Atomistry » Zinc » PDB 6ofs-6oub » 6oiu
Atomistry »
  Zinc »
    PDB 6ofs-6oub »
      6oiu »

Zinc in PDB 6oiu: X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)

Enzymatic activity of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)

All present enzymatic activity of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350):
3.4.11.2;

Protein crystallography data

The structure of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350), PDB code: 6oiu was solved by S.Mcgowan, N.Drinkwater, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.54 / 2.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 92.930, 207.874, 102.867, 90.00, 94.34, 90.00
R / Rfree (%) 19 / 23.6

Zinc Binding Sites:

The binding sites of Zinc atom in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) (pdb code 6oiu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350), PDB code: 6oiu:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 1 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2001

b:16.7
occ:1.00
 OE2 A:GLU858 2.0 19.3 1.0
NE2 A:HIS839 2.1 17.6 1.0
NE2 A:HIS835 2.1 23.3 1.0
ZN A:ZN2002 2.3 56.4 1.0
CD A:GLU858 2.8 15.8 1.0
CD2 A:HIS839 2.9 17.5 1.0
OE1 A:GLU858 3.0 22.0 1.0
CE1 A:HIS835 3.0 18.1 1.0
CE1 A:HIS839 3.1 22.4 1.0
CD2 A:HIS835 3.2 20.2 1.0
O A:HOH2134 3.9 19.6 1.0
CE2 A:TYR919 3.9 16.6 1.0
OH A:TYR919 4.0 17.3 1.0
CG A:HIS839 4.1 19.6 1.0
ND1 A:HIS835 4.2 18.0 1.0
ND1 A:HIS839 4.2 19.5 1.0
CG A:GLU858 4.3 15.7 1.0
CG A:HIS835 4.3 20.3 1.0
CZ A:TYR919 4.3 20.1 1.0
OE1 A:GLU802 4.5 20.9 1.0
CA A:GLU858 4.7 14.0 1.0
CB A:GLU858 4.8 15.1 1.0
OE2 A:GLU836 4.8 23.2 1.0
CG2 A:THR861 4.8 18.0 1.0
OE2 A:GLU802 4.8 22.2 1.0
CD2 A:TYR919 4.9 16.8 1.0
CB A:THR861 4.9 17.0 1.0
CD A:GLU802 4.9 22.9 1.0

Zinc binding site 2 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 2 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2002

b:56.4
occ:1.00
 ZN A:ZN2001 2.3 16.7 1.0
O A:HOH2134 2.9 19.6 1.0
NE2 A:HIS835 3.4 23.3 1.0
OE2 A:GLU836 3.6 23.2 1.0
OH A:TYR919 3.6 17.3 1.0
OE1 A:GLU802 3.7 20.9 1.0
NE2 A:HIS839 3.7 17.6 1.0
OE2 A:GLU858 3.7 19.3 1.0
CD2 A:HIS835 3.8 20.2 1.0
C1 A:GOL2005 3.8 37.5 1.0
O A:ALA800 3.9 23.1 1.0
CD2 A:HIS839 4.0 17.5 1.0
CE A:MET798 4.0 40.4 1.0
OE1 A:GLU858 4.0 22.0 1.0
O1 A:GOL2005 4.1 41.5 1.0
OE1 A:GLU836 4.2 20.0 1.0
CD A:GLU858 4.3 15.8 1.0
CD A:GLU836 4.3 19.9 1.0
CE2 A:TYR919 4.3 16.6 1.0
C2 A:GOL2005 4.4 39.8 1.0
CZ A:TYR919 4.5 20.1 1.0
CE1 A:HIS835 4.5 18.1 1.0
CD A:GLU802 4.6 22.9 1.0
C3 A:GOL2005 4.7 39.6 1.0
OE2 A:GLU802 4.8 22.2 1.0
CE1 A:HIS839 4.9 22.4 1.0
C A:ALA800 5.0 20.4 1.0

Zinc binding site 3 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 3 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1501

b:18.7
occ:1.00
 NE2 B:HIS839 2.0 12.8 1.0
OE2 B:GLU858 2.0 17.3 1.0
NE2 B:HIS835 2.1 23.7 1.0
ZN B:ZN1502 2.3 62.7 1.0
CD B:GLU858 2.9 18.5 1.0
CD2 B:HIS839 2.9 16.4 1.0
OE1 B:GLU858 3.0 15.9 1.0
CE1 B:HIS839 3.0 16.9 1.0
CD2 B:HIS835 3.0 19.7 1.0
CE1 B:HIS835 3.1 19.4 1.0
O B:HOH1666 3.7 20.2 1.0
CE2 B:TYR919 3.9 26.1 1.0
CG B:HIS839 4.1 13.9 1.0
ND1 B:HIS839 4.1 12.2 1.0
OH B:TYR919 4.1 23.2 1.0
ND1 B:HIS835 4.2 19.9 1.0
CG B:HIS835 4.2 20.7 1.0
CG B:GLU858 4.3 19.0 1.0
CZ B:TYR919 4.4 22.5 1.0
OE1 B:GLU802 4.5 16.4 1.0
OE2 B:GLU802 4.6 21.5 1.0
CA B:GLU858 4.7 17.2 1.0
CG2 B:THR861 4.7 16.8 1.0
OE2 B:GLU836 4.7 21.7 1.0
CD B:GLU802 4.8 18.4 1.0
CD2 B:TYR919 4.8 19.3 1.0
CB B:THR861 4.8 18.1 1.0
CB B:GLU858 4.9 15.3 1.0

Zinc binding site 4 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 4 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1502

b:62.7
occ:1.00
 ZN B:ZN1501 2.3 18.7 1.0
O B:HOH1666 2.9 20.2 1.0
OH B:TYR919 3.4 23.2 1.0
NE2 B:HIS835 3.4 23.7 1.0
OE2 B:GLU858 3.5 17.3 1.0
NE2 B:HIS839 3.7 12.8 1.0
CD2 B:HIS835 3.8 19.7 1.0
OE2 B:GLU836 3.8 21.7 1.0
C1 B:GOL1505 3.9 42.5 1.0
CE2 B:TYR919 3.9 26.1 1.0
OE1 B:GLU802 3.9 16.4 1.0
OE1 B:GLU858 4.0 15.9 1.0
CZ B:TYR919 4.1 22.5 1.0
CD B:GLU858 4.1 18.5 1.0
CD2 B:HIS839 4.2 16.4 1.0
O B:ALA800 4.2 25.9 1.0
O1 B:GOL1505 4.3 39.5 1.0
C3 B:GOL1505 4.3 36.6 1.0
C2 B:GOL1505 4.3 44.1 1.0
OE1 B:GLU836 4.4 23.8 1.0
CE1 B:HIS835 4.5 19.4 1.0
CD B:GLU836 4.5 23.1 1.0
CD B:GLU802 4.7 18.4 1.0
OE2 B:GLU802 4.8 21.5 1.0
CE1 B:HIS839 4.9 16.9 1.0

Zinc binding site 5 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 5 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1501

b:16.2
occ:1.00
 OE2 C:GLU858 2.0 16.2 1.0
NE2 C:HIS839 2.0 16.8 1.0
NE2 C:HIS835 2.1 14.9 1.0
ZN C:ZN1502 2.2 51.1 1.0
CD C:GLU858 2.8 16.7 1.0
CD2 C:HIS839 2.9 14.3 1.0
OE1 C:GLU858 3.0 13.0 1.0
CE1 C:HIS835 3.0 17.8 1.0
CE1 C:HIS839 3.1 16.5 1.0
CD2 C:HIS835 3.1 14.9 1.0
O C:HOH1763 3.7 10.7 1.0
CE2 C:TYR919 3.9 18.3 1.0
OH C:TYR919 4.1 19.9 1.0
CG C:HIS839 4.1 13.9 1.0
ND1 C:HIS839 4.1 12.3 1.0
ND1 C:HIS835 4.2 13.5 1.0
CG C:HIS835 4.2 16.0 1.0
CG C:GLU858 4.3 16.5 1.0
CZ C:TYR919 4.4 21.0 1.0
OE1 C:GLU802 4.4 11.4 1.0
O2 C:GOL1503 4.6 32.7 1.0
CA C:GLU858 4.6 12.9 1.0
CG2 C:THR861 4.7 13.3 1.0
CB C:THR861 4.7 16.0 1.0
CB C:GLU858 4.8 13.3 1.0
OE2 C:GLU802 4.8 14.0 1.0
CD C:GLU802 4.9 13.7 1.0
OE2 C:GLU836 4.9 12.4 1.0
CD2 C:TYR919 4.9 15.3 1.0

Zinc binding site 6 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 6 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1502

b:51.1
occ:1.00
 ZN C:ZN1501 2.2 16.2 1.0
O C:HOH1763 2.8 10.7 1.0
NE2 C:HIS835 3.4 14.9 1.0
OH C:TYR919 3.5 19.9 1.0
OE2 C:GLU858 3.5 16.2 1.0
O2 C:GOL1503 3.5 32.7 1.0
NE2 C:HIS839 3.7 16.8 1.0
OE1 C:GLU802 3.7 11.4 1.0
OE2 C:GLU836 3.8 12.4 1.0
C3 C:GOL1503 3.8 31.3 1.0
CD2 C:HIS835 3.8 14.9 1.0
OE1 C:GLU858 3.9 13.0 1.0
CD2 C:HIS839 4.0 14.3 1.0
CD C:GLU858 4.1 16.7 1.0
CE2 C:TYR919 4.1 18.3 1.0
C2 C:GOL1503 4.2 32.7 1.0
OE1 C:GLU836 4.2 15.1 1.0
O C:ALA800 4.2 16.5 1.0
CZ C:TYR919 4.3 21.0 1.0
CD C:GLU836 4.4 16.0 1.0
CE1 C:HIS835 4.5 17.8 1.0
CD C:GLU802 4.6 13.7 1.0
C1 C:GOL1503 4.8 34.6 1.0
O C:HOH1603 4.9 32.3 1.0
OE2 C:GLU802 4.9 14.0 1.0
CE1 C:HIS839 4.9 16.5 1.0

Zinc binding site 7 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 7 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1501

b:32.6
occ:1.00
 OE1 D:GLU858 2.0 34.5 1.0
NE2 D:HIS839 2.0 31.6 1.0
NE2 D:HIS835 2.2 26.9 1.0
ZN D:ZN1502 2.4 78.3 1.0
CD D:GLU858 2.8 34.2 1.0
CE1 D:HIS839 2.9 27.7 1.0
OE2 D:GLU858 2.9 30.2 1.0
CE1 D:HIS835 3.1 30.2 1.0
CD2 D:HIS839 3.1 26.5 1.0
CD2 D:HIS835 3.2 25.9 1.0
CE2 D:TYR919 3.8 33.0 1.0
OH D:TYR919 3.8 35.8 1.0
O D:HOH1609 4.0 27.9 1.0
ND1 D:HIS839 4.1 28.3 1.0
CG D:HIS839 4.2 27.4 1.0
CZ D:TYR919 4.2 34.5 1.0
ND1 D:HIS835 4.2 24.1 1.0
CG D:GLU858 4.2 34.3 1.0
CG D:HIS835 4.3 26.4 1.0
OE1 D:GLU802 4.4 30.1 1.0
CA D:GLU858 4.7 26.1 1.0
CB D:GLU858 4.7 26.8 1.0
CD2 D:TYR919 4.8 28.5 1.0
OE2 D:GLU836 4.8 30.2 1.0
CG2 D:THR861 4.9 26.7 1.0
CB D:THR861 4.9 29.3 1.0
CD D:GLU802 4.9 30.8 1.0
OE2 D:GLU802 4.9 24.3 1.0

Zinc binding site 8 out of 8 in 6oiu

Go back to Zinc Binding Sites List in 6oiu
Zinc binding site 8 out of 8 in the X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of X-Ray Crystal Structure of the Ectodomain of the Toxoplasma Gondii ME49 Aminopeptidase N (TGME49_224350) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1502

b:78.3
occ:1.00
 ZN D:ZN1501 2.4 32.6 1.0
O D:HOH1609 3.0 27.9 1.0
OH D:TYR919 3.4 35.8 1.0
NE2 D:HIS835 3.5 26.9 1.0
OE2 D:GLU836 3.7 30.2 1.0
NE2 D:HIS839 3.7 31.6 1.0
OE1 D:GLU802 3.7 30.1 1.0
OE1 D:GLU858 3.7 34.5 1.0
CD2 D:HIS835 4.0 25.9 1.0
OE2 D:GLU858 4.0 30.2 1.0
O D:ALA800 4.0 34.5 1.0
CE D:MET798 4.0 39.7 1.0
CD2 D:HIS839 4.1 26.5 1.0
CE2 D:TYR919 4.2 33.0 1.0
OE1 D:GLU836 4.2 33.3 1.0
CD D:GLU858 4.2 34.2 1.0
CZ D:TYR919 4.3 34.5 1.0
CD D:GLU836 4.4 28.0 1.0
O D:HOH1924 4.4 39.4 1.0
O D:HOH1979 4.5 38.3 1.0
CE1 D:HIS835 4.7 30.2 1.0
CD D:GLU802 4.7 30.8 1.0
CE1 D:HIS839 4.9 27.7 1.0

Reference:

E.M.Marijanovic, K.Weronika Swiderska, J.Andersen, J.C.Aschenbrenner, C.T.Webb, M.Drag, N.Drinkwater, S.Mcgowan. X-Ray Crystal Structure and Specificity of the Toxoplasma Gondii ME49 TGAPN2. Biochem.J. V. 477 3819 2020.
ISSN: ESSN 1470-8728
PubMed: 32926129
DOI: 10.1042/BCJ20200569
Page generated: Tue Oct 29 04:25:52 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy