Zinc in PDB 7ox4: Mouse Interleukin-9 in Complex with Fab 35D8.

The structure of Mouse Interleukin-9 in Complex with Fab 35D8., PDB code: 7ox4 was solved by T.De Vos, S.N.Savvides, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.02 / 1.80
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	70.21, 78.92, 192.1, 90, 90, 90
R / Rfree (%)	18.3 / 22.9

Pages:

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

Binding sites:

The binding sites of Zinc atom in the Mouse Interleukin-9 in Complex with Fab 35D8. (pdb code 7ox4). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 11 binding sites of Zinc where determined in the Mouse Interleukin-9 in Complex with Fab 35D8., PDB code: 7ox4:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:32.7 occ:1.00 O A:HOH466 1.9 26.5 1.0 OE2 A:GLU100 1.9 35.9 1.0 OD2 A:ASP35 1.9 42.9 1.0 NE2 A:HIS102 2.0 31.8 1.0 CD2 A:HIS102 2.9 25.2 1.0 CD A:GLU100 3.0 24.7 1.0 CG A:ASP35 3.0 38.2 1.0 CE1 A:HIS102 3.1 32.0 1.0 CG A:GLU100 3.4 32.5 1.0 CB A:ASP35 3.5 38.5 1.0 OE1 A:GLU100 4.1 30.3 1.0 CG A:HIS102 4.1 28.2 1.0 ND1 A:HIS102 4.1 29.4 1.0 OD1 A:ASP35 4.1 38.4 1.0 CB A:GLU100 4.2 37.6 1.0 CH2 C:TRP25 4.3 33.5 1.0 NH2 C:ARG28 4.3 40.5 1.0 CZ2 C:TRP25 4.4 42.2 1.0 NH1 C:ARG28 4.5 44.2 1.0 CB A:ALA52 4.5 25.3 1.0 CZ2 A:TRP49 4.8 32.5 1.0 CE1 B:PHE90 4.8 36.7 1.0 CZ C:ARG28 4.9 48.7 1.0 CA A:ASP35 5.0 31.1 1.0

Zinc binding site 2 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:58.6 occ:1.00 ND1 A:HIS107 2.0 72.2 1.0 OD2 A:ASP105 2.1 75.5 1.0 O A:HOH531 2.2 67.1 1.0 OD1 A:ASP105 2.6 70.4 1.0 CG A:ASP105 2.7 68.0 1.0 CE1 A:HIS107 2.9 74.1 1.0 CG A:HIS107 3.1 63.3 1.0 CB A:HIS107 3.6 37.3 1.0 NE2 A:HIS107 4.1 79.3 1.0 CB A:ASP105 4.1 59.8 1.0 N A:HIS107 4.2 32.0 1.0 CD2 A:HIS107 4.2 72.5 1.0 CA A:HIS107 4.5 34.7 1.0 OG1 B:THR33 4.5 31.9 1.0 CZ3 A:TRP109 4.8 33.0 1.0 N A:THR106 4.8 38.5 1.0 CE3 A:TRP109 4.8 32.7 1.0 O B:ALA32 4.9 32.5 1.0

Zinc binding site 3 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:103.1 occ:1.00 NE2 A:HIS107 2.2 79.3 1.0 CE1 A:HIS107 3.0 74.1 1.0 CD2 A:HIS107 3.3 72.5 1.0 ND1 A:HIS107 4.1 72.2 1.0 CG2 A:THR106 4.2 42.9 1.0 CG A:HIS107 4.3 63.3 1.0 CA B:GLY31 4.4 35.7 1.0 O B:PHE30 5.0 43.3 1.0 CD B:LYS65 5.0 58.8 1.0

Zinc binding site 4 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn304 b:55.7 occ:1.00 O B:HOH488 1.9 41.5 1.0 O A:HOH532 2.1 51.0 1.0 NE2 A:HIS174 2.2 50.0 1.0 OD2 B:ASP140 2.3 41.2 1.0 OD1 B:ASP140 3.0 47.9 1.0 CG B:ASP140 3.0 37.0 1.0 CE1 A:HIS174 3.1 50.2 1.0 CD2 A:HIS174 3.2 25.9 1.0 O B:HOH515 3.5 52.8 1.0 ND1 A:HIS174 4.3 48.6 1.0 CG A:HIS174 4.3 41.8 1.0 OG B:SER139 4.4 39.2 1.0 CB B:ASP140 4.5 36.9 1.0 CB B:SER139 4.6 32.1 1.0

Zinc binding site 5 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:32.1 occ:1.00 O B:HOH477 2.0 32.9 1.0 O B:HOH472 2.0 41.2 1.0 O B:HOH407 2.0 53.0 1.0 ND1 B:HIS104 2.0 37.8 1.0 OD1 B:ASP84 2.0 31.3 1.0 O B:HOH514 2.5 54.7 1.0 CG B:ASP84 2.7 25.1 1.0 OD2 B:ASP84 2.9 28.6 1.0 CE1 B:HIS104 3.0 37.4 1.0 CG B:HIS104 3.0 31.5 1.0 CB B:HIS104 3.4 23.9 1.0 CA B:HIS104 4.1 24.1 1.0 NE2 B:HIS104 4.1 42.0 1.0 CD2 B:HIS104 4.2 33.7 1.0 CB B:ASP84 4.2 25.1 1.0 O B:HOH470 4.4 50.8 1.0 N B:ASP84 4.5 25.7 1.0 CA B:ASP84 4.6 21.9 1.0 C B:ALA83 4.7 28.1 1.0 O B:ALA83 4.8 26.1 1.0 N B:HIS104 5.0 23.3 1.0

Zinc binding site 6 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:31.3 occ:1.00 OXT B:ACT307 1.9 33.9 1.0 ND1 B:HIS199 2.1 30.1 1.0 O B:HOH517 2.5 43.3 1.0 O B:HOH522 2.5 29.7 1.0 C B:ACT307 2.7 44.8 1.0 CE1 B:HIS199 3.0 30.7 1.0 O B:ACT307 3.1 40.5 1.0 CG B:HIS199 3.2 31.8 1.0 O B:HOH475 3.2 47.8 1.0 O B:HIS199 3.4 24.1 1.0 CB B:HIS199 3.6 27.3 1.0 CA B:ALA114 4.1 49.2 1.0 C B:HIS199 4.1 33.1 1.0 NE2 B:HIS199 4.2 28.4 1.0 CH3 B:ACT307 4.2 39.5 1.0 CD2 B:HIS199 4.3 29.7 1.0 CB B:ALA114 4.3 50.7 1.0 CD B:PRO115 4.4 34.9 1.0 OE1 B:GLU200 4.4 62.5 1.0 CA B:HIS199 4.5 21.7 1.0 N B:ALA114 4.6 31.6 1.0 O B:ALA113 4.6 32.3 1.0 CB B:GLU200 4.7 44.1 1.0 O B:HOH422 4.7 37.5 1.0 C B:ALA113 4.8 30.0 1.0

Zinc binding site 7 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn303 b:80.8 occ:1.00 O B:HOH404 2.1 45.0 1.0 O B:HOH408 2.2 63.2 1.0 O B:HOH416 2.4 56.3 1.0 OD1 B:ASP96 2.6 48.1 1.0 OD2 B:ASP96 2.7 56.3 1.0 CG B:ASP96 3.0 50.3 1.0 CB B:SER2 3.9 79.5 1.0 OD2 B:ASP91 4.2 40.5 1.0 CB B:ASP96 4.5 31.9 1.0 OG B:SER2 4.6 83.5 1.0 O B:GLY25 4.7 41.1 1.0 O B:HOH436 4.8 42.5 1.0

Zinc binding site 8 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn304 b:67.7 occ:1.00 O B:HOH411 2.0 63.6 1.0 NE2 B:HIS97 2.0 80.2 1.0 CE1 B:HIS97 2.4 78.9 1.0 O B:HOH409 2.5 60.5 1.0 CD2 B:HIS97 3.2 74.0 1.0 ND1 B:HIS97 3.6 76.5 1.0 CG B:HIS97 4.0 68.8 1.0 N B:SER2 4.7 74.2 1.0 O B:SER2 4.9 62.6 1.0

Zinc binding site 9 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn305 b:55.1 occ:1.00 OD2 B:ASP153 1.9 65.4 1.0 NH2 B:ARG191 2.1 84.5 1.0 ND1 B:HIS190 2.2 88.4 1.0 O B:HOH518 2.5 35.5 1.0 CG B:ASP153 2.9 40.9 1.0 CE1 B:HIS190 3.0 93.3 1.0 CG B:HIS190 3.1 75.6 1.0 CZ B:ARG191 3.3 93.6 1.0 CB B:HIS190 3.5 47.4 1.0 OD1 B:ASP153 3.5 45.8 1.0 CA B:HIS190 3.8 48.7 1.0 NE B:ARG191 4.0 97.3 1.0 CB B:ASP153 4.1 30.6 1.0 NE2 B:HIS190 4.1 98.0 1.0 O B:HOH467 4.1 30.8 1.0 NH1 B:ARG191 4.1 98.8 1.0 CD2 B:HIS190 4.1 88.4 1.0 N B:ARG191 4.6 34.7 1.0 O B:SER189 4.7 50.2 1.0 C B:HIS190 4.8 38.0 1.0 N B:HIS190 4.8 39.7 1.0

Zinc binding site 10 out of 11 in the Mouse Interleukin-9 in Complex with Fab 35D8.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Mouse Interleukin-9 in Complex with Fab 35D8. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn306 b:94.8 occ:1.00 NE2 B:HIS190 2.0 98.0 1.0 O B:HOH500 2.4 48.3 1.0 O B:HOH521 2.6 55.1 1.0 CE1 B:HIS190 2.7 93.3 1.0 CD2 B:HIS190 3.0 88.4 1.0 ND1 B:HIS190 3.8 88.4 1.0 CG B:HIS190 4.0 75.6 1.0 OH B:TYR193 4.4 34.0 1.0 CG B:GLN186 5.0 49.3 1.0

T.De Vos, M.Godar, F.Bick, A.Papageorgiou, T.Evangelidis, I.Markovic, E.Mortier, L.Dumoutier, K.Tripsianes, C.Blanchetot, S.N.Savvides. Structural Basis of the Activation and Antagonism of the Il-9 Signaling Complex. To Be Published.