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Chlorine in PDB 5y7d: Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1

Protein crystallography data

The structure of Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1, PDB code: 5y7d was solved by S.H.Park, M.J.Kim, J.S.Park, H.J.Kim, B.W.Han, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.93 / 1.71
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 49.765, 49.765, 175.709, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 24.7

Other elements in 5y7d:

The structure of Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1 also contains other interesting chemical elements:

Sodium (Na) 5 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1 (pdb code 5y7d). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 9 binding sites of Chlorine where determined in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1, PDB code: 5y7d:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Chlorine binding site 1 out of 9 in 5y7d

Go back to Chlorine Binding Sites List in 5y7d
Chlorine binding site 1 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl208

b:46.5
occ:1.00
 O A:HOH412 3.0 38.6 1.0
O A:HOH315 3.4 47.2 1.0
NH1 A:ARG136 3.4 36.9 1.0
NH2 A:ARG136 3.6 42.2 1.0
CB A:PHE143 3.9 30.8 1.0
CA A:GLY139 3.9 35.2 1.0
CZ A:ARG136 4.0 33.8 1.0
CD2 A:PHE143 4.1 24.6 1.0
CG A:PHE143 4.2 27.5 1.0
O A:HOH439 4.6 34.7 1.0
O A:HOH481 4.6 48.5 1.0
N A:GLY139 4.6 37.6 1.0
O A:GLN144 4.9 30.9 1.0
CE2 A:PHE143 5.0 28.6 1.0

Chlorine binding site 2 out of 9 in 5y7d

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Chlorine binding site 2 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl209

b:25.2
occ:1.00
 O A:HOH396 3.1 23.5 1.0
O A:HOH392 3.4 43.0 1.0
NE1 A:TRP48 3.6 25.6 1.0
CA A:GLY50 3.7 27.0 1.0
CD1 A:LEU113 3.7 19.7 1.0
N A:ASP51 4.0 27.5 1.0
N A:ALA52 4.0 26.7 1.0
CZ2 A:TRP48 4.1 30.2 1.0
CB A:ALA52 4.1 29.0 1.0
C A:GLY50 4.1 26.9 1.0
CE2 A:TRP48 4.2 26.8 1.0
N A:GLY50 4.7 27.8 1.0
CD1 A:TRP48 4.7 21.7 1.0
CA A:ALA52 4.7 24.8 1.0
O A:GLY50 4.9 29.4 1.0

Chlorine binding site 3 out of 9 in 5y7d

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Chlorine binding site 3 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl210

b:29.6
occ:1.00
 O A:HOH333 3.0 29.3 1.0
ND2 A:ASN36 3.3 26.2 1.0
NH2 A:ARG35 3.3 35.4 1.0
NE A:ARG35 3.8 24.9 1.0
OD1 A:ASN36 3.8 29.1 1.0
CG A:ASN36 4.0 24.6 1.0
CZ A:ARG35 4.0 28.7 1.0
O A:HOH372 4.1 33.2 1.0

Chlorine binding site 4 out of 9 in 5y7d

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Chlorine binding site 4 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl211

b:40.4
occ:1.00
 NE A:ARG136 3.2 34.8 1.0
N A:ASP146 3.3 29.9 1.0
CA A:VAL145 3.5 27.1 1.0
CB A:VAL145 3.7 31.5 1.0
C A:VAL145 3.9 27.9 1.0
NH1 A:ARG136 4.0 36.9 1.0
CD A:ARG136 4.0 38.8 1.0
CZ A:ARG136 4.0 33.8 1.0
O A:HOH304 4.1 45.5 1.0
CG1 A:VAL145 4.1 29.6 1.0
O A:ASP146 4.2 39.3 1.0
O A:GLN144 4.3 30.9 1.0
CA A:ASP146 4.3 29.2 1.0
CB A:ASP146 4.4 39.5 1.0
CD1 A:ILE83 4.5 27.9 1.0
N A:VAL145 4.7 27.8 1.0
C A:ASP146 4.7 27.5 1.0
O A:HOH473 4.7 46.7 1.0
CG A:ARG136 4.9 33.2 1.0
C A:GLN144 5.0 28.9 1.0

Chlorine binding site 5 out of 9 in 5y7d

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Chlorine binding site 5 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl212

b:40.9
occ:1.00
 O A:HOH459 3.0 37.3 1.0
O1 A:GOL201 3.0 30.2 1.0
CG A:ARG9 3.6 29.2 1.0
C1 A:GOL201 3.7 31.9 1.0
CZ3 A:TRP48 3.8 28.9 1.0
O A:HOH460 3.8 48.2 1.0
CD A:ARG9 3.9 29.3 1.0
CE3 A:TRP48 3.9 27.9 1.0
C2 A:GOL201 4.1 39.7 1.0
CB A:ARG9 4.1 23.1 1.0
NE A:ARG9 4.4 51.4 1.0
N A:ARG9 4.5 24.3 1.0
O A:HOH342 4.6 42.7 1.0
O A:HOH470 4.8 45.4 1.0
O2 A:GOL201 4.9 35.1 1.0
O A:HOH417 4.9 42.2 1.0
CA A:ARG9 4.9 25.3 1.0

Chlorine binding site 6 out of 9 in 5y7d

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Chlorine binding site 6 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl213

b:51.1
occ:1.00
 N A:ARG46 3.3 30.7 1.0
O A:HOH417 3.3 42.2 1.0
N A:HIS45 3.3 31.5 1.0
NH2 A:ARG9 3.5 47.3 1.0
O A:HOH451 3.6 32.8 1.0
CB A:ARG46 3.7 38.2 1.0
CB A:ALA44 3.7 27.5 1.0
CG A:ARG46 3.8 48.0 1.0
NE A:ARG9 3.9 51.4 1.0
CA A:HIS45 4.0 27.5 1.0
CZ A:ARG9 4.0 43.9 1.0
CB A:HIS45 4.0 33.7 1.0
C A:HIS45 4.1 27.7 1.0
CA A:ARG46 4.1 33.3 1.0
C A:ALA44 4.3 24.1 1.0
CA A:ALA44 4.5 25.6 1.0
O A:HOH326 4.7 45.8 1.0
O A:ARG46 4.8 28.5 1.0
C A:ARG46 4.9 29.1 1.0
CD A:ARG9 5.0 29.3 1.0

Chlorine binding site 7 out of 9 in 5y7d

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Chlorine binding site 7 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl214

b:45.7
occ:1.00
 O A:HOH480 2.4 61.4 1.0
C A:PRO29 3.7 27.0 1.0
CD2 A:LEU30 3.7 40.3 1.0
CG A:PRO29 3.7 25.7 1.0
O A:PRO29 3.7 27.2 1.0
CD A:PRO29 3.8 31.3 1.0
N A:LEU30 3.8 26.7 1.0
CA A:LEU30 4.0 27.5 1.0
N A:PRO29 4.1 28.7 1.0
CA A:PRO29 4.3 24.6 1.0
CB A:ARG28 4.5 27.6 1.0
CB A:PRO29 4.5 27.2 1.0
CG A:LEU30 4.6 38.4 1.0
O3 A:GOL202 4.6 35.0 1.0
C3 A:GOL202 4.7 41.6 1.0
C A:ARG28 4.7 33.6 1.0
C2 A:GOL202 4.8 47.8 1.0
CB A:LEU30 4.8 27.5 1.0

Chlorine binding site 8 out of 9 in 5y7d

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Chlorine binding site 8 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


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 Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl215

b:37.3
occ:1.00
 O A:HOH360 2.9 42.2 1.0
N A:TRP129 3.1 20.6 1.0
O A:HOH395 3.2 38.0 1.0
O A:HOH442 3.2 47.7 1.0
O A:HOH466 3.5 47.3 1.0
CA A:ARG128 3.6 20.3 1.0
CD1 A:TRP129 3.7 24.8 1.0
C A:ARG128 3.8 19.1 1.0
CB A:TRP129 3.9 21.5 1.0
CB A:ARG128 4.0 24.3 1.0
CA A:TRP129 4.0 20.0 1.0
O A:HOH328 4.1 35.4 1.0
CG A:TRP129 4.2 22.0 1.0
O A:TRP129 4.3 25.3 1.0
O A:PRO127 4.6 20.5 1.0
O A:HOH516 4.6 55.3 1.0
C A:TRP129 4.7 23.4 1.0
N A:ARG128 4.8 18.6 1.0
O A:HOH463 4.8 43.4 1.0
O A:HOH494 4.8 55.3 1.0
NE1 A:TRP129 4.9 23.8 1.0

Chlorine binding site 9 out of 9 in 5y7d

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Chlorine binding site 9 out of 9 in the Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl216

b:52.6
occ:1.00
 O A:HOH506 3.2 43.7 1.0
CE A:LYS2 3.7 47.1 1.0
NZ A:LYS2 3.8 39.0 1.0
CG A:LYS2 4.8 36.4 1.0
CD A:LYS2 4.8 36.0 1.0

Reference:

S.H.Park, M.J.Kim, J.S.Park, H.J.Kim, B.W.Han. Crystal Structure of Human Endothelial-Overexpressed Lps Associated Factor 1 To Be Published.
Page generated: Fri Jul 26 21:20:56 2024

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