Atomistry » Zinc » PDB 6fhh-6fsm » 6fhu
Atomistry »
  Zinc »
    PDB 6fhh-6fsm »
      6fhu »

Zinc in PDB 6fhu: Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide

Protein crystallography data

The structure of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide, PDB code: 6fhu was solved by A.Amato, X.Lucas, A.Bortoluzzi, D.Wright, A.Ciulli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.03 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 73.385, 73.385, 99.671, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 23.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide (pdb code 6fhu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide, PDB code: 6fhu:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 1 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1801

b:25.9
occ:1.00
 ND1 A:HIS1702 2.0 31.1 1.0
SG A:CYS1705 2.3 26.9 1.0
SG A:CYS1679 2.3 28.8 1.0
SG A:CYS1682 2.4 35.0 1.0
CE1 A:HIS1702 3.0 33.0 1.0
CG A:HIS1702 3.0 29.7 1.0
CB A:CYS1679 3.2 32.2 1.0
CB A:CYS1682 3.3 36.2 1.0
CB A:HIS1702 3.4 26.9 1.0
CB A:CYS1705 3.4 25.4 1.0
N A:CYS1682 3.8 34.2 1.0
NE2 A:HIS1702 4.1 32.4 1.0
CA A:CYS1682 4.2 36.8 1.0
N A:HIS1702 4.2 25.4 1.0
CD2 A:HIS1702 4.2 31.3 1.0
CA A:HIS1702 4.4 25.7 1.0
CE1 A:TYR1704 4.5 26.1 1.0
O A:HOH1944 4.5 46.5 1.0
CA A:CYS1679 4.7 33.3 1.0
CB A:VAL1681 4.7 30.4 1.0
O A:HOH1904 4.7 43.2 1.0
CA A:CYS1705 4.7 23.8 1.0
C A:CYS1682 4.9 40.1 1.0
C A:VAL1681 5.0 33.1 1.0
N A:CYS1705 5.0 22.9 1.0
CD1 A:TYR1704 5.0 24.8 1.0

Zinc binding site 2 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 2 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1802

b:30.7
occ:1.00
 SG A:CYS1694 2.3 35.2 1.0
SG A:CYS1697 2.3 37.1 1.0
SG A:CYS1723 2.3 34.8 1.0
SG A:CYS1720 2.4 32.4 1.0
CB A:CYS1694 3.3 36.1 1.0
CB A:CYS1697 3.3 39.6 1.0
CB A:CYS1723 3.4 33.9 1.0
CB A:CYS1720 3.5 31.8 1.0
N A:CYS1697 3.8 40.7 1.0
N A:CYS1720 3.9 32.4 1.0
N A:CYS1723 4.0 32.2 1.0
CA A:CYS1697 4.1 41.0 1.0
CA A:CYS1720 4.2 31.1 1.0
C A:GLY1696 4.2 41.8 1.0
CA A:CYS1723 4.2 32.4 1.0
CA A:GLY1696 4.5 41.2 1.0
O A:CYS1720 4.6 29.8 1.0
C A:CYS1720 4.6 31.0 1.0
CD A:ARG1699 4.6 37.0 1.0
N A:GLY1696 4.6 41.2 1.0
CB A:ARG1699 4.7 37.0 1.0
C A:CYS1697 4.7 42.5 1.0
NH1 A:ARG1699 4.7 37.9 1.0
CA A:CYS1694 4.8 37.8 1.0
O A:GLY1696 4.9 42.0 1.0
C A:PHE1719 5.0 33.3 1.0

Zinc binding site 3 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 3 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1801

b:26.2
occ:1.00
 ND1 B:HIS1702 2.1 32.9 1.0
SG B:CYS1705 2.3 30.0 1.0
SG B:CYS1679 2.3 32.9 1.0
SG B:CYS1682 2.4 36.8 1.0
CE1 B:HIS1702 3.0 34.3 1.0
CG B:HIS1702 3.1 31.4 1.0
CB B:CYS1679 3.1 35.6 1.0
CB B:CYS1682 3.3 38.1 1.0
CB B:CYS1705 3.4 28.6 1.0
CB B:HIS1702 3.4 29.6 1.0
N B:CYS1682 3.7 37.7 1.0
CA B:CYS1682 4.1 39.1 1.0
NE2 B:HIS1702 4.2 33.4 1.0
CD2 B:HIS1702 4.2 32.0 1.0
N B:HIS1702 4.2 29.3 1.0
O B:HOH1937 4.4 41.1 1.0
CA B:HIS1702 4.5 28.3 1.0
CE1 B:TYR1704 4.5 26.6 1.0
CA B:CYS1679 4.6 37.2 1.0
CB B:VAL1681 4.7 34.6 1.0
CA B:CYS1705 4.8 27.0 1.0
O B:HOH1904 4.8 42.7 1.0
C B:VAL1681 4.9 37.5 1.0
C B:CYS1682 4.9 41.7 1.0

Zinc binding site 4 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 4 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1802

b:34.5
occ:1.00
 SG B:CYS1697 2.3 46.9 1.0
SG B:CYS1723 2.3 48.3 1.0
SG B:CYS1720 2.3 40.2 1.0
SG B:CYS1694 2.4 43.2 1.0
CB B:CYS1697 3.3 50.1 1.0
CB B:CYS1723 3.4 47.2 1.0
CB B:CYS1694 3.4 41.8 1.0
CB B:CYS1720 3.4 37.9 1.0
N B:CYS1697 3.8 49.6 1.0
N B:CYS1720 3.9 37.1 1.0
N B:CYS1723 4.0 44.5 1.0
CA B:CYS1697 4.1 50.8 1.0
CA B:CYS1720 4.2 36.7 1.0
CA B:CYS1723 4.2 46.5 1.0
C B:GLY1696 4.3 50.7 1.0
CA B:GLY1696 4.6 49.9 1.0
CD B:ARG1699 4.6 48.1 1.0
CB B:ARG1699 4.7 45.0 1.0
O B:CYS1720 4.7 36.2 1.0
C B:CYS1720 4.7 36.6 1.0
N B:GLY1696 4.8 48.1 1.0
C B:CYS1697 4.8 50.9 1.0
CA B:CYS1694 4.8 40.5 1.0
NH1 B:ARG1699 4.8 51.9 1.0
C B:PHE1719 5.0 37.0 1.0

Zinc binding site 5 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 5 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1801

b:21.0
occ:1.00
 ND1 C:HIS1702 2.1 24.4 1.0
SG C:CYS1705 2.3 24.5 1.0
SG C:CYS1682 2.3 24.5 1.0
SG C:CYS1679 2.3 23.8 1.0
CE1 C:HIS1702 3.1 25.4 1.0
CB C:CYS1679 3.1 25.2 1.0
CG C:HIS1702 3.1 23.9 1.0
CB C:CYS1682 3.3 25.8 1.0
CB C:CYS1705 3.4 23.8 1.0
CB C:HIS1702 3.4 23.0 1.0
N C:CYS1682 3.8 24.6 1.0
CA C:CYS1682 4.1 25.8 1.0
N C:HIS1702 4.2 22.4 1.0
NE2 C:HIS1702 4.2 24.8 1.0
CD2 C:HIS1702 4.2 24.0 1.0
CA C:HIS1702 4.4 22.6 1.0
CA C:CYS1679 4.6 25.1 1.0
CE1 C:TYR1704 4.6 24.1 1.0
CB C:VAL1681 4.7 23.7 1.0
CA C:CYS1705 4.8 23.8 1.0
C C:VAL1681 4.9 24.1 1.0
C C:CYS1682 4.9 27.2 1.0
O C:HOH1912 5.0 31.9 1.0

Zinc binding site 6 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 6 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1802

b:22.7
occ:1.00
 SG C:CYS1697 2.3 26.4 1.0
SG C:CYS1723 2.3 31.8 1.0
SG C:CYS1694 2.3 28.6 1.0
SG C:CYS1720 2.3 26.1 1.0
CB C:CYS1723 3.3 32.4 1.0
CB C:CYS1694 3.4 29.5 1.0
CB C:CYS1697 3.4 28.7 1.0
CB C:CYS1720 3.5 26.9 1.0
N C:CYS1697 3.7 29.9 1.0
N C:CYS1720 3.9 30.4 1.0
N C:CYS1723 4.0 29.7 1.0
CA C:CYS1697 4.1 29.5 1.0
CA C:CYS1720 4.2 27.8 1.0
C C:GLY1696 4.2 31.3 1.0
CA C:CYS1723 4.3 32.3 1.0
CA C:GLY1696 4.6 32.3 1.0
N C:GLY1696 4.6 32.4 1.0
O C:CYS1720 4.7 27.8 1.0
C C:CYS1697 4.7 29.3 1.0
C C:CYS1720 4.7 27.1 1.0
CB C:ARG1699 4.7 24.1 1.0
O C:HOH1935 4.7 40.0 1.0
NH1 C:ARG1699 4.8 24.1 1.0
CA C:CYS1694 4.8 30.3 1.0
CD C:ARG1699 4.8 23.8 1.0
O C:GLY1696 4.8 31.5 1.0
O C:CYS1697 4.9 29.4 1.0
C C:PHE1719 5.0 33.7 1.0

Zinc binding site 7 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 7 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1801

b:24.8
occ:1.00
 ND1 D:HIS1702 2.0 27.0 1.0
SG D:CYS1705 2.3 26.9 1.0
SG D:CYS1679 2.3 25.5 1.0
SG D:CYS1682 2.3 29.9 1.0
CE1 D:HIS1702 3.0 28.8 1.0
CG D:HIS1702 3.0 26.9 1.0
CB D:CYS1679 3.1 27.3 1.0
CB D:CYS1705 3.4 25.2 1.0
CB D:CYS1682 3.4 30.0 1.0
CB D:HIS1702 3.4 25.4 1.0
N D:CYS1682 3.8 27.7 1.0
NE2 D:HIS1702 4.1 28.0 1.0
N D:HIS1702 4.1 24.7 1.0
CA D:CYS1682 4.2 30.2 1.0
CD2 D:HIS1702 4.2 27.4 1.0
CA D:HIS1702 4.4 25.0 1.0
CA D:CYS1679 4.6 27.3 1.0
CE1 D:TYR1704 4.6 24.7 1.0
CB D:VAL1681 4.7 25.9 1.0
CA D:CYS1705 4.7 24.6 1.0
O D:HOH1956 4.8 45.4 1.0
C D:VAL1681 4.9 27.2 1.0
C D:CYS1682 4.9 31.9 1.0

Zinc binding site 8 out of 8 in 6fhu

Go back to Zinc Binding Sites List in 6fhu
Zinc binding site 8 out of 8 in the Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of BAZ2A Phd Zinc Finger in Complex with H3 3-Mer Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1802

b:23.7
occ:1.00
 SG D:CYS1697 2.3 29.0 1.0
SG D:CYS1694 2.3 29.1 1.0
SG D:CYS1723 2.3 25.7 1.0
SG D:CYS1720 2.3 24.1 1.0
CB D:CYS1694 3.3 29.7 1.0
CB D:CYS1723 3.3 25.2 1.0
CB D:CYS1697 3.4 31.1 1.0
CB D:CYS1720 3.4 23.8 1.0
N D:CYS1697 3.8 32.4 1.0
N D:CYS1720 3.9 24.6 1.0
N D:CYS1723 4.0 23.7 1.0
CA D:CYS1697 4.1 32.8 1.0
CA D:CYS1720 4.2 23.7 1.0
C D:GLY1696 4.2 32.9 1.0
CA D:CYS1723 4.3 23.9 1.0
CA D:GLY1696 4.6 32.9 1.0
O D:CYS1720 4.6 22.8 1.0
N D:GLY1696 4.6 33.0 1.0
C D:CYS1720 4.7 23.1 1.0
C D:CYS1697 4.7 34.0 1.0
CA D:CYS1694 4.8 31.1 1.0
CB D:ARG1699 4.8 26.4 1.0
NH1 D:ARG1699 4.8 25.7 1.0
CD D:ARG1699 4.9 25.3 1.0
O D:GLY1696 4.9 33.2 1.0
O D:CYS1697 5.0 33.0 1.0
O D:HOH1955 5.0 41.9 1.0

Reference:

A.Amato, X.Lucas, A.Bortoluzzi, D.Wright, A.Ciulli. Targeting Ligandable Pockets on Plant Homeodomain (Phd) Zinc Finger Domains By A Fragment-Based Approach. Acs Chem. Biol. V. 13 915 2018.
ISSN: ESSN 1554-8937
PubMed: 29529862
DOI: 10.1021/ACSCHEMBIO.7B01093
Page generated: Mon Oct 28 21:04:29 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy