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Chlorine in PDB 7ni1: Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9

Enzymatic activity of Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9

All present enzymatic activity of Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9:
1.11.2.2;

Protein crystallography data

The structure of Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9, PDB code: 7ni1 was solved by T.Sjogren, T.Inghardt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.24 / 2.11
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 93.22, 63.82, 111.34, 90, 97.24, 90
R / Rfree (%) 21.7 / 25.6

Other elements in 7ni1:

The structure of Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9 also contains other interesting chemical elements:

Iron (Fe) 2 atoms
Calcium (Ca) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9 (pdb code 7ni1). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9, PDB code: 7ni1:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in 7ni1

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Chlorine binding site 1 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:11.0
occ:0.96
N A:TRP32 3.0 18.5 1.0
N C:VAL327 3.3 9.3 1.0
O A:HOH314 3.3 15.9 1.0
CH2 C:TRP436 3.6 13.2 1.0
CA A:ARG31 3.7 16.3 1.0
CB C:ASN326 3.8 3.0 1.0
N C:ASN326 3.8 8.6 1.0
CB C:VAL327 3.8 12.2 1.0
C A:ARG31 3.8 21.2 1.0
CG1 C:VAL327 3.9 11.7 1.0
CZ2 C:TRP436 4.0 13.8 1.0
O A:VAL30 4.0 15.4 1.0
CA A:TRP32 4.0 17.4 1.0
CB A:TRP32 4.0 16.2 1.0
N A:LEU33 4.1 12.8 1.0
CA C:ASN326 4.1 6.7 1.0
C C:ASN326 4.1 11.8 1.0
CA C:VAL327 4.1 9.5 1.0
CB C:ALA325 4.3 11.1 1.0
CD2 C:LEU430 4.3 14.5 1.0
C C:ALA325 4.5 12.3 1.0
O A:LEU33 4.5 17.1 1.0
CB A:ARG31 4.5 15.0 1.0
C A:TRP32 4.5 18.2 1.0
CD A:ARG31 4.6 17.5 1.0
CG A:TRP32 4.7 17.8 1.0
N A:ARG31 4.7 16.4 1.0
CZ3 C:TRP436 4.8 13.2 1.0
CA C:ALA325 4.8 10.2 1.0
C A:VAL30 4.8 17.1 1.0
CG A:ARG31 4.9 18.1 1.0
NH1 A:ARG31 5.0 5.8 1.0

Chlorine binding site 2 out of 7 in 7ni1

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Chlorine binding site 2 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:21.7
occ:1.00
N20 C:UEB606 3.0 24.5 1.0
O A:HOH308 3.3 10.4 1.0
CE1 A:HIS95 3.4 13.6 1.0
NE2 A:GLN91 3.4 13.2 1.0
CG C:GLU242 3.4 19.5 1.0
NE2 A:HIS95 3.6 13.8 1.0
CD C:GLU242 3.6 21.6 1.0
CB C:GLU242 3.7 17.4 1.0
O22 C:UEB606 3.7 18.2 1.0
CD C:ARG239 3.8 19.3 1.0
C21 C:UEB606 3.8 20.6 1.0
S19 C:UEB606 3.8 27.5 1.0
C18 C:UEB606 3.8 27.5 1.0
CB C:ARG239 3.9 4.6 1.0
OE1 C:GLU242 3.9 7.2 1.0
CG C:ARG239 4.0 21.8 1.0
CHB A:HEM203 4.1 20.8 1.0
OE2 C:GLU242 4.1 15.6 1.0
C1B A:HEM203 4.1 20.4 1.0
C4A A:HEM203 4.3 20.5 1.0
NB A:HEM203 4.5 19.9 1.0
NA A:HEM203 4.5 20.5 1.0
C2B A:HEM203 4.5 20.5 1.0
CD A:GLN91 4.5 17.3 1.0
ND1 A:HIS95 4.6 14.4 1.0
CD2 C:LEU246 4.8 10.2 1.0
O C:ARG239 4.8 12.3 1.0
CG A:GLN91 4.8 8.1 1.0
C3A A:HEM203 4.9 21.0 1.0
NE C:ARG239 4.9 21.1 1.0
CD2 A:HIS95 4.9 14.3 1.0
CMB A:HEM203 5.0 22.1 1.0
C1A A:HEM203 5.0 20.6 1.0

Chlorine binding site 3 out of 7 in 7ni1

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Chlorine binding site 3 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl201

b:12.9
occ:1.00
N B:TRP32 3.2 17.6 1.0
N D:VAL327 3.2 10.6 1.0
O B:HOH327 3.3 20.7 1.0
CH2 D:TRP436 3.6 15.3 1.0
CA B:ARG31 3.7 15.0 1.0
N D:ASN326 3.7 12.6 1.0
CB D:ASN326 3.7 16.1 1.0
CB D:VAL327 3.8 11.8 1.0
C B:ARG31 3.9 18.9 1.0
CZ2 D:TRP436 3.9 15.6 1.0
CG1 D:VAL327 3.9 11.1 1.0
O B:VAL30 4.0 15.1 1.0
CA D:ASN326 4.0 12.8 1.0
C D:ASN326 4.1 15.6 1.0
CA D:VAL327 4.1 8.2 1.0
N B:LEU33 4.1 13.2 1.0
CA B:TRP32 4.2 18.7 1.0
CB B:TRP32 4.2 19.4 1.0
CD2 D:LEU430 4.3 15.4 1.0
CB D:ALA325 4.4 9.7 1.0
O B:LEU33 4.4 17.4 1.0
CB B:ARG31 4.4 16.0 1.0
C D:ALA325 4.4 14.5 1.0
CD B:ARG31 4.5 20.4 1.0
C B:TRP32 4.7 18.6 1.0
N B:ARG31 4.7 14.8 1.0
CZ3 D:TRP436 4.7 14.8 1.0
CA D:ALA325 4.8 8.7 1.0
CG B:ARG31 4.8 24.1 1.0
C B:VAL30 4.8 17.0 1.0
CG B:TRP32 4.9 22.0 1.0
NH1 B:ARG31 4.9 11.6 1.0

Chlorine binding site 4 out of 7 in 7ni1

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Chlorine binding site 4 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl202

b:21.7
occ:1.00
O B:HOH337 2.8 18.7 1.0
NE2 B:GLN91 3.2 15.9 1.0
N20 D:UEB606 3.3 19.2 1.0
CE1 B:HIS95 3.3 18.8 1.0
CG D:GLU242 3.4 21.3 1.0
NE2 B:HIS95 3.5 18.8 1.0
CD D:GLU242 3.6 29.7 1.0
CB D:GLU242 3.7 20.6 1.0
CD D:ARG239 3.8 8.5 1.0
S19 D:UEB606 3.9 19.9 1.0
CHB B:HEM203 3.9 23.3 1.0
C1B B:HEM203 3.9 22.9 1.0
OE2 D:GLU242 3.9 24.5 1.0
CB D:ARG239 4.0 17.2 1.0
O22 D:UEB606 4.0 22.4 1.0
OE1 D:GLU242 4.1 22.5 1.0
C18 D:UEB606 4.1 18.4 1.0
C21 D:UEB606 4.1 20.6 1.0
C4A B:HEM203 4.1 22.9 1.0
CG D:ARG239 4.2 17.1 1.0
NB B:HEM203 4.2 22.6 1.0
CD B:GLN91 4.3 23.6 1.0
C2B B:HEM203 4.3 23.1 1.0
NA B:HEM203 4.3 22.9 1.0
ND1 B:HIS95 4.6 19.4 1.0
CG B:GLN91 4.6 11.3 1.0
C4B B:HEM203 4.7 23.0 1.0
CD2 D:LEU246 4.7 20.3 1.0
C3A B:HEM203 4.8 23.4 1.0
CMB B:HEM203 4.8 24.7 1.0
CD2 B:HIS95 4.8 19.4 1.0
C3B B:HEM203 4.9 23.3 1.0
FE B:HEM203 4.9 22.8 1.0
NE D:ARG239 4.9 9.3 1.0
O D:ARG239 4.9 21.7 1.0
C1A B:HEM203 4.9 23.1 1.0

Chlorine binding site 5 out of 7 in 7ni1

Go back to Chlorine Binding Sites List in 7ni1
Chlorine binding site 5 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl602

b:23.8
occ:0.96
NE C:ARG382 3.2 28.0 1.0
N C:THR544 3.3 16.6 1.0
NH2 C:ARG382 3.4 22.3 1.0
CA C:ILE543 3.6 16.9 1.0
O C:HOH932 3.7 28.2 1.0
CZ C:ARG382 3.7 39.9 1.0
CG2 C:ILE543 3.8 16.9 1.0
OG1 C:THR544 3.9 20.2 1.0
N C:THR545 3.9 18.0 1.0
C C:ILE543 4.0 19.8 1.0
CB C:ILE543 4.1 18.9 1.0
O C:ASN348 4.1 31.7 1.0
CA C:ASN348 4.2 25.4 1.0
CD C:ARG382 4.2 22.0 1.0
CA C:THR544 4.4 15.5 1.0
CB C:ASN348 4.4 23.8 1.0
O C:GLY542 4.4 23.5 1.0
CE1 C:TYR350 4.4 33.3 1.0
CG1 C:ILE543 4.4 18.7 1.0
O C:THR545 4.5 24.5 1.0
C C:ASN348 4.6 30.9 1.0
C C:THR544 4.6 19.3 1.0
CB C:THR545 4.7 28.2 1.0
N C:ILE543 4.7 18.2 1.0
CB C:THR544 4.7 23.5 1.0
CA C:THR545 4.8 18.9 1.0
C C:GLY542 5.0 23.4 1.0

Chlorine binding site 6 out of 7 in 7ni1

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Chlorine binding site 6 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl603

b:33.9
occ:0.99
N C:GLN201 3.4 28.0 1.0
N C:PHE213 3.4 16.7 1.0
CA C:PRO212 3.7 18.0 1.0
CA C:ASN200 3.8 23.2 1.0
CB C:PRO212 3.9 19.9 1.0
CG C:ASN200 3.9 34.2 1.0
OD1 C:ASN200 4.0 16.1 1.0
ND2 C:ASN200 4.1 24.5 1.0
C C:PRO212 4.1 20.5 1.0
C C:ASN200 4.1 28.7 1.0
CD2 C:PHE213 4.1 16.5 1.0
CB C:GLN201 4.2 29.7 1.0
CA C:GLN201 4.3 28.4 1.0
CB C:PHE213 4.4 15.7 1.0
CG C:GLN201 4.4 36.6 1.0
CB C:ASN200 4.4 20.5 1.0
CA C:PHE213 4.5 15.4 1.0
CG C:PHE213 4.5 15.7 1.0
O C:VAL199 4.6 25.3 1.0
N C:ARG202 4.7 26.1 1.0
O C:PHE213 4.7 23.7 1.0
N C:ASN200 4.9 22.9 1.0
CE2 C:PHE213 5.0 19.1 1.0
C C:GLN201 5.0 31.7 1.0

Chlorine binding site 7 out of 7 in 7ni1

Go back to Chlorine Binding Sites List in 7ni1
Chlorine binding site 7 out of 7 in the Crystal Structure of Native Human Myeloperoxidase in Complex with Cpd 9


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 Native Human Myeloperoxidase in Complex with Cpd 9 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl602

b:81.3
occ:0.96
O D:HOH868 3.1 9.4 1.0
O D:HOH830 3.4 26.3 1.0
CG D:GLN201 3.7 39.1 1.0
CB D:GLN201 4.1 29.8 1.0
CB D:PRO212 4.7 23.6 1.0
N D:GLN201 4.8 28.2 1.0

Reference:

T.Inghardt, T.Antonsson, C.Ericsson, D.Hovdal, P.Johannesson, C.Johansson, U.Jurva, J.Kajanus, B.Kull, E.Michaelsson, A.Pettersen, T.Sjogren, H.Sorensen, K.Westerlund, E.L.Lindstedt. Discovery of AZD4831, A Mechanism-Based Irreversible Inhibitor of Myeloperoxidase, As A Potential Treatment For Heart Failure with Preserved Ejection Fraction. J.Med.Chem. V. 65 11485 2022.
ISSN: ISSN 0022-2623
PubMed: 36005476
DOI: 10.1021/ACS.JMEDCHEM.1C02141
Page generated: Tue Jul 30 00:55:25 2024

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