Zinc in PDB 4ijd: Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9

All present enzymatic activity of Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9:
2.1.1.43;

The structure of Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9, PDB code: 4ijd was solved by A.Dong, L.Dombrovski, Y.Li, W.Tempel, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.19 / 2.15
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.734, 48.782, 78.713, 90.00, 100.05, 90.00
R / Rfree (%)	19.6 / 26.4

The binding sites of Zinc atom in the Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9 (pdb code 4ijd). 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 Methyltransferase Domain of Human Pr Domain- Containing Protein 9, PDB code: 4ijd:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9


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 Methyltransferase Domain of Human Pr Domain- Containing Protein 9 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:58.5 occ:1.00 ND1 A:HIS219 2.2 59.2 1.0 SG A:CYS205 2.3 51.7 1.0 SG A:CYS216 2.3 53.2 1.0 SG A:CYS208 2.4 62.0 1.0 CE1 A:HIS219 3.0 59.9 1.0 CG A:HIS219 3.2 58.7 1.0 CB A:CYS205 3.2 46.7 1.0 CB A:CYS208 3.4 57.8 1.0 CB A:CYS216 3.5 50.3 1.0 CB A:HIS219 3.6 56.4 1.0 N A:CYS208 3.8 55.3 1.0 N A:HIS219 4.1 59.9 1.0 CB A:ALA218 4.1 61.4 1.0 NE2 A:HIS219 4.2 61.6 1.0 CA A:CYS208 4.2 55.8 1.0 CD2 A:HIS219 4.3 61.0 1.0 CA A:HIS219 4.5 59.6 1.0 CB A:MSE207 4.6 66.2 1.0 CA A:CYS205 4.7 42.0 1.0 C A:ALA218 4.8 63.1 1.0 N A:ALA218 4.8 59.6 1.0 CA A:ALA218 4.8 62.2 1.0 CA A:CYS216 4.8 50.5 1.0 C A:MSE207 4.9 57.7 1.0 UNK A:UNX515 4.9 30.0 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9


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 Methyltransferase Domain of Human Pr Domain- Containing Protein 9 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:38.3 occ:1.00 NE2 A:HIS406 2.1 36.1 1.0 NE2 A:HIS411 2.1 35.1 1.0 SG A:CYS393 2.3 36.4 1.0 SG A:CYS390 2.3 39.9 1.0 CD2 A:HIS411 3.0 35.6 1.0 CE1 A:HIS406 3.0 35.1 1.0 CD2 A:HIS406 3.1 36.8 1.0 CB A:CYS393 3.2 35.5 1.0 CB A:CYS390 3.2 39.4 1.0 CE1 A:HIS411 3.2 33.3 1.0 N A:CYS393 3.8 40.1 1.0 CA A:CYS393 4.0 37.7 1.0 CG A:HIS411 4.2 36.1 1.0 ND1 A:HIS406 4.2 38.1 1.0 ND1 A:HIS411 4.3 35.5 1.0 CG A:HIS406 4.3 38.6 1.0 C A:SER392 4.3 43.1 1.0 C A:CYS393 4.4 36.5 1.0 CA A:CYS390 4.6 40.5 1.0 CB A:SER392 4.7 43.1 1.0 O A:CYS393 4.7 34.8 1.0 N A:SER392 4.8 46.1 1.0 CA A:SER392 4.8 44.1 1.0 O A:SER392 4.8 46.0 1.0 CB A:LEU395 4.9 36.2 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9


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 Methyltransferase Domain of Human Pr Domain- Containing Protein 9 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:68.4 occ:1.00 ND1 B:HIS219 2.2 63.8 1.0 SG B:CYS205 2.3 59.3 1.0 SG B:CYS216 2.4 61.9 1.0 SG B:CYS208 2.4 74.1 1.0 CE1 B:HIS219 2.9 64.1 1.0 CB B:CYS205 3.2 57.5 1.0 CG B:HIS219 3.3 62.8 1.0 CB B:CYS216 3.4 60.1 1.0 CB B:CYS208 3.4 70.2 1.0 N B:CYS208 3.8 68.8 1.0 CB B:HIS219 3.8 62.2 1.0 CB B:ALA218 3.9 71.1 1.0 N B:HIS219 4.1 65.5 1.0 NE2 B:HIS219 4.1 64.5 1.0 CA B:CYS208 4.2 69.9 1.0 CD2 B:HIS219 4.3 64.6 1.0 CB B:MSE207 4.6 85.6 1.0 CA B:HIS219 4.6 65.6 1.0 CA B:CYS205 4.6 54.0 1.0 CA B:ALA218 4.7 72.1 1.0 N B:ALA218 4.7 69.6 1.0 C B:ALA218 4.8 70.6 1.0 C B:MSE207 4.8 70.9 1.0 CA B:CYS216 4.8 60.4 1.0 UNK B:UNX508 4.9 30.0 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of Methyltransferase Domain of Human Pr Domain- Containing Protein 9


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 Methyltransferase Domain of Human Pr Domain- Containing Protein 9 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn502 b:60.9 occ:1.00 NE2 B:HIS406 2.1 55.6 1.0 NE2 B:HIS411 2.2 64.5 1.0 SG B:CYS390 2.3 56.0 1.0 SG B:CYS393 2.3 57.6 1.0 CD2 B:HIS411 3.0 69.0 1.0 CD2 B:HIS406 3.0 56.0 1.0 CE1 B:HIS406 3.2 54.4 1.0 CE1 B:HIS411 3.3 66.1 1.0 CB B:CYS390 3.4 55.7 1.0 CB B:CYS393 3.4 58.6 1.0 N B:CYS393 3.5 61.7 1.0 CA B:CYS393 4.0 58.7 1.0 CB B:SER392 4.1 69.2 1.0 C B:SER392 4.1 64.0 1.0 CG B:HIS406 4.2 56.0 1.0 CG B:HIS411 4.2 71.2 1.0 ND1 B:HIS406 4.3 53.8 1.0 ND1 B:HIS411 4.3 70.3 1.0 CA B:SER392 4.5 67.0 1.0 OD1 B:ASN410 4.6 77.6 1.0 C B:CYS393 4.6 56.9 1.0 N B:SER392 4.7 64.8 1.0 O B:CYS393 4.8 56.4 1.0 CA B:CYS390 4.8 56.7 1.0 O B:SER392 4.8 65.6 1.0

L.Dombrovski, A.Dong, Y.Li, W.Tempel, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu, Structural Genomics Consortium (Sgc). Crystal Structure of Methyltransferase Domain of Human Pr Domain-Containing Protein 9 To Be Published.