Atomistry » Zinc » PDB 5mq1-5n1r » 5mxz
Atomistry »
  Zinc »
    PDB 5mq1-5n1r »
      5mxz »

Zinc in PDB 5mxz: KUSTC0563 Y40F Mutant

Protein crystallography data

The structure of KUSTC0563 Y40F Mutant, PDB code: 5mxz was solved by A.Mohd, T.Barends, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.90 / 1.90
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 47.520, 47.520, 99.780, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 22.5

Other elements in 5mxz:

The structure of KUSTC0563 Y40F Mutant also contains other interesting chemical elements:

Iron (Fe) 1 atom

Zinc Binding Sites:

Pages:

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

Binding sites:

The binding sites of Zinc atom in the KUSTC0563 Y40F Mutant (pdb code 5mxz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 11 binding sites of Zinc where determined in the KUSTC0563 Y40F Mutant, PDB code: 5mxz:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 1 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:27.6
occ:1.00
O A:HOH315 2.0 29.6 1.0
O A:HOH307 2.0 26.7 1.0
O1D A:HEC200 2.2 26.0 1.0
CGD A:HEC200 3.2 25.6 1.0
O2D A:HEC200 3.5 25.0 1.0
OG1 A:THR87 3.8 26.9 1.0
OE1 A:GLN82 4.0 24.7 1.0
O A:HOH317 4.2 39.6 1.0
O A:HOH360 4.2 44.3 1.0
CG2 A:THR87 4.5 26.0 1.0
NH1 A:ARG78 4.5 26.6 1.0
CBD A:HEC200 4.5 24.5 1.0
CB A:THR87 4.8 26.9 1.0
CD A:GLN82 4.9 23.8 1.0

Zinc binding site 2 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 2 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:72.1
occ:1.00
OD2 A:ASP67 2.6 42.6 1.0
OE1 A:GLU69 2.7 39.5 0.5
OD1 A:ASP67 3.0 36.9 1.0
CG A:ASP67 3.2 37.6 1.0
CD A:GLU69 3.2 39.0 0.5
OE2 A:GLU69 3.7 39.5 0.5
CB A:GLU69 3.9 36.6 0.5
CG A:GLU69 4.0 37.6 0.5
CB A:GLU69 4.0 37.5 0.5
OE1 A:GLU69 4.3 42.8 0.5
CB A:ASP67 4.6 35.7 1.0
N A:GLU69 4.7 35.0 1.0
O A:HOH302 4.8 56.3 1.0
CD A:GLU69 4.9 40.9 0.5
CA A:GLU69 4.9 35.1 0.5
CA A:GLU69 5.0 35.5 0.5

Zinc binding site 3 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 3 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:49.3
occ:1.00
OE2 A:GLU77 2.1 41.9 1.0
CD A:GLU77 2.7 40.9 1.0
OE1 A:GLU77 2.7 44.3 1.0
ZN A:ZN211 2.8 0.0 1.0
CG A:GLU77 4.1 36.9 1.0
CB A:GLU77 4.9 32.0 1.0

Zinc binding site 4 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 4 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn204

b:30.9
occ:0.50
O A:ACT217 2.0 45.3 1.0
OD2 A:ASP76 2.2 33.3 1.0
OD1 A:ASP76 2.6 32.1 1.0
CG A:ASP76 2.7 31.8 1.0
C A:ACT217 2.9 45.3 1.0
OXT A:ACT217 3.2 47.1 1.0
O A:HOH310 3.9 26.6 1.0
CB A:ASP76 4.2 29.8 1.0
NE A:ARG111 4.3 27.7 1.0
NH2 A:ARG111 4.3 25.8 1.0
CH3 A:ACT217 4.3 46.5 1.0
CZ A:ARG111 4.7 26.7 1.0
CG1 A:VAL107 5.0 25.7 1.0

Zinc binding site 5 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 5 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn205

b:38.4
occ:1.00
OE2 A:GLU58 1.9 40.5 1.0
O A:HOH346 2.0 40.3 1.0
CD A:GLU58 2.8 37.2 1.0
OE1 A:GLU58 3.1 38.6 1.0
CG A:GLU58 4.2 35.0 1.0

Zinc binding site 6 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 6 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn206

b:97.5
occ:1.00
OE2 A:GLU81 2.5 31.5 1.0
OE1 A:GLU81 3.0 31.5 1.0
CD A:GLU81 3.2 30.6 1.0
O A:HOH345 3.3 44.5 1.0
CG A:GLU81 4.7 28.8 1.0
NE A:ARG78 4.8 26.6 1.0
O A:HOH319 5.0 39.7 1.0
NH2 A:ARG78 5.0 26.6 1.0

Zinc binding site 7 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 7 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn207

b:0.6
occ:1.00
ND1 A:HIS42 2.8 40.1 1.0
O A:HOH333 3.2 43.5 1.0
CE1 A:HIS42 3.6 41.0 1.0
CG A:HIS42 3.8 39.5 1.0
CA A:HIS42 3.9 35.6 1.0
O A:GLN41 4.0 38.6 1.0
CB A:HIS42 4.0 36.6 1.0
CE2 A:PHE94 4.2 26.3 1.0
O A:HIS42 4.4 32.1 1.0
C A:HIS42 4.7 32.8 1.0
C A:GLN41 4.7 39.2 1.0
N A:HIS42 4.8 36.2 1.0
NE2 A:HIS42 4.8 40.9 1.0
CD2 A:HIS42 4.9 40.1 1.0
CZ A:PHE94 5.0 25.2 1.0

Zinc binding site 8 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 8 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn208

b:81.8
occ:1.00
NE2 A:HIS42 2.4 40.9 1.0
OE1 A:GLN41 2.9 54.6 1.0
CE1 A:HIS42 3.0 41.0 1.0
CD2 A:HIS42 3.5 40.1 1.0
CD A:GLN41 3.8 52.6 1.0
ND1 A:HIS42 4.2 40.1 1.0
CB A:GLN41 4.4 43.7 1.0
CG A:HIS42 4.5 39.5 1.0
NE2 A:GLN41 4.5 54.3 1.0
CG A:GLN41 4.6 48.5 1.0
CD2 A:LEU38 4.6 34.0 1.0
O2 A:EDO214 4.7 58.5 1.0

Zinc binding site 9 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 9 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn209

b:0.4
occ:1.00
O A:HOH352 2.3 55.2 1.0
OD2 A:ASP34 2.9 50.5 1.0
OD1 A:ASP34 3.4 49.0 1.0
CG A:ASP34 3.5 48.9 1.0
CB A:MET36 4.3 39.4 1.0
CG A:MET36 4.8 41.8 1.0

Zinc binding site 10 out of 11 in 5mxz

Go back to Zinc Binding Sites List in 5mxz
Zinc binding site 10 out of 11 in the KUSTC0563 Y40F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of KUSTC0563 Y40F Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn210

b:76.5
occ:0.50
O A:HOH321 2.8 28.8 1.0
C A:GLY51 3.0 42.3 1.0
N A:ASN52 3.0 40.1 1.0
O A:GLY48 3.2 42.4 1.0
CA A:GLY51 3.3 43.1 1.0
O A:GLY51 3.4 42.0 1.0
CD2 A:PHE65 3.4 28.7 1.0
C A:ASN52 3.5 35.9 1.0
O A:ASN52 3.6 36.6 1.0
CA A:ASN52 3.7 38.2 1.0
CB A:HIS47 3.7 28.2 1.0
O2 A:EDO212 3.7 49.9 1.0
N A:GLY48 3.8 36.6 1.0
CG A:PHE65 3.9 28.3 1.0
CA A:HIS47 3.9 30.7 1.0
N A:GLY51 3.9 42.9 1.0
C A:HIS47 3.9 34.3 1.0
N A:PRO53 4.0 32.9 1.0
N A:PHE65 4.0 28.7 1.0
CE2 A:PHE65 4.0 28.2 1.0
CB A:PHE65 4.0 28.8 1.0
C A:GLY48 4.3 41.8 1.0
ND1 A:HIS47 4.5 26.1 1.0
CA A:GLY48 4.6 38.3 1.0
CG A:HIS47 4.6 26.9 1.0
O A:HIS47 4.6 37.3 1.0
CA A:PRO53 4.6 32.7 1.0
CD A:PRO53 4.7 32.4 1.0
CA A:PHE65 4.7 29.3 1.0
CD1 A:PHE65 4.8 28.2 1.0
O A:ARG63 4.9 29.7 1.0
CZ A:PHE65 5.0 27.4 1.0
C A:LYS64 5.0 28.9 1.0

Reference:

A.Mohd, T.Barends. Structure and Function of the C-Type Cytochrome KUSTC0563 From Kuenenia Stuttgartiensis To Be Published.
Page generated: Wed Dec 16 06:33:55 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy