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Chlorine in PDB 6h57: Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis

Enzymatic activity of Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis

All present enzymatic activity of Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis:
3.6.4.13;

Protein crystallography data

The structure of Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis, PDB code: 6h57 was solved by A.Roychowdhury, M.Graille, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.83 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 57.314, 115.800, 157.479, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 24.5

Other elements in 6h57:

The structure of Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis (pdb code 6h57). 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 S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis, PDB code: 6h57:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 6h57

Go back to Chlorine Binding Sites List in 6h57
Chlorine binding site 1 out of 4 in the Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis


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 S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1316

b:66.8
occ:1.00
 O A:HOH1460 3.6 28.3 1.0
N A:THR1169 3.7 29.0 1.0
OG1 A:THR1169 3.7 33.1 1.0
OD2 A:ASP1002 4.0 36.0 1.0
CB A:HIS1136 4.0 33.1 1.0
CA A:ASN1168 4.1 27.7 1.0
OD1 A:ASN1168 4.1 57.6 1.0
CB A:SER1139 4.2 35.4 1.0
O A:MET1167 4.2 31.9 1.0
CG A:ASP1002 4.3 36.4 1.0
C A:ASN1168 4.3 32.1 1.0
O A:THR1169 4.3 29.9 1.0
OG1 A:THR1138 4.4 40.7 1.0
CA A:SER1139 4.5 33.4 1.0
CA A:THR1169 4.6 28.0 1.0
N A:SER1139 4.6 34.0 1.0
CG A:HIS1136 4.7 37.0 1.0
CB A:ASP1002 4.7 30.1 1.0
CG A:ASN1168 4.7 61.6 1.0
OD1 A:ASP1002 4.8 34.7 1.0
CB A:THR1169 4.8 32.2 1.0
OG A:SER1139 4.8 37.1 1.0
CB A:ASN1168 4.9 28.0 1.0
C A:THR1169 5.0 29.8 1.0
O A:HOH1597 5.0 34.6 1.0

Chlorine binding site 2 out of 4 in 6h57

Go back to Chlorine Binding Sites List in 6h57
Chlorine binding site 2 out of 4 in the Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis


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 S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1317

b:73.9
occ:1.00
 N A:TYR475 3.4 32.0 1.0
CD2 A:TYR475 3.6 37.8 1.0
CA A:GLY474 3.7 32.8 1.0
CE2 A:TYR475 3.7 39.2 1.0
O A:TYR475 3.8 39.1 1.0
C A:GLY474 4.1 34.7 1.0
CG A:TYR475 4.2 36.7 1.0
CZ A:TYR475 4.2 46.8 1.0
CA A:TYR475 4.4 32.4 1.0
C A:TYR475 4.6 38.0 1.0
CD1 A:TYR475 4.6 38.6 1.0
CE1 A:TYR475 4.7 39.2 1.0
CB A:TYR475 4.8 34.0 1.0
OH A:TYR475 4.9 48.1 1.0
CD A:LYS484 4.9 66.9 1.0
O A:VAL473 5.0 38.4 1.0
N A:GLY474 5.0 34.5 1.0

Chlorine binding site 3 out of 4 in 6h57

Go back to Chlorine Binding Sites List in 6h57
Chlorine binding site 3 out of 4 in the Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis


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 S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1318

b:80.3
occ:1.00
 N A:ASP872 3.4 38.4 1.0
CA A:PRO871 3.6 36.6 1.0
CB A:PRO871 3.7 38.0 1.0
C A:PRO871 4.0 40.0 1.0
CB A:ASP872 4.2 41.9 1.0
O A:HOH1441 4.3 48.2 1.0
CD1 A:LEU843 4.3 37.5 1.0
CG2 A:VAL847 4.4 28.7 1.0
CA A:ASP872 4.4 38.7 1.0
CB A:ALA875 4.5 33.0 1.0
CG A:LEU843 4.7 38.2 1.0
N A:PRO871 5.0 36.5 1.0

Chlorine binding site 4 out of 4 in 6h57

Go back to Chlorine Binding Sites List in 6h57
Chlorine binding site 4 out of 4 in the Crystal Structure of S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis


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 S. Cerevisiae Deah-Box Rna Helicase DHR1, Essential For Small Ribosomal Subunit Biogenesis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1319

b:82.3
occ:1.00
 O A:THR1169 3.4 29.9 1.0
OD1 A:ASN1168 3.6 57.6 1.0
CD1 A:LEU1006 3.9 41.4 1.0
CD2 A:LEU934 4.1 28.6 1.0
CD2 A:LEU1170 4.2 27.3 1.0
CB A:ASP1002 4.3 30.1 1.0
C A:ASP1002 4.3 30.5 1.0
N A:VAL1003 4.4 26.6 1.0
C A:THR1169 4.4 29.8 1.0
O A:ASP1002 4.4 29.2 1.0
CA A:VAL1003 4.5 26.5 1.0
CA A:LEU1170 4.7 24.6 1.0
CG A:ASN1168 4.8 61.6 1.0
CG A:LEU1006 4.8 42.3 1.0
CB A:VAL1003 4.9 29.0 1.0
N A:LEU1170 4.9 25.9 1.0
CA A:ASP1002 5.0 29.2 1.0

Reference:

A.Roychowdhury, C.Joret, G.Bourgeois, V.Heurgue-Hamard, D.L.J.Lafontaine, M.Graille. The Deah-Box Rna Helicase DHR1 Contains A Remarkable Carboxyl Terminal Domain Essential For Small Ribosomal Subunit Biogenesis. Nucleic Acids Res. V. 47 7548 2019.
ISSN: ESSN 1362-4962
PubMed: 31188444
DOI: 10.1093/NAR/GKZ529
Page generated: Sun Jul 28 00:37:58 2024

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