Zinc in PDB 7ynx: Crystal Structure of PIRH2 Bound to Poly-Ala Peptide

All present enzymatic activity of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide:
2.3.2.27;

The structure of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide, PDB code: 7ynx was solved by C.Dong, X.Yan, Y.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.52 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.47, 80.27, 84.87, 90, 90, 90
R / Rfree (%)	21.6 / 26.4

The structure of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide also contains other interesting chemical elements:

Sodium

(Na)

12 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Zinc atom in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide (pdb code 7ynx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 16 binding sites of Zinc where determined in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide, PDB code: 7ynx:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala 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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:54.4 occ:1.00 NE2 A:HIS44 2.2 43.4 1.0 SG A:CYS33 2.3 35.5 1.0 NE2 A:HIS50 2.4 50.6 1.0 SG A:CYS34 2.5 43.7 1.0 CE1 A:HIS50 3.0 49.7 1.0 CD2 A:HIS44 3.1 37.2 1.0 N A:CYS34 3.2 41.6 1.0 CB A:CYS34 3.3 40.2 1.0 CE1 A:HIS44 3.3 40.9 1.0 CB A:CYS33 3.4 45.2 1.0 CD2 A:HIS50 3.5 44.8 1.0 CB A:ALA31 3.8 33.8 1.0 CA A:CYS34 3.8 41.2 1.0 C A:CYS33 4.1 40.9 1.0 CG A:GLU48 4.1 50.1 1.0 CA A:CYS33 4.2 42.5 1.0 ND1 A:HIS50 4.2 49.6 1.0 CG A:HIS44 4.3 40.7 1.0 ND1 A:HIS44 4.4 36.3 1.0 CG A:HIS50 4.5 49.2 1.0 N A:CYS33 4.5 44.9 1.0 CD A:GLU48 4.5 49.6 1.0 OE2 A:GLU48 4.6 52.3 1.0 CB A:GLU48 4.6 48.3 1.0 C A:CYS34 4.8 40.9 1.0

Zinc binding site 2 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala 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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:44.2 occ:1.00 SG A:CYS75 2.4 27.5 1.0 SG A:CYS78 2.4 27.6 1.0 SG A:CYS65 2.4 26.7 1.0 SG A:CYS62 2.5 31.0 1.0 CB A:CYS62 3.0 30.6 1.0 CB A:CYS75 3.1 33.2 1.0 CB A:CYS78 3.3 29.5 1.0 CB A:CYS65 3.4 30.5 1.0 N A:CYS78 3.7 32.0 1.0 N A:CYS65 4.0 29.0 1.0 CA A:CYS78 4.0 29.6 1.0 CA A:CYS65 4.2 35.4 1.0 CB A:LYS67 4.5 31.9 1.0 CA A:CYS62 4.5 28.1 1.0 C A:CYS78 4.5 30.9 1.0 CA A:CYS75 4.5 36.3 1.0 NE2 A:GLN69 4.5 25.9 1.0 N A:SER79 4.6 34.3 1.0 CB A:THR80 4.6 29.0 1.0 C A:CYS65 4.7 33.6 1.0 OG1 A:THR80 4.7 32.1 1.0 CB A:GLU77 4.8 36.3 1.0 N A:THR80 4.9 31.6 1.0 C A:GLU77 4.9 36.7 1.0 N A:LYS67 4.9 32.0 1.0 N A:GLU66 5.0 35.8 1.0

Zinc binding site 3 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala 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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:42.5 occ:1.00 ND1 A:HIS118 2.0 24.6 1.0 SG A:CYS105 2.3 28.1 1.0 SG A:CYS102 2.4 28.1 1.0 SG A:CYS125 2.5 25.2 1.0 CE1 A:HIS118 2.8 25.3 1.0 CG A:HIS118 3.1 26.2 1.0 CB A:CYS105 3.2 26.3 1.0 CB A:CYS102 3.4 31.8 1.0 CB A:CYS125 3.5 23.7 1.0 N A:CYS125 3.5 22.0 1.0 N A:CYS105 3.5 23.3 1.0 CB A:HIS118 3.6 25.6 1.0 CA A:CYS125 3.8 23.9 1.0 CA A:CYS105 3.9 23.4 1.0 C A:LEU124 4.0 25.6 1.0 NE2 A:HIS118 4.0 27.1 1.0 CD2 A:HIS118 4.2 26.3 1.0 CA A:HIS118 4.4 27.1 1.0 CA A:LEU124 4.4 26.9 1.0 O A:LEU124 4.6 28.4 1.0 C A:ASN104 4.6 29.7 1.0 CB A:ASN104 4.6 29.6 1.0 NE A:ARG109 4.8 21.3 1.0 CG A:ARG109 4.8 25.2 1.0 CA A:CYS102 4.8 35.9 1.0

Zinc binding site 4 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala 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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn304 b:39.1 occ:1.00 ND1 A:HIS166 2.2 28.3 1.0 SG A:CYS183 2.3 21.1 1.0 SG A:CYS186 2.4 27.9 1.0 SG A:CYS164 2.4 23.2 1.0 CB A:CYS183 3.0 26.6 1.0 CG A:HIS166 3.0 34.9 1.0 CE1 A:HIS166 3.1 31.9 1.0 CB A:CYS186 3.3 24.8 1.0 CB A:HIS166 3.4 25.9 1.0 CB A:CYS164 3.5 22.5 1.0 N A:CYS186 3.6 27.2 1.0 CA A:CYS186 4.0 24.8 1.0 CD2 A:HIS166 4.1 38.0 1.0 NE2 A:HIS166 4.1 34.5 1.0 CA A:CYS183 4.5 28.6 1.0 N A:HIS166 4.5 31.8 1.0 CB A:LEU185 4.6 26.5 1.0 CA A:HIS166 4.6 31.4 1.0 C A:CYS186 4.7 28.6 1.0 C A:LEU185 4.7 32.3 1.0 N A:MET187 4.8 23.2 1.0 CA A:CYS164 4.8 28.8 1.0 N A:LEU185 4.9 30.1 1.0 C A:CYS183 4.9 32.2 1.0 CD1 A:LEU162 4.9 31.4 1.0 CA A:LEU185 5.0 29.1 1.0 C A:CYS164 5.0 31.5 1.0

Zinc binding site 5 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn305 b:42.4 occ:1.00 ND1 A:HIS22 2.1 32.4 1.0 SG A:CYS43 2.4 33.3 1.0 SG A:CYS40 2.5 29.5 1.0 SG A:CYS20 2.5 25.9 1.0 CE1 A:HIS22 2.9 35.2 1.0 CG A:HIS22 3.2 36.6 1.0 CB A:CYS43 3.3 28.4 1.0 CB A:CYS20 3.3 28.2 1.0 N A:CYS43 3.5 28.6 1.0 CB A:CYS40 3.6 25.0 1.0 CB A:HIS22 3.7 30.1 1.0 CA A:CYS43 3.9 30.3 1.0 NE2 A:HIS22 4.1 38.4 1.0 N A:CYS40 4.1 27.7 1.0 N A:HIS22 4.2 33.2 1.0 CD2 A:HIS22 4.3 36.8 1.0 CA A:CYS40 4.3 31.0 1.0 CB A:THR39 4.6 30.9 1.0 C A:LEU42 4.6 32.7 1.0 CA A:HIS22 4.6 32.0 1.0 CB A:LEU42 4.6 27.4 1.0 O A:CYS40 4.6 26.7 1.0 C A:CYS40 4.7 27.7 1.0 CA A:CYS20 4.7 26.9 1.0 N A:GLU21 4.7 28.4 1.0 CG A:GLU21 4.7 41.1 1.0 CD2 A:TYR23 4.8 25.6 1.0 C A:THR39 4.9 32.0 1.0 CA A:LEU42 4.9 27.4 1.0 N A:LEU42 5.0 29.6 1.0

Zinc binding site 6 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


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 PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn306 b:48.9 occ:1.00 ND1 A:HIS101 2.1 31.2 1.0 SG A:CYS108 2.5 24.6 1.0 SG A:CYS90 2.5 32.6 1.0 SG A:CYS87 2.5 26.4 1.0 CG A:HIS101 3.0 26.0 1.0 CE1 A:HIS101 3.1 30.1 1.0 CB A:HIS101 3.2 27.1 1.0 CB A:CYS90 3.4 29.2 1.0 N A:CYS108 3.5 24.8 1.0 CB A:CYS108 3.5 30.9 1.0 CB A:CYS87 3.5 26.6 1.0 CA A:CYS108 3.8 27.4 1.0 N A:CYS90 3.8 25.5 1.0 C A:ILE107 3.9 30.7 1.0 CD2 A:HIS101 4.1 27.7 1.0 CA A:HIS101 4.1 28.9 1.0 NE2 A:HIS101 4.1 33.9 1.0 CA A:CYS90 4.2 30.5 1.0 O A:ILE107 4.3 31.5 1.0 CA A:ILE107 4.5 25.2 1.0 CB A:ILE89 4.6 28.7 1.0 OH A:TYR85 4.8 24.4 1.0 C A:ILE89 4.9 31.6 1.0 CA A:CYS87 4.9 26.0 1.0

Zinc binding site 7 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn307 b:45.7 occ:1.00 ND1 A:HIS169 2.1 29.8 1.0 SG A:CYS172 2.4 29.3 1.0 SG A:CYS145 2.4 28.6 1.0 SG A:CYS148 2.5 35.2 1.0 CB A:CYS145 2.9 24.3 1.0 CG A:HIS169 3.0 27.0 1.0 CE1 A:HIS169 3.0 30.9 1.0 CB A:HIS169 3.3 27.8 1.0 CB A:CYS172 3.4 30.1 1.0 CB A:CYS148 3.4 34.4 1.0 N A:CYS148 3.8 37.1 1.0 N A:HIS169 4.0 24.6 1.0 CD2 A:HIS169 4.1 31.1 1.0 NE2 A:HIS169 4.1 29.8 1.0 CA A:CYS148 4.2 31.3 1.0 NA A:NA317 4.2 48.7 1.0 CA A:HIS169 4.3 28.3 1.0 CA A:CYS145 4.4 30.2 1.0 CB A:ILE147 4.5 37.4 1.0 CA A:CYS172 4.7 33.7 1.0 C A:ILE147 4.9 33.8 1.0 C A:CYS145 4.9 29.1 1.0 N A:CYS172 5.0 31.4 1.0 O A:CYS145 5.0 27.9 1.0

Zinc binding site 8 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn308 b:46.9 occ:1.00 NE2 A:HIS134 2.2 28.1 1.0 SG A:CYS136 2.4 30.3 1.0 SG A:CYS122 2.4 34.1 1.0 SG A:CYS119 2.5 28.6 1.0 CD2 A:HIS134 3.0 26.9 1.0 CB A:CYS136 3.2 37.5 1.0 CE1 A:HIS134 3.2 29.9 1.0 CB A:CYS122 3.4 30.4 1.0 CA A:CYS136 3.5 35.1 1.0 CB A:CYS119 3.7 32.5 1.0 N A:CYS122 3.7 30.0 1.0 CA A:CYS122 4.2 33.7 1.0 CG A:HIS134 4.2 27.6 1.0 ND1 A:HIS134 4.3 32.8 1.0 N A:CYS136 4.3 29.9 1.0 CB A:LYS121 4.5 38.5 1.0 CD1 A:LEU126 4.6 27.7 1.0 O A:LYS135 4.7 33.2 1.0 C A:LYS135 4.7 28.9 1.0 C A:CYS136 4.8 33.4 1.0 C A:LYS121 4.8 32.7 1.0 N A:ILE137 4.9 31.6 1.0

Zinc binding site 9 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:41.0 occ:1.00 ND1 B:HIS22 2.1 28.4 1.0 SG B:CYS43 2.2 32.2 1.0 SG B:CYS20 2.5 26.6 1.0 SG B:CYS40 2.6 25.1 1.0 CE1 B:HIS22 2.8 27.4 1.0 CB B:CYS43 3.2 29.5 1.0 CB B:CYS20 3.2 21.3 1.0 CG B:HIS22 3.2 29.4 1.0 N B:CYS43 3.5 24.4 1.0 CA B:CYS43 3.8 28.4 1.0 CB B:HIS22 3.8 22.6 1.0 CB B:CYS40 3.8 25.5 1.0 NE2 B:HIS22 4.0 27.1 1.0 N B:HIS22 4.2 31.2 1.0 CD2 B:HIS22 4.2 30.1 1.0 N B:CYS40 4.3 24.9 1.0 C B:LEU42 4.5 25.1 1.0 CA B:CYS40 4.5 29.1 1.0 CB B:LEU42 4.6 25.1 1.0 CA B:HIS22 4.6 27.1 1.0 CB B:THR39 4.6 30.2 1.0 CA B:CYS20 4.6 27.9 1.0 N B:GLU21 4.7 31.9 1.0 CG B:GLU21 4.7 29.9 1.0 O B:HOH427 4.7 32.8 1.0 O B:CYS40 4.7 23.2 1.0 C B:CYS40 4.8 26.2 1.0 CD2 B:TYR23 4.9 22.3 1.0 CA B:LEU42 5.0 22.6 1.0 C B:CYS20 5.0 28.5 1.0

Zinc binding site 10 out of 16 in the Crystal Structure of PIRH2 Bound to Poly-Ala Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of PIRH2 Bound to Poly-Ala Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:45.6 occ:1.00 NE2 B:HIS50 2.2 35.4 1.0 NE2 B:HIS44 2.3 39.5 1.0 SG B:CYS34 2.5 40.4 1.0 SG B:CYS33 2.5 36.1 1.0 CE1 B:HIS50 3.0 37.1 1.0 CD2 B:HIS44 3.2 30.1 1.0 CE1 B:HIS44 3.3 35.1 1.0 CD2 B:HIS50 3.3 35.3 1.0 CB B:CYS34 3.3 38.5 1.0 CB B:CYS33 3.5 39.3 1.0 N B:CYS34 3.5 42.1 1.0 CB B:ALA31 3.8 29.8 1.0 C B:CYS33 3.9 40.9 1.0 CA B:CYS34 4.0 38.8 1.0 CA B:CYS33 4.1 39.5 1.0 ND1 B:HIS50 4.1 32.9 1.0 CG B:HIS50 4.3 32.5 1.0 ND1 B:HIS44 4.4 34.2 1.0 CG B:HIS44 4.4 31.8 1.0 CG B:GLU48 4.4 32.9 1.0 N B:CYS33 4.5 42.7 1.0 O B:CYS33 4.6 49.7 1.0 CB B:GLU48 4.8 32.1 1.0 CD B:GLU48 4.8 37.3 1.0 OE1 B:GLU48 4.8 46.4 1.0

C.Dong, X.Yan, Y.Li. Crystal Structure of PIRH2 Bound to Poly-Ala Peptide To Be Published.