Sodium in PDB 3olj: Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2)

All present enzymatic activity of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2):
1.17.4.1;

The structure of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2), PDB code: 3olj was solved by X.H.Chen, Z.J.Xu, B.E.Chen, H.J.Jiang, C.G.Yang, W.L.Zhu, J.M.Shao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.90 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	109.908, 109.725, 174.056, 90.00, 90.00, 90.00
R / Rfree (%)	19.9 / 23.7

The binding sites of Sodium atom in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2) (pdb code 3olj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2), PDB code: 3olj:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1 b:43.4 occ:1.00 O A:VAL81 2.2 42.1 1.0 O A:HOH538 2.4 35.8 1.0 O A:ARG78 2.4 42.7 1.0 O A:HOH471 2.4 39.7 1.0 OG1 A:THR156 2.4 38.3 1.0 O A:HOH472 2.6 43.4 1.0 CB A:THR156 3.4 36.6 1.0 C A:VAL81 3.4 42.0 1.0 C A:ARG78 3.5 43.7 1.0 CG2 A:THR156 3.9 36.3 1.0 CB A:ARG78 3.9 43.9 1.0 O A:HOH539 4.1 47.0 1.0 O A:HOH369 4.1 33.3 1.0 N A:VAL81 4.1 42.3 1.0 CA A:VAL81 4.2 41.7 1.0 O A:ILE82 4.2 41.2 1.0 CA A:ARG79 4.3 44.0 1.0 N A:ARG79 4.3 43.3 1.0 C A:ARG79 4.3 43.7 1.0 CA A:ARG78 4.3 43.8 1.0 O A:ARG79 4.3 43.6 1.0 CB A:VAL81 4.4 41.9 1.0 N A:ILE82 4.4 41.9 1.0 C A:ILE82 4.4 41.1 1.0 ND2 A:ASN76 4.5 42.7 1.0 CA A:ILE82 4.5 42.0 1.0 CA A:THR156 4.7 36.3 1.0 N A:THR156 4.9 36.4 1.0 N A:PHE80 4.9 43.4 1.0 CG1 A:VAL81 5.0 41.1 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1 b:42.4 occ:1.00 O B:VAL81 2.2 41.8 1.0 O B:HOH505 2.4 37.3 1.0 OG1 B:THR156 2.4 38.7 1.0 O B:ARG78 2.4 43.2 1.0 O B:HOH594 2.4 45.0 1.0 O B:HOH506 2.5 43.3 1.0 C B:VAL81 3.4 41.7 1.0 CB B:THR156 3.4 36.6 1.0 C B:ARG78 3.5 44.1 1.0 CG2 B:THR156 3.9 37.1 1.0 CB B:ARG78 3.9 44.4 1.0 O B:HOH587 4.1 44.9 1.0 N B:VAL81 4.1 42.0 1.0 CA B:VAL81 4.1 41.7 1.0 CB B:VAL81 4.3 41.7 1.0 O B:ILE82 4.3 41.8 1.0 CA B:ARG79 4.3 44.4 1.0 N B:ARG79 4.3 43.8 1.0 CA B:ARG78 4.3 44.4 1.0 C B:ARG79 4.3 44.1 1.0 O B:ARG79 4.3 43.9 1.0 N B:ILE82 4.4 42.0 1.0 C B:ILE82 4.4 41.5 1.0 CA B:ILE82 4.5 42.1 1.0 ND2 B:ASN76 4.6 43.3 1.0 CA B:THR156 4.7 36.1 1.0 CG1 B:VAL81 4.9 41.6 1.0 N B:THR156 4.9 36.0 1.0 N B:PHE80 4.9 43.6 1.0 O B:PHE83 5.0 39.1 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1 b:40.5 occ:1.00 O C:VAL81 2.3 40.6 1.0 O C:HOH499 2.3 36.6 1.0 O C:HOH498 2.4 37.1 1.0 O C:ARG78 2.5 41.2 1.0 O C:HOH433 2.5 36.5 1.0 OG1 C:THR156 2.6 39.3 1.0 CB C:THR156 3.4 36.5 1.0 C C:VAL81 3.5 40.6 1.0 C C:ARG78 3.6 42.3 1.0 CG2 C:THR156 3.9 35.7 1.0 CB C:ARG78 4.0 43.0 1.0 O C:HOH500 4.1 35.8 1.0 O C:ILE82 4.2 40.8 1.0 CA C:VAL81 4.3 40.6 1.0 N C:VAL81 4.3 41.0 1.0 C C:ILE82 4.4 40.7 1.0 CB C:VAL81 4.4 40.7 1.0 N C:ILE82 4.4 40.9 1.0 O C:ARG79 4.4 43.2 1.0 CA C:ARG78 4.4 43.0 1.0 N C:ARG79 4.5 41.9 1.0 CA C:ARG79 4.5 42.9 1.0 C C:ARG79 4.5 42.6 1.0 CA C:ILE82 4.5 41.3 1.0 ND2 C:ASN76 4.7 41.2 1.0 O C:PHE83 4.7 39.1 1.0 CA C:THR156 4.8 36.0 1.0 N C:PHE83 5.0 40.0 1.0 N C:THR156 5.0 35.6 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Human Ribonucleotide Reductase Subunit M2 (HRRM2) within 5.0Å range: probe atom residue distance (Å) B Occ D:Na1 b:39.5 occ:1.00 O D:VAL81 2.2 41.4 1.0 O D:HOH513 2.3 40.5 1.0 O D:HOH514 2.3 36.3 1.0 O D:ARG78 2.5 40.9 1.0 OG1 D:THR156 2.5 37.9 1.0 O D:HOH395 2.6 35.7 1.0 C D:VAL81 3.4 41.6 1.0 CB D:THR156 3.4 35.6 1.0 C D:ARG78 3.6 42.3 1.0 CG2 D:THR156 3.9 35.6 1.0 CB D:ARG78 4.0 43.1 1.0 O D:HOH427 4.0 49.5 1.0 O D:HOH515 4.1 34.8 1.0 CA D:VAL81 4.2 41.4 1.0 O D:ILE82 4.2 41.4 1.0 N D:VAL81 4.2 41.5 1.0 CB D:VAL81 4.3 41.5 1.0 O D:ARG79 4.3 43.2 1.0 N D:ILE82 4.4 42.0 1.0 C D:ILE82 4.4 41.9 1.0 CA D:ARG79 4.4 42.8 1.0 N D:ARG79 4.4 41.8 1.0 CA D:ARG78 4.4 43.0 1.0 C D:ARG79 4.4 42.7 1.0 CA D:ILE82 4.5 42.4 1.0 O D:HOH653 4.6 54.2 1.0 ND2 D:ASN76 4.7 42.2 1.0 CA D:THR156 4.8 35.4 1.0 O D:PHE83 4.8 39.8 1.0 CG1 D:VAL81 4.9 41.0 1.0 N D:THR156 4.9 35.2 1.0

X.H.Chen, Z.J.Xu, B.E.Chen, H.J.Jiang, C.G.Yang, W.L.Zhu, J.M.Shao. HRRM2 To Be Published.