Atomistry » Zinc » PDB 6c6t-6cee » 6cbx
Atomistry »
  Zinc »
    PDB 6c6t-6cee »
      6cbx »

Zinc in PDB 6cbx: Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497

Enzymatic activity of Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497

All present enzymatic activity of Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497:
2.1.1.43;

Protein crystallography data

The structure of Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497, PDB code: 6cbx was solved by H.Zeng, A.Dong, A.Hutchinson, A.Seitova, J.Tatlock, R.Kumpf, A.Owen, A.Taylor, A.Casimiro-Garcia, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.94
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 58.020, 117.031, 64.444, 90.00, 92.54, 90.00
R / Rfree (%) 18 / 22.3

Other elements in 6cbx:

The structure of Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497 also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497 (pdb code 6cbx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497, PDB code: 6cbx:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 1 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:39.1
occ:1.00
 SG A:CYS78 1.9 39.1 1.0
SG A:CYS74 2.4 50.0 1.0
SG A:CYS52 2.4 34.9 1.0
SG A:CYS55 2.5 40.4 1.0
CB A:CYS74 3.2 48.9 1.0
CB A:CYS78 3.2 38.5 1.0
CB A:CYS52 3.3 30.9 1.0
CB A:CYS55 3.5 40.8 1.0
N A:CYS74 3.7 44.5 1.0
CA A:CYS74 4.1 48.1 1.0
N A:CYS55 4.1 39.3 1.0
CA A:CYS55 4.4 37.9 1.0
CA A:CYS78 4.6 40.4 1.0
CB A:TYR54 4.6 36.6 1.0
CA A:CYS52 4.7 34.0 1.0
OG1 A:THR57 4.7 45.7 1.0
CD2 A:TYR54 4.8 35.9 1.0
C A:TYR73 4.9 40.7 1.0

Zinc binding site 2 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 2 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1002

b:27.4
occ:1.00
 SG A:CYS68 2.0 24.2 1.0
NE2 A:HIS86 2.2 23.8 1.0
SG A:CYS65 2.4 30.9 1.0
SG A:CYS90 2.4 25.1 1.0
CB A:CYS68 3.1 30.2 1.0
CD2 A:HIS86 3.1 24.2 1.0
CE1 A:HIS86 3.1 24.2 1.0
CB A:CYS90 3.2 26.7 1.0
CB A:CYS65 3.3 33.4 1.0
N A:CYS68 3.4 31.7 1.0
CA A:CYS68 3.8 29.2 1.0
CA A:CYS90 3.9 25.4 1.0
CB A:ARG67 4.2 30.4 1.0
ND1 A:HIS86 4.2 24.5 1.0
CG A:HIS86 4.3 22.8 1.0
O A:HOH1249 4.4 25.4 1.0
C A:ARG67 4.4 31.3 1.0
CB A:ALA71 4.7 35.1 1.0
CA A:ARG67 4.7 30.8 1.0
C A:CYS68 4.7 32.2 1.0
C A:CYS90 4.7 26.4 1.0
CA A:CYS65 4.8 32.5 1.0
N A:LYS69 4.8 37.5 1.0
N A:ARG67 4.8 31.2 1.0
O A:CYS90 4.9 26.5 1.0
CZ3 A:TRP83 5.0 29.9 1.0

Zinc binding site 3 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 3 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1003

b:24.7
occ:1.00
 SG A:CYS262 2.3 24.8 1.0
SG A:CYS267 2.3 25.7 1.0
SG A:CYS209 2.3 20.4 1.0
SG A:CYS264 2.3 24.8 1.0
CB A:CYS262 3.1 25.6 1.0
CB A:CYS209 3.2 20.8 1.0
CB A:CYS267 3.4 28.6 1.0
CB A:CYS264 3.5 26.3 1.0
N A:CYS209 3.6 20.9 1.0
N A:CYS264 4.0 26.6 1.0
CA A:CYS209 4.0 21.5 1.0
N A:CYS267 4.1 28.5 1.0
NE2 A:HIS207 4.2 20.6 1.0
CA A:CYS264 4.2 26.3 1.0
CA A:CYS267 4.3 29.9 1.0
CA A:CYS262 4.4 25.4 1.0
C A:CYS262 4.5 26.7 1.0
NH2 A:ARG250 4.6 28.2 1.0
C A:SER208 4.7 20.8 1.0
N A:GLU263 4.7 28.1 1.0
CD2 A:HIS207 4.7 20.3 1.0
NE A:ARG250 4.7 25.7 1.0
C A:CYS264 4.8 27.1 1.0
O A:CYS264 4.8 27.7 1.0
CB A:GLU266 4.9 35.6 1.0
O A:CYS262 5.0 27.1 1.0
CA A:SER208 5.0 21.0 1.0

Zinc binding site 4 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 4 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1001

b:25.3
occ:1.00
 SG B:CYS78 2.3 28.5 1.0
SG B:CYS74 2.3 30.8 1.0
SG B:CYS55 2.4 24.1 1.0
SG B:CYS52 2.4 21.6 1.0
CB B:CYS52 3.1 22.2 1.0
CB B:CYS74 3.2 30.5 1.0
CB B:CYS78 3.3 24.6 1.0
CB B:CYS55 3.4 24.9 1.0
N B:CYS74 3.9 27.1 1.0
N B:CYS55 4.0 24.6 1.0
OG1 B:THR57 4.1 31.3 0.5
CA B:CYS74 4.1 31.1 1.0
CA B:CYS55 4.3 24.1 1.0
CG2 B:THR57 4.5 22.2 0.5
CA B:CYS52 4.6 21.9 1.0
CA B:CYS78 4.7 24.9 1.0
CB B:TYR54 4.7 26.8 1.0
C B:CYS55 4.9 23.8 1.0

Zinc binding site 5 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 5 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1002

b:23.5
occ:1.00
 NE2 B:HIS86 2.1 22.2 1.0
SG B:CYS68 2.2 23.2 1.0
SG B:CYS90 2.3 22.3 1.0
SG B:CYS65 2.4 24.7 1.0
CE1 B:HIS86 3.0 20.9 1.0
CD2 B:HIS86 3.1 21.5 1.0
CB B:CYS65 3.2 25.1 1.0
CB B:CYS68 3.2 25.5 1.0
CB B:CYS90 3.2 21.2 1.0
N B:CYS68 3.6 26.5 1.0
CA B:CYS90 3.8 21.9 1.0
CA B:CYS68 4.0 25.4 1.0
CB B:ARG67 4.1 25.9 1.0
ND1 B:HIS86 4.1 20.6 1.0
CG B:HIS86 4.2 20.4 1.0
O B:HOH1257 4.5 29.0 1.0
C B:ARG67 4.5 28.4 1.0
CA B:CYS65 4.6 26.6 1.0
C B:CYS90 4.7 22.8 1.0
CA B:ARG67 4.7 27.2 1.0
N B:ARG67 4.8 27.0 1.0
CB B:ALA71 4.8 24.7 1.0
C B:CYS68 4.9 26.0 1.0
C B:CYS65 4.9 25.3 1.0
O B:CYS90 4.9 22.8 1.0
N B:LYS69 4.9 27.9 1.0
O B:CYS65 4.9 26.5 1.0
CZ3 B:TRP83 4.9 24.9 1.0
CD B:ARG67 5.0 28.2 1.0
N B:CYS90 5.0 21.6 1.0
CG B:ARG67 5.0 28.1 1.0

Zinc binding site 6 out of 6 in 6cbx

Go back to Zinc Binding Sites List in 6cbx
Zinc binding site 6 out of 6 in the Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497


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 Human Set and Mynd Domain Containing Protein 2 with MTF1497 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1003

b:25.9
occ:1.00
 SG B:CYS267 2.3 27.2 1.0
SG B:CYS262 2.3 23.2 1.0
SG B:CYS264 2.3 25.7 1.0
SG B:CYS209 2.4 25.8 1.0
CB B:CYS262 3.1 23.5 1.0
CB B:CYS209 3.2 25.8 1.0
CB B:CYS267 3.3 31.4 1.0
CB B:CYS264 3.4 29.0 1.0
N B:CYS209 3.7 24.5 1.0
N B:CYS264 3.9 29.4 1.0
CA B:CYS209 4.0 24.6 1.0
N B:CYS267 4.0 34.0 1.0
CA B:CYS264 4.2 29.6 1.0
CA B:CYS267 4.2 33.6 1.0
NE2 B:HIS207 4.3 20.6 1.0
CA B:CYS262 4.4 25.3 1.0
C B:CYS262 4.5 27.7 1.0
N B:GLU263 4.5 29.6 1.0
NH2 B:ARG250 4.5 28.2 1.0
C B:SER208 4.8 23.3 1.0
C B:CYS264 4.8 30.8 1.0
NE B:ARG250 4.8 24.9 1.0
CD2 B:HIS207 4.8 20.3 1.0
O B:CYS264 4.8 32.8 1.0

Reference:

H.Zeng, A.Dong, A.Hutchinson, A.Seitova, J.Tatlock, R.Kumpf, A.Owen, A.Taylor, A.Casimiro-Garcia, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu, Structural Genomics Consortium (Sgc). Crystal Structure of Human Set and Mynd Domain Containing Protein 2 with MTF1497 To Be Published.
Page generated: Mon Oct 28 18:39:33 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