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Manganese in PDB 7k5k: Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17

Enzymatic activity of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17

All present enzymatic activity of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17:
3.4.11.1;

Manganese Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Manganese atom in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 (pdb code 7k5k). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 12 binding sites of Manganese where determined in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17, PDB code: 7k5k:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Manganese binding site 1 out of 12 in 7k5k

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Manganese binding site 1 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn702

b:36.3
occ:1.00
 O A:ASP475 1.7 28.9 1.0
OD1 A:ASP475 1.8 28.9 1.0
OE1 A:GLU477 2.5 25.0 1.0
OD2 A:ASP395 2.7 28.1 1.0
C A:ASP475 2.8 28.9 1.0
CG A:ASP475 2.8 28.9 1.0
CA A:ASP475 3.3 28.9 1.0
OD1 A:ASP395 3.4 28.1 1.0
CG A:ASP395 3.4 28.1 1.0
MN A:MN703 3.5 38.1 1.0
CB A:ASP475 3.5 28.9 1.0
CD A:GLU477 3.6 25.0 1.0
OD2 A:ASP475 3.7 28.9 1.0
OE2 A:GLU477 3.9 25.0 1.0
N A:ALA476 3.9 24.0 1.0
CE A:LYS402 4.2 31.5 1.0
O2 A:CO3701 4.3 23.0 1.0
N A:GLU477 4.3 25.0 1.0
NZ A:LYS402 4.4 31.5 1.0
CA A:ALA476 4.4 24.0 1.0
ND2 A:ASN448 4.5 26.1 1.0
N A:ASP475 4.7 28.9 1.0
CA A:GLY397 4.8 25.3 1.0
CG A:GLU477 4.8 25.0 1.0
CB A:ASP395 4.9 28.1 1.0
O A:THR474 4.9 24.1 1.0
C A:ALA476 5.0 24.0 1.0

Manganese binding site 2 out of 12 in 7k5k

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Manganese binding site 2 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn703

b:38.1
occ:1.00
 NZ A:LYS390 1.8 23.2 1.0
OD2 A:ASP415 2.2 26.8 1.0
OD2 A:ASP395 2.5 28.1 1.0
OE2 A:GLU477 2.6 25.0 1.0
CG A:ASP415 3.2 26.8 1.0
CE A:LYS390 3.2 23.2 1.0
OD1 A:ASP415 3.4 26.8 1.0
CD A:GLU477 3.4 25.0 1.0
MN A:MN702 3.5 36.3 1.0
CG A:ASP395 3.5 28.1 1.0
OE1 A:GLU477 3.5 25.0 1.0
O2 A:CO3701 3.7 23.0 1.0
CB A:ASP395 4.1 28.1 1.0
O A:THR502 4.2 23.8 1.0
CD A:LYS390 4.3 23.2 1.0
OD1 A:ASP395 4.4 28.1 1.0
CB A:ASP415 4.5 26.8 1.0
O A:LEU503 4.6 24.4 1.0
O A:ASP475 4.6 28.9 1.0
CG A:GLU477 4.9 25.0 1.0
N A:GLY478 4.9 23.5 1.0
C A:CO3701 4.9 23.0 1.0

Manganese binding site 3 out of 12 in 7k5k

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Manganese binding site 3 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn702

b:38.4
occ:1.00
 NZ B:LYS390 2.0 24.1 1.0
OD2 B:ASP415 2.1 26.9 1.0
OD2 B:ASP395 2.8 27.9 1.0
OE2 B:GLU477 2.8 24.6 1.0
CG B:ASP415 2.9 26.9 1.0
CE B:LYS390 3.1 24.1 1.0
OD1 B:ASP415 3.1 26.9 1.0
MN B:MN703 3.5 36.4 1.0
O2 B:CO3701 3.6 23.4 1.0
CG B:ASP395 3.7 27.9 1.0
CD B:GLU477 3.7 24.6 1.0
OE1 B:GLU477 3.9 24.6 1.0
O B:THR502 4.0 22.7 1.0
CB B:ASP395 4.1 27.9 1.0
CB B:ASP415 4.4 26.9 1.0
CD B:LYS390 4.4 24.1 1.0
OD1 B:ASP395 4.6 27.9 1.0
O B:LEU503 4.6 24.1 1.0
C B:CO3701 4.7 23.4 1.0
O B:ASP475 4.8 28.6 1.0

Manganese binding site 4 out of 12 in 7k5k

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Manganese binding site 4 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn703

b:36.4
occ:1.00
 O B:ASP475 1.8 28.6 1.0
OD1 B:ASP475 2.0 28.6 1.0
OD2 B:ASP395 2.5 27.9 1.0
OE1 B:GLU477 2.6 24.6 1.0
C B:ASP475 2.9 28.6 1.0
CG B:ASP475 3.0 28.6 1.0
CG B:ASP395 3.3 27.9 1.0
MN B:MN702 3.5 38.4 1.0
CA B:ASP475 3.5 28.6 1.0
OD1 B:ASP395 3.5 27.9 1.0
CD B:GLU477 3.5 24.6 1.0
OE2 B:GLU477 3.7 24.6 1.0
CB B:ASP475 3.8 28.6 1.0
OD2 B:ASP475 3.9 28.6 1.0
N B:ALA476 4.1 24.6 1.0
NZ B:LYS402 4.1 33.0 1.0
O2 B:CO3701 4.2 23.4 1.0
CE B:LYS402 4.4 33.0 1.0
N B:GLU477 4.4 24.6 1.0
O1 B:CO3701 4.5 23.4 1.0
CA B:ALA476 4.5 24.6 1.0
C B:CO3701 4.7 23.4 1.0
ND2 B:ASN448 4.7 27.2 1.0
CB B:ASP395 4.7 27.9 1.0
N B:ASP475 4.9 28.6 1.0
CG B:GLU477 4.9 24.6 1.0
OD2 B:ASP415 5.0 26.9 1.0
CA B:GLY397 5.0 26.0 1.0

Manganese binding site 5 out of 12 in 7k5k

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Manganese binding site 5 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn702

b:37.4
occ:1.00
 NZ C:LYS390 2.1 22.4 1.0
OD2 C:ASP415 2.2 27.2 1.0
OD2 C:ASP395 2.4 27.3 1.0
OE2 C:GLU477 2.6 24.8 1.0
CG C:ASP415 3.1 27.2 1.0
CE C:LYS390 3.2 22.4 1.0
OD1 C:ASP415 3.3 27.2 1.0
CG C:ASP395 3.4 27.3 1.0
MN C:MN703 3.5 37.9 1.0
CD C:GLU477 3.5 24.8 1.0
O3 C:CO3701 3.6 23.4 1.0
OE1 C:GLU477 3.7 24.8 1.0
CB C:ASP395 4.0 27.3 1.0
O C:THR502 4.1 23.4 1.0
OD1 C:ASP395 4.2 27.3 1.0
CD C:LYS390 4.5 22.4 1.0
CB C:ASP415 4.5 27.2 1.0
O C:LEU503 4.6 24.2 1.0
O C:ASP475 4.7 27.6 1.0
C C:CO3701 4.8 23.4 1.0
CG C:GLU477 4.9 24.8 1.0
N C:GLY478 5.0 24.2 1.0

Manganese binding site 6 out of 12 in 7k5k

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Manganese binding site 6 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn703

b:37.9
occ:1.00
 O C:ASP475 1.8 27.6 1.0
OD1 C:ASP475 1.8 27.6 1.0
OE1 C:GLU477 2.5 24.8 1.0
OD2 C:ASP395 2.7 27.3 1.0
C C:ASP475 2.8 27.6 1.0
CG C:ASP475 2.8 27.6 1.0
CA C:ASP475 3.3 27.6 1.0
OD1 C:ASP395 3.4 27.3 1.0
CG C:ASP395 3.4 27.3 1.0
CD C:GLU477 3.4 24.8 1.0
MN C:MN702 3.5 37.4 1.0
CB C:ASP475 3.5 27.6 1.0
OE2 C:GLU477 3.7 24.8 1.0
OD2 C:ASP475 3.8 27.6 1.0
N C:ALA476 4.0 24.3 1.0
O3 C:CO3701 4.3 23.4 1.0
CE C:LYS402 4.3 30.7 1.0
N C:GLU477 4.3 24.8 1.0
NZ C:LYS402 4.4 30.7 1.0
CA C:ALA476 4.4 24.3 1.0
ND2 C:ASN448 4.6 26.1 1.0
O1 C:CO3701 4.6 23.4 1.0
N C:ASP475 4.7 27.6 1.0
CG C:GLU477 4.8 24.8 1.0
C C:CO3701 4.8 23.4 1.0
CB C:ASP395 4.9 27.3 1.0
CA C:GLY397 4.9 25.4 1.0
C C:ALA476 4.9 24.3 1.0
O C:THR474 5.0 22.9 1.0

Manganese binding site 7 out of 12 in 7k5k

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Manganese binding site 7 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn702

b:38.5
occ:1.00
 NZ D:LYS390 2.1 22.3 1.0
OD2 D:ASP415 2.1 26.6 1.0
OD2 D:ASP395 2.3 28.4 1.0
OE2 D:GLU477 2.6 25.1 1.0
CG D:ASP415 3.1 26.6 1.0
CE D:LYS390 3.2 22.3 1.0
CG D:ASP395 3.3 28.4 1.0
OD1 D:ASP415 3.4 26.6 1.0
MN D:MN703 3.5 38.4 1.0
CD D:GLU477 3.5 25.1 1.0
O1 D:CO3701 3.6 23.9 1.0
OE1 D:GLU477 3.7 25.1 1.0
CB D:ASP395 4.0 28.4 1.0
O D:THR502 4.1 23.0 1.0
OD1 D:ASP395 4.2 28.4 1.0
CB D:ASP415 4.4 26.6 1.0
CD D:LYS390 4.5 22.3 1.0
O D:LEU503 4.6 23.9 1.0
O D:ASP475 4.7 27.8 1.0
C D:CO3701 4.8 23.9 1.0
CG D:GLU477 4.9 25.1 1.0
N D:GLY478 5.0 24.4 1.0

Manganese binding site 8 out of 12 in 7k5k

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Manganese binding site 8 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn703

b:38.4
occ:1.00
 O D:ASP475 1.8 27.8 1.0
OD1 D:ASP475 1.8 27.8 1.0
OE1 D:GLU477 2.5 25.1 1.0
OD2 D:ASP395 2.7 28.4 1.0
C D:ASP475 2.8 27.8 1.0
CG D:ASP475 2.8 27.8 1.0
CA D:ASP475 3.3 27.8 1.0
OD1 D:ASP395 3.3 28.4 1.0
CG D:ASP395 3.4 28.4 1.0
CD D:GLU477 3.4 25.1 1.0
MN D:MN702 3.5 38.5 1.0
CB D:ASP475 3.5 27.8 1.0
OE2 D:GLU477 3.7 25.1 1.0
OD2 D:ASP475 3.8 27.8 1.0
N D:ALA476 4.0 25.0 1.0
O1 D:CO3701 4.3 23.9 1.0
CE D:LYS402 4.3 31.4 1.0
N D:GLU477 4.3 25.1 1.0
NZ D:LYS402 4.4 31.4 1.0
CA D:ALA476 4.4 25.0 1.0
ND2 D:ASN448 4.6 26.4 1.0
O3 D:CO3701 4.6 23.9 1.0
N D:ASP475 4.7 27.8 1.0
CG D:GLU477 4.8 25.1 1.0
C D:CO3701 4.8 23.9 1.0
CA D:GLY397 4.9 25.8 1.0
CB D:ASP395 4.9 28.4 1.0
C D:ALA476 4.9 25.0 1.0
O D:THR474 5.0 23.7 1.0

Manganese binding site 9 out of 12 in 7k5k

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Manganese binding site 9 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 9 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn702

b:37.4
occ:1.00
 O E:ASP475 1.7 28.3 1.0
OD1 E:ASP475 1.8 28.3 1.0
OE1 E:GLU477 2.5 25.4 1.0
OD2 E:ASP395 2.7 28.6 1.0
C E:ASP475 2.8 28.3 1.0
CG E:ASP475 2.8 28.3 1.0
CA E:ASP475 3.3 28.3 1.0
OD1 E:ASP395 3.4 28.6 1.0
CG E:ASP395 3.4 28.6 1.0
MN E:MN703 3.5 38.7 1.0
CB E:ASP475 3.5 28.3 1.0
CD E:GLU477 3.6 25.4 1.0
OD2 E:ASP475 3.7 28.3 1.0
OE2 E:GLU477 3.9 25.4 1.0
N E:ALA476 3.9 24.2 1.0
CE E:LYS402 4.2 32.3 1.0
O1 E:CO3701 4.3 23.6 1.0
N E:GLU477 4.3 25.4 1.0
NZ E:LYS402 4.4 32.3 1.0
CA E:ALA476 4.4 24.2 1.0
ND2 E:ASN448 4.5 27.0 1.0
N E:ASP475 4.7 28.3 1.0
CA E:GLY397 4.8 26.1 1.0
CG E:GLU477 4.8 25.4 1.0
CB E:ASP395 4.9 28.6 1.0
O E:THR474 4.9 24.9 1.0
C E:ALA476 5.0 24.2 1.0

Manganese binding site 10 out of 12 in 7k5k

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Manganese binding site 10 out of 12 in the Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 10 of Plasmodium Vivax M17 Leucyl Aminopeptidase Pv-M17 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn703

b:38.7
occ:1.00
 NZ E:LYS390 1.8 23.1 1.0
OD2 E:ASP415 2.2 27.3 1.0
OD2 E:ASP395 2.5 28.6 1.0
OE2 E:GLU477 2.6 25.4 1.0
CG E:ASP415 3.2 27.3 1.0
CE E:LYS390 3.2 23.1 1.0
OD1 E:ASP415 3.4 27.3 1.0
CD E:GLU477 3.4 25.4 1.0
MN E:MN702 3.5 37.4 1.0
CG E:ASP395 3.5 28.6 1.0
OE1 E:GLU477 3.5 25.4 1.0
O1 E:CO3701 3.7 23.6 1.0
CB E:ASP395 4.1 28.6 1.0
O E:THR502 4.2 23.5 1.0
CD E:LYS390 4.3 23.1 1.0
OD1 E:ASP395 4.4 28.6 1.0
CB E:ASP415 4.5 27.3 1.0
O E:LEU503 4.6 24.6 1.0
O E:ASP475 4.6 28.3 1.0
CG E:GLU477 4.9 25.4 1.0
N E:GLY478 4.9 23.6 1.0
C E:CO3701 4.9 23.6 1.0

Reference:

T.R.Malcolm, M.J.Belousoff, H.Venugopal, N.A.Borg, N.Drinkwater, S.C.Atkinson, S.Mcgowan. Active Site Metals Mediate An Oligomeric Equilibrium in /Plasmodium/ M17 Aminopeptidases J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
Page generated: Sun Oct 6 08:51:21 2024

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