Atomistry » Zinc » PDB 6jer-6jqd » 6jf6
Atomistry »
  Zinc »
    PDB 6jer-6jqd »
      6jf6 »

Zinc in PDB 6jf6: Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii

Enzymatic activity of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii

All present enzymatic activity of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii:
3.5.1.88;

Protein crystallography data

The structure of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii, PDB code: 6jf6 was solved by K.H.Jung, T.H.Ho, I.H.Lee, L.W.Kang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.99 / 2.35
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 71.370, 39.347, 110.353, 90.00, 89.98, 90.00
R / Rfree (%) 21 / 29.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii (pdb code 6jf6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii, PDB code: 6jf6:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 6jf6

Go back to Zinc Binding Sites List in 6jf6
Zinc binding site 1 out of 4 in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:68.9
occ:1.00
 SG A:CYS103 1.5 53.3 1.0
NE2 A:HIS145 2.4 50.0 1.0
NE2 A:HIS149 2.6 58.2 1.0
O A:HOH326 2.9 51.7 1.0
CD2 A:HIS145 3.1 43.2 1.0
CB A:CYS103 3.1 51.4 1.0
CD2 A:HIS149 3.2 56.8 1.0
NE2 A:GLN55 3.4 49.5 1.0
OE1 A:GLN55 3.5 43.7 1.0
CA A:CYS103 3.6 58.7 1.0
CE1 A:HIS145 3.6 47.2 1.0
OE2 A:GLU146 3.7 39.5 1.0
CD A:GLN55 3.7 42.7 1.0
CE1 A:HIS149 3.8 59.1 1.0
O A:HOH325 4.0 40.7 1.0
OE1 A:GLU146 4.1 38.5 1.0
CD A:GLU146 4.3 36.3 1.0
CG A:HIS145 4.4 41.8 1.0
N A:LEU104 4.4 60.0 1.0
CG A:HIS149 4.5 51.9 1.0
C A:CYS103 4.5 61.3 1.0
ND1 A:HIS145 4.6 45.7 1.0
O A:GLY102 4.6 68.8 1.0
N A:CYS103 4.7 60.2 1.0
ND1 A:HIS149 4.7 50.4 1.0
O A:HOH301 4.8 45.8 1.0
CG A:GLN55 4.9 38.7 1.0

Zinc binding site 2 out of 4 in 6jf6

Go back to Zinc Binding Sites List in 6jf6
Zinc binding site 2 out of 4 in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn201

b:43.4
occ:1.00
 NE2 B:HIS145 2.1 53.2 1.0
NE2 B:HIS149 2.2 34.9 1.0
SG B:CYS103 2.3 43.7 1.0
O B:HOH302 2.4 25.3 1.0
CD2 B:HIS145 2.8 53.4 1.0
CD2 B:HIS149 2.9 36.6 1.0
O B:HOH324 3.1 31.2 1.0
CE1 B:HIS145 3.2 53.3 1.0
CE1 B:HIS149 3.3 33.4 1.0
CB B:CYS103 3.4 44.4 1.0
O B:HOH314 3.5 23.9 1.0
NE2 B:GLN55 3.6 34.1 1.0
OE1 B:GLN55 3.7 37.0 1.0
CD B:GLN55 3.8 38.8 1.0
CA B:CYS103 4.0 43.1 1.0
CG B:HIS145 4.0 47.3 1.0
O B:HOH312 4.1 34.4 1.0
OE1 B:GLU146 4.2 34.1 1.0
CG B:HIS149 4.2 34.9 1.0
ND1 B:HIS145 4.2 43.2 1.0
ND1 B:HIS149 4.3 36.0 1.0
OE2 B:GLU146 4.5 37.3 1.0
CD B:GLU146 4.7 38.1 1.0
O B:GLY102 4.8 39.6 1.0
CG B:GLN55 4.9 35.7 1.0
C B:CYS103 4.9 45.0 1.0
N B:LEU104 5.0 40.3 1.0

Zinc binding site 3 out of 4 in 6jf6

Go back to Zinc Binding Sites List in 6jf6
Zinc binding site 3 out of 4 in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn201

b:43.7
occ:1.00
 NE2 C:HIS145 2.1 58.2 1.0
NE2 C:HIS149 2.2 43.4 1.0
O E:HOH101 2.2 37.6 1.0
SG C:CYS103 2.2 40.4 1.0
CD2 C:HIS145 2.9 55.0 1.0
O C:HOH315 3.0 36.0 1.0
CE1 C:HIS149 3.1 46.8 1.0
CD2 C:HIS149 3.1 42.7 1.0
CB C:CYS103 3.2 45.0 1.0
CE1 C:HIS145 3.3 56.3 1.0
NE2 C:GLN55 3.7 34.1 1.0
O C:HOH311 3.8 28.4 1.0
N E:MET1 3.9 71.1 1.0
CD C:GLN55 3.9 39.1 1.0
OE1 C:GLN55 3.9 40.0 1.0
CA C:CYS103 4.0 42.5 1.0
CG C:HIS145 4.1 50.0 1.0
ND1 C:HIS149 4.2 48.5 1.0
CG C:HIS149 4.3 45.9 1.0
ND1 C:HIS145 4.3 50.3 1.0
O C:HOH302 4.3 46.1 1.0
OE1 C:GLU146 4.3 39.0 1.0
OE2 C:GLU146 4.5 38.2 1.0
CA E:MET1 4.7 64.4 1.0
N C:LEU104 4.8 44.9 1.0
CD C:GLU146 4.8 40.0 1.0
CG C:GLN55 4.8 37.8 1.0
C C:CYS103 4.8 44.1 1.0
O C:GLY102 4.8 38.6 1.0

Zinc binding site 4 out of 4 in 6jf6

Go back to Zinc Binding Sites List in 6jf6
Zinc binding site 4 out of 4 in the Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn201

b:50.4
occ:1.00
 NE2 D:HIS145 2.2 49.1 1.0
SG D:CYS103 2.2 56.0 1.0
NE2 D:HIS149 2.2 36.0 1.0
O D:HOH304 2.3 35.7 1.0
CD2 D:HIS145 3.1 42.5 1.0
CE1 D:HIS145 3.2 45.7 1.0
CD2 D:HIS149 3.2 34.6 1.0
CB D:CYS103 3.2 56.8 1.0
CE1 D:HIS149 3.2 41.2 1.0
O D:HOH318 3.3 44.2 1.0
O D:HOH319 3.4 45.6 1.0
OE1 D:GLN55 3.7 48.0 1.0
CA D:CYS103 3.8 56.9 1.0
NE2 D:GLN55 3.8 44.0 1.0
CD D:GLN55 4.0 42.6 1.0
CG D:HIS145 4.2 43.2 1.0
ND1 D:HIS145 4.3 48.1 1.0
N D:LEU104 4.3 64.1 1.0
OE2 D:GLU146 4.3 36.0 1.0
ND1 D:HIS149 4.3 40.4 1.0
CG D:HIS149 4.4 36.9 1.0
C D:CYS103 4.5 61.7 1.0
OE1 D:GLU146 4.6 37.8 1.0
O D:HOH314 4.7 50.1 1.0
O D:GLY102 4.8 58.0 1.0
CD D:GLU146 4.8 39.2 1.0
N D:SER105 5.0 55.7 1.0

Reference:

K.H.Jung, T.H.Ho, I.H.Lee, L.W.Kang. Met-Ala-Ser Bound Crystal Structure of Class I Type B Peptide Deformylase From Acinetobacter Baumannii To Be Published.
Page generated: Tue Oct 29 01:07:12 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy