Nickel in PDB 3qc3: Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution

Enzymatic activity of Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution

Protein crystallography data

Other elements in 3qc3:

Nickel Binding Sites:

Nickel binding site 1 out of 2 in 3qc3

Nickel Binding Sites List in 3qc3

Nickel binding site 1 out of 2 in the Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni230 b:40.6 occ:0.30 ZN A:ZN229 0.2 41.4 0.5 FE A:FE231 0.3 40.4 0.2 OD1 A:ASP37 2.0 38.6 1.0 OD2 A:ASP175 2.1 36.7 1.0 O1 A:GOL232 2.1 64.1 1.0 O A:HOH463 2.2 42.0 1.0 NE2 A:HIS35 2.2 34.8 1.0 ND1 A:HIS70 2.2 35.9 1.0 CG A:ASP37 3.0 38.0 1.0 CD2 A:HIS35 3.0 33.5 1.0 CE1 A:HIS70 3.1 38.4 1.0 CG A:ASP175 3.1 40.5 1.0 CG A:HIS70 3.2 34.5 1.0 CE1 A:HIS35 3.3 36.0 1.0 C1 A:GOL232 3.3 68.0 1.0 OD2 A:ASP37 3.3 45.2 1.0 OD1 A:ASP175 3.5 42.7 1.0 CB A:HIS70 3.6 34.2 1.0 CE A:MSE72 4.1 35.0 1.0 NE2 A:HIS70 4.2 35.3 1.0 CG A:HIS35 4.3 35.1 1.0 CB A:ASP37 4.3 37.3 1.0 CD2 A:HIS70 4.3 35.2 1.0 ND1 A:HIS35 4.3 35.7 1.0 CB A:ASP175 4.4 39.7 1.0 O2 A:GOL232 4.4 71.4 1.0 C2 A:GOL232 4.5 69.5 1.0 OG A:SER10 4.7 41.7 0.5 CA A:ASP37 4.8 36.3 1.0 CG1 A:VAL195 5.0 33.9 1.0

Nickel binding site 2 out of 2 in 3qc3

Nickel Binding Sites List in 3qc3

Nickel binding site 2 out of 2 in the Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of A D-Ribulose-5-Phosphate-3-Epimerase (NP_954699) From Homo Sapiens at 2.20 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni230 b:37.0 occ:0.30 FE B:FE231 0.1 34.1 0.2 ZN B:ZN229 0.1 39.7 0.5 OD1 B:ASP37 2.0 38.3 1.0 OD2 B:ASP175 2.0 38.8 1.0 O3 B:GOL232 2.2 59.1 1.0 NE2 B:HIS35 2.2 32.8 1.0 ND1 B:HIS70 2.2 30.8 1.0 O B:HOH456 2.3 38.2 1.0 CG B:ASP175 3.0 37.1 1.0 CG B:ASP37 3.1 38.1 1.0 CD2 B:HIS35 3.1 34.0 1.0 CE1 B:HIS70 3.1 35.2 1.0 C3 B:GOL232 3.3 60.8 1.0 CG B:HIS70 3.3 33.1 1.0 CE1 B:HIS35 3.3 34.7 1.0 OD1 B:ASP175 3.3 42.2 1.0 OD2 B:ASP37 3.4 42.6 1.0 CB B:HIS70 3.6 33.0 1.0 CE B:MSE72 4.1 35.0 1.0 CG B:HIS35 4.3 34.3 1.0 NE2 B:HIS70 4.3 34.9 1.0 CB B:ASP175 4.3 36.3 1.0 ND1 B:HIS35 4.4 33.3 1.0 CB B:ASP37 4.4 38.2 1.0 CD2 B:HIS70 4.4 33.1 1.0 O2 B:GOL232 4.5 62.7 1.0 C2 B:GOL232 4.5 61.4 1.0 CA B:ASP37 4.9 36.7 1.0 OG B:SER10 5.0 40.0 0.5

Reference: