6 out of 6 in the Siah, Seven in Absentia Homolog


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Siah, Seven in Absentia Homolog within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn606 b:99.0 occ:1.00 SG B:CYS105 2.2 92.9 1.0 SG B:CYS121 2.6 98.4 1.0 SG B:CYS98 2.6 99.0 1.0 NE2 B:HIS117 2.7 99.0 1.0 CE1 B:HIS117 3.2 98.8 1.0 CB B:CYS105 3.2 96.6 1.0 CB B:CYS98 3.6 98.8 1.0 CB B:CYS121 3.9 97.3 1.0 CD2 B:HIS117 4.0 98.8 1.0 CB B:TYR100 4.2 97.6 1.0 ND1 B:HIS117 4.4 99.0 1.0 N B:ALA101 4.4 99.0 1.0 C B:TYR100 4.5 99.0 1.0 CA B:CYS105 4.6 97.8 1.0 CD1 B:TYR100 4.7 96.4 1.0 CA B:ALA101 4.8 99.0 1.0 CA B:TYR100 4.8 98.7 1.0 O B:CYS105 4.8 98.3 1.0 CG B:HIS117 4.8 98.8 1.0 O B:TYR100 4.8 99.0 1.0 CG B:TYR100 5.0 96.5 1.0 CA B:CYS121 5.0 96.9 1.0

G.Polekhina, C.M.House, N.Traficante, J.P.Mackay, F.Relaix, D.A.Sassoon, M.W.Parker, D.D.Bowtell. Siah Ubiquitin Ligase Is Structurally Related to Traf and Modulates Tnf-Alpha Signaling. Nat.Struct.Biol. V. 9 68 2002.
ISSN: ISSN 1072-8368
PubMed: 11742346
DOI: 10.1038/NSB743