Atomistry » Chlorine » PDB 5v4g-5vc3 » 5v7g
Atomistry »
  Chlorine »
    PDB 5v4g-5vc3 »
      5v7g »

Chlorine in PDB 5v7g: Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate

Enzymatic activity of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate

All present enzymatic activity of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate:
1.1.1.81;

Protein crystallography data

The structure of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate, PDB code: 5v7g was solved by I.G.Shabalin, D.V.Mason, K.B.Handing, J.Kutner, D.Matelska, D.R.Cooper, J.Bonanno, S.C.Almo, W.Minor, New York Structural Genomics Researchconsortium (Nysgrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.07 / 1.75
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 178.209, 178.209, 133.799, 90.00, 90.00, 120.00
R / Rfree (%) 15 / 18

Other elements in 5v7g:

The structure of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate also contains other interesting chemical elements:

Sodium (Na) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate (pdb code 5v7g). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate, PDB code: 5v7g:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 5v7g

Go back to Chlorine Binding Sites List in 5v7g
Chlorine binding site 1 out of 4 in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl404

b:36.3
occ:1.00
 O A:HOH777 2.9 39.3 1.0
NH1 A:ARG286 3.1 24.8 1.0
O A:HOH658 3.1 37.5 1.0
ND2 A:ASN13 3.1 27.6 1.0
O A:HOH724 3.6 34.2 1.0
CB A:ASN13 3.7 22.7 1.0
CD A:ARG286 3.7 31.8 1.0
CG A:ASN13 3.9 22.1 1.0
CD1 B:LEU135 3.9 33.0 1.0
CG A:ARG286 3.9 22.0 1.0
CB A:ARG286 4.0 23.4 1.0
CZ A:PHE70 4.1 31.1 1.0
O A:HOH604 4.1 36.1 1.0
CZ A:ARG286 4.2 24.9 1.0
CD2 B:LEU135 4.2 24.0 1.0
CA A:ASN13 4.2 24.6 1.0
CE1 A:PHE70 4.3 31.3 1.0
NE A:ARG286 4.4 26.5 1.0
CG B:LEU135 4.5 23.9 1.0
N A:ASN13 4.5 24.9 1.0
O A:HOH824 4.7 43.9 1.0
O A:HOH722 4.8 48.9 1.0

Chlorine binding site 2 out of 4 in 5v7g

Go back to Chlorine Binding Sites List in 5v7g
Chlorine binding site 2 out of 4 in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl404

b:38.5
occ:1.00
 O B:HOH766 2.9 41.5 1.0
O B:HOH713 2.9 32.7 1.0
ND2 B:ASN13 3.1 28.9 1.0
NH1 B:ARG286 3.2 26.4 1.0
CB B:ASN13 3.7 29.1 1.0
CD B:ARG286 3.7 25.2 1.0
O B:HOH750 3.8 41.2 1.0
CG B:ASN13 3.9 25.1 1.0
CZ B:PHE70 4.0 24.6 1.0
CG B:ARG286 4.0 22.4 1.0
CB B:ARG286 4.0 25.8 1.0
CD1 A:LEU135 4.1 32.4 1.0
CE1 B:PHE70 4.2 30.4 1.0
O B:HOH738 4.2 52.6 1.0
CZ B:ARG286 4.2 21.2 1.0
CA B:ASN13 4.2 23.9 1.0
CD2 A:LEU135 4.4 25.3 1.0
NE B:ARG286 4.4 30.4 1.0
N B:ASN13 4.5 26.4 1.0
O B:HOH715 4.6 57.3 1.0
CG A:LEU135 4.7 28.1 1.0
CE2 B:PHE70 5.0 32.1 1.0

Chlorine binding site 3 out of 4 in 5v7g

Go back to Chlorine Binding Sites List in 5v7g
Chlorine binding site 3 out of 4 in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl403

b:27.1
occ:1.00
 NH1 C:ARG286 2.9 18.8 1.0
O C:HOH766 3.1 31.9 1.0
O C:HOH814 3.2 31.9 1.0
ND2 C:ASN13 3.3 21.2 1.0
O C:HOH783 3.5 23.4 1.0
CD C:ARG286 3.7 14.2 1.0
CB C:ASN13 3.8 22.8 1.0
CG C:ARG286 3.9 12.0 1.0
CZ C:ARG286 4.0 18.8 1.0
CG C:ASN13 4.0 22.4 1.0
CD1 D:LEU135 4.0 17.9 1.0
CB C:ARG286 4.0 16.3 1.0
CZ C:PHE70 4.1 24.5 1.0
CD2 D:LEU135 4.2 16.7 1.0
CE1 C:PHE70 4.2 17.7 1.0
NE C:ARG286 4.3 15.7 1.0
CA C:ASN13 4.3 23.9 1.0
CG D:LEU135 4.5 15.0 1.0
N C:ASN13 4.6 25.2 1.0
O C:HOH833 4.7 33.1 1.0

Chlorine binding site 4 out of 4 in 5v7g

Go back to Chlorine Binding Sites List in 5v7g
Chlorine binding site 4 out of 4 in the Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase SMC04462 (Smghrb) From Sinorhizobium Meliloti in Complex with Nadph and Oxalate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl404

b:31.4
occ:1.00
 O D:HOH824 2.9 39.1 1.0
NH1 D:ARG286 3.1 24.4 1.0
ND2 D:ASN13 3.1 20.8 1.0
O D:HOH682 3.1 35.3 1.0
CD D:ARG286 3.6 22.2 1.0
CB D:ASN13 3.7 25.6 1.0
CZ D:PHE70 3.8 16.4 1.0
CG D:ARG286 3.9 15.8 1.0
CG D:ASN13 3.9 25.1 1.0
CB D:ARG286 3.9 16.6 1.0
O D:HOH741 4.0 34.2 1.0
CE1 D:PHE70 4.1 20.9 1.0
CZ D:ARG286 4.1 21.1 1.0
CD1 C:LEU135 4.1 23.5 1.0
CA D:ASN13 4.3 26.0 1.0
NE D:ARG286 4.3 15.1 1.0
CD2 C:LEU135 4.4 18.8 1.0
O D:HOH548 4.4 42.8 1.0
N D:ASN13 4.6 26.2 1.0
O D:HOH735 4.7 40.3 1.0
O D:HOH784 4.7 53.9 1.0
CG C:LEU135 4.8 18.2 1.0
CE2 D:PHE70 4.8 21.9 1.0

Reference:

J.Kutner, I.G.Shabalin, D.Matelska, K.B.Handing, O.Gasiorowska, P.Sroka, M.W.Gorna, K.Ginalski, K.Wozniak, W.Minor. Structural, Biochemical, and Evolutionary Characterizations of Glyoxylate/Hydroxypyruvate Reductases Show Their Division Into Two Distinct Subfamilies. Biochemistry V. 57 963 2018.
ISSN: ISSN 1520-4995
PubMed: 29309127
DOI: 10.1021/ACS.BIOCHEM.7B01137
Page generated: Fri Jul 26 18:39:42 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy