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Chlorine in PDB 4x4w: Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme

Enzymatic activity of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme

All present enzymatic activity of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme:
2.7.7.72;

Protein crystallography data

The structure of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme, PDB code: 4x4w was solved by C.-D.Kuhn, L.Joshua-Tor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.08 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 40.970, 142.360, 100.590, 90.00, 94.64, 90.00
R / Rfree (%) 15.4 / 19.6

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme (pdb code 4x4w). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme, PDB code: 4x4w:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Chlorine binding site 1 out of 8 in 4x4w

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Chlorine binding site 1 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


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 the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl504

b:71.9
occ:1.00
 H A:LYS291 2.6 35.4 1.0
HA A:ALA290 3.3 34.6 1.0
HB2 A:LYS291 3.4 45.6 1.0
N A:LYS291 3.4 29.5 1.0
HB1 A:ALA290 3.4 34.6 1.0
O A:HOH905 3.5 34.2 1.0
HB3 A:LYS291 3.7 45.6 1.0
CB A:LYS291 3.9 38.0 1.0
CA A:ALA290 3.9 28.9 1.0
CB A:ALA290 4.1 28.9 1.0
C A:ALA290 4.2 28.4 1.0
HB2 A:ALA290 4.3 34.6 1.0
CA A:LYS291 4.3 32.6 1.0
HE2 A:LYS291 4.4 79.8 1.0
H A:GLU292 4.6 41.5 1.0
HA A:LYS291 4.9 39.2 1.0
HB3 A:ALA290 4.9 34.6 1.0

Chlorine binding site 2 out of 8 in 4x4w

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Chlorine binding site 2 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


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 the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl505

b:48.5
occ:1.00
 O A:HOH950 2.0 55.0 1.0
H A:SER208 2.5 25.2 1.0
O A:HOH955 2.8 54.2 1.0
HD3 A:ARG211 3.1 40.6 1.0
HA A:ILE207 3.2 24.1 1.0
HH11 A:ARG211 3.2 38.8 1.0
N A:SER208 3.3 21.0 1.0
HB3 A:SER208 3.4 35.1 1.0
O A:HOH966 3.5 50.0 1.0
HG23 A:ILE207 3.5 30.1 1.0
HD2 A:ARG211 3.6 40.6 1.0
CD A:ARG211 3.8 33.9 1.0
OG A:SER208 3.9 34.8 1.0
HD13 A:ILE207 3.9 23.5 1.0
CB A:SER208 4.0 29.2 1.0
CA A:ILE207 4.0 20.1 1.0
NH1 A:ARG211 4.0 32.3 1.0
HD12 A:ILE207 4.1 23.5 1.0
HG A:SER208 4.1 41.8 1.0
O A:HOH923 4.1 49.8 1.0
C A:ILE207 4.2 22.0 1.0
CA A:SER208 4.2 22.2 1.0
CG2 A:ILE207 4.3 25.1 1.0
HG22 A:ILE207 4.4 30.1 1.0
O A:GLY206 4.4 21.6 1.0
CD1 A:ILE207 4.5 19.6 1.0
HH12 A:ARG211 4.5 38.8 1.0
O A:HOH944 4.6 34.2 1.0
CB A:ILE207 4.7 20.9 1.0
HB2 A:ARG211 4.7 25.0 1.0
HG3 A:ARG211 4.7 35.7 1.0
NE A:ARG211 4.7 33.9 1.0
HA A:SER208 4.7 26.6 1.0
CZ A:ARG211 4.8 33.2 1.0
CG A:ARG211 4.8 29.8 1.0
HB2 A:SER208 4.9 35.1 1.0
O A:HOH620 4.9 38.3 1.0

Chlorine binding site 3 out of 8 in 4x4w

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Chlorine binding site 3 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


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 the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl508

b:57.8
occ:1.00
 HH12 A:ARG386 2.9 47.8 1.0
H A:PHE360 3.0 43.6 1.0
HH22 A:ARG386 3.0 57.4 1.0
HB3 A:PHE360 3.4 41.6 1.0
NH1 A:ARG386 3.7 39.8 1.0
HB2 A:PHE360 3.8 41.6 1.0
NH2 A:ARG386 3.8 47.9 1.0
N A:PHE360 3.9 36.3 1.0
CB A:PHE360 4.0 34.7 1.0
HA A:PRO359 4.1 49.0 1.0
CZ A:ARG386 4.2 45.2 1.0
HB3 A:PRO359 4.3 55.8 1.0
HH11 A:ARG386 4.4 47.8 1.0
O A:HOH953 4.4 41.1 1.0
HH21 A:ARG386 4.5 57.4 1.0
CA A:PHE360 4.6 34.2 1.0
CA A:PRO359 4.7 40.8 1.0
C A:PRO359 4.8 36.6 1.0
CB A:PRO359 4.9 46.5 1.0

Chlorine binding site 4 out of 8 in 4x4w

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Chlorine binding site 4 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


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 the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl509

b:70.1
occ:1.00
 HE A:ARG88 2.7 54.5 1.0
HH21 A:ARG88 2.7 60.0 1.0
HG3 A:GLU91 3.4 80.8 1.0
NE A:ARG88 3.5 45.5 1.0
NH2 A:ARG88 3.5 50.0 1.0
HA A:GLU91 3.9 49.8 1.0
CZ A:ARG88 3.9 44.3 1.0
HH12 A:ARG73 4.0 76.3 1.0
HH11 A:ARG73 4.1 76.3 1.0
HH22 A:ARG88 4.2 60.0 1.0
CG A:GLU91 4.3 67.4 1.0
NH1 A:ARG73 4.4 63.5 1.0
HD3 A:ARG88 4.5 51.7 1.0
HG2 A:GLU91 4.5 80.8 1.0
CD A:ARG88 4.6 43.1 1.0
HB3 A:GLU91 4.7 62.9 1.0
CA A:GLU91 4.7 41.5 1.0
CB A:GLU91 4.8 52.5 1.0
H A:GLU91 4.9 44.6 1.0
HG2 A:ARG88 5.0 46.3 1.0

Chlorine binding site 5 out of 8 in 4x4w

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Chlorine binding site 5 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl510

b:61.1
occ:1.00
 O A:HOH1004 2.3 54.3 1.0
H A:GLU250 3.1 27.3 1.0
H A:LEU249 3.2 36.9 1.0
HZ1 B:LYS154 3.3 56.9 1.0
HA A:SER248 3.5 47.6 1.0
O B:HOH839 3.5 37.6 1.0
N A:LEU249 3.8 30.7 1.0
HB2 A:GLU250 3.9 46.1 1.0
HB2 A:LEU249 3.9 33.7 1.0
N A:GLU250 3.9 22.8 1.0
NZ B:LYS154 4.2 47.4 1.0
HB3 A:GLU250 4.2 46.1 1.0
OG A:SER248 4.3 36.8 1.0
CA A:SER248 4.3 39.7 1.0
O A:ALA247 4.4 31.5 1.0
CB A:GLU250 4.4 38.4 1.0
C A:SER248 4.5 34.4 1.0
HE2 B:LYS154 4.5 47.9 1.0
HZ3 B:LYS154 4.5 56.9 1.0
CA A:LEU249 4.5 27.6 1.0
OD2 B:ASP188 4.6 37.1 1.0
HZ2 B:LYS154 4.7 56.9 1.0
HE3 B:LYS154 4.7 47.9 1.0
CB A:LEU249 4.7 28.1 1.0
C A:LEU249 4.7 23.7 1.0
CE B:LYS154 4.7 39.9 1.0
CA A:GLU250 4.8 27.9 1.0
HG A:SER248 4.9 44.1 1.0
CB A:SER248 4.9 39.9 1.0

Chlorine binding site 6 out of 8 in 4x4w

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Chlorine binding site 6 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl505

b:61.3
occ:1.00
 O B:HOH977 2.2 59.7 1.0
H B:GLU250 3.0 27.9 1.0
H B:LEU249 3.3 35.6 1.0
HZ1 A:LYS154 3.4 51.8 1.0
HA B:SER248 3.5 42.4 1.0
HB3 B:GLU250 3.5 37.8 1.0
O A:HOH793 3.5 32.9 1.0
HB2 B:GLU250 3.6 37.8 1.0
N B:GLU250 3.8 23.2 1.0
N B:LEU249 3.9 29.6 1.0
CB B:GLU250 4.0 31.5 1.0
OG B:SER248 4.0 41.0 1.0
HB2 B:LEU249 4.2 28.5 1.0
CA B:SER248 4.3 35.3 1.0
NZ A:LYS154 4.3 43.2 1.0
C B:SER248 4.5 31.6 1.0
CA B:GLU250 4.5 24.3 1.0
HZ3 A:LYS154 4.6 51.8 1.0
O A:HOH889 4.6 46.4 1.0
HG B:SER248 4.6 49.2 1.0
CA B:LEU249 4.6 23.9 1.0
C B:LEU249 4.6 22.2 1.0
OE2 B:GLU250 4.7 64.7 1.0
O B:ALA247 4.7 31.1 1.0
CB B:SER248 4.8 41.5 1.0
HZ2 A:LYS154 4.8 51.8 1.0
HE2 A:LYS154 4.8 48.6 1.0
OD2 A:ASP188 4.8 40.4 1.0
CB B:LEU249 4.9 23.7 1.0
HE3 A:LYS154 5.0 48.6 1.0

Chlorine binding site 7 out of 8 in 4x4w

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Chlorine binding site 7 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl508

b:55.8
occ:1.00
 HH22 B:ARG386 2.7 65.8 1.0
H B:PHE360 2.9 47.8 1.0
HH12 B:ARG386 3.3 53.5 1.0
HB3 B:PHE360 3.5 43.7 1.0
NH2 B:ARG386 3.6 54.9 1.0
N B:PHE360 3.7 39.8 1.0
HB2 B:PHE360 3.7 43.7 1.0
HA B:PRO359 3.9 55.6 1.0
CB B:PHE360 4.0 36.4 1.0
NH1 B:ARG386 4.0 44.6 1.0
HH21 B:ARG386 4.2 65.8 1.0
CZ B:ARG386 4.3 47.6 1.0
HB3 B:PRO359 4.3 57.7 1.0
CA B:PHE360 4.5 37.0 1.0
CA B:PRO359 4.6 46.3 1.0
C B:PRO359 4.6 42.4 1.0
HH11 B:ARG386 4.8 53.5 1.0
CB B:PRO359 4.9 48.1 1.0

Chlorine binding site 8 out of 8 in 4x4w

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Chlorine binding site 8 out of 8 in the Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of the Full-Length Human Mitochondrial Cca-Adding Enzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl509

b:47.4
occ:1.00
 O B:HOH982 2.0 40.9 1.0
H B:SER208 2.5 27.0 1.0
O B:HOH905 3.0 56.9 1.0
HD3 B:ARG211 3.1 44.6 1.0
HA B:ILE207 3.1 22.5 1.0
HH11 B:ARG211 3.2 38.9 1.0
HB3 B:SER208 3.2 33.6 1.0
N B:SER208 3.3 22.5 1.0
HG23 B:ILE207 3.4 27.0 1.0
O B:HOH616 3.5 47.4 1.0
HD2 B:ARG211 3.7 44.6 1.0
CD B:ARG211 3.8 37.2 1.0
HD13 B:ILE207 3.9 23.2 1.0
CB B:SER208 3.9 28.0 1.0
CA B:ILE207 4.0 18.7 1.0
OG B:SER208 4.0 31.4 1.0
NH1 B:ARG211 4.1 32.4 1.0
HD12 B:ILE207 4.1 23.2 1.0
HG B:SER208 4.1 37.6 1.0
O B:HOH984 4.1 48.4 1.0
C B:ILE207 4.1 20.3 1.0
CA B:SER208 4.2 23.0 1.0
CG2 B:ILE207 4.2 22.5 1.0
O B:GLY206 4.4 22.3 1.0
HG22 B:ILE207 4.4 27.0 1.0
CD1 B:ILE207 4.5 19.3 1.0
HH12 B:ARG211 4.5 38.9 1.0
CB B:ILE207 4.6 20.5 1.0
HB2 B:ARG211 4.6 28.7 1.0
HG3 B:ARG211 4.7 42.5 1.0
HB2 B:SER208 4.8 33.6 1.0
O B:HOH646 4.8 43.1 1.0
HA B:SER208 4.8 27.6 1.0
NE B:ARG211 4.8 37.1 1.0
CG B:ARG211 4.8 35.5 1.0
CZ B:ARG211 4.9 34.2 1.0

Reference:

C.-D.Kuhn, J.E.Wilusz, Y.Zheng, P.A.Beal, L.Joshua-Tor. On-Enzyme Refolding Permits Small Rna and Trna Surveillance By the Cca-Adding Enzyme To Be Published.
Page generated: Fri Jul 26 03:13:38 2024

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