Atomistry » Zinc » PDB 3flf-3fuk » 3fpd
Atomistry »
  Zinc »
    PDB 3flf-3fuk »
      3fpd »

Zinc in PDB 3fpd: G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294

Enzymatic activity of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294

All present enzymatic activity of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294:
2.1.1.43;

Protein crystallography data

The structure of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294, PDB code: 3fpd was solved by Y.Chang, X.Zhang, J.R.Horton, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.26 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 75.300, 95.200, 101.700, 90.00, 90.00, 90.00
R / Rfree (%) 22.1 / 26.2

Zinc Binding Sites:

The binding sites of Zinc atom in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 (pdb code 3fpd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294, PDB code: 3fpd:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 1 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1236

b:30.4
occ:1.00
 SG A:CYS1074 2.4 26.8 1.0
SG A:CYS1031 2.4 31.6 1.0
SG A:CYS1044 2.5 30.6 1.0
SG A:CYS1078 2.5 29.6 1.0
CB A:CYS1074 3.2 22.7 1.0
CB A:CYS1031 3.2 29.1 1.0
CB A:CYS1078 3.3 24.8 1.0
CB A:CYS1044 3.4 30.5 1.0
CA A:CYS1074 3.5 24.8 1.0
ZN A:ZN3 3.7 30.2 1.0
ZN A:ZN2 3.7 29.1 1.0
N A:CYS1031 3.7 29.0 1.0
SG A:CYS1080 4.0 31.6 1.0
CA A:CYS1031 4.0 29.7 1.0
SG A:CYS1042 4.3 27.2 1.0
N A:CYS1074 4.5 22.9 1.0
N A:ASN1075 4.5 26.1 1.0
C A:CYS1074 4.6 25.8 1.0
CA A:CYS1078 4.6 25.9 1.0
CA A:CYS1044 4.7 30.7 1.0
N A:CYS1044 4.7 31.0 1.0
SG A:CYS1037 4.8 36.1 1.0
O A:CYS1031 4.8 31.6 1.0
C A:CYS1031 4.8 31.7 1.0
C A:TYR1030 4.8 29.5 1.0
ND2 A:ASN1086 4.9 31.0 1.0

Zinc binding site 2 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 2 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2

b:29.1
occ:1.00
 SG A:CYS1074 2.3 26.8 1.0
SG A:CYS1037 2.3 36.1 1.0
SG A:CYS1084 2.3 22.1 1.0
SG A:CYS1080 2.4 31.6 1.0
CB A:CYS1080 3.0 25.9 1.0
CB A:CYS1084 3.2 24.5 1.0
CB A:CYS1074 3.2 22.7 1.0
CB A:CYS1037 3.5 36.9 1.0
ZN A:ZN3 3.6 30.2 1.0
ZN A:ZN1236 3.7 30.4 1.0
SG A:CYS1031 4.0 31.6 1.0
NH1 A:ARG1087 4.4 18.2 1.0
NE A:ARG1087 4.5 25.4 1.0
CA A:CYS1080 4.5 24.8 1.0
CB A:ASN1086 4.6 30.3 1.0
CA A:CYS1084 4.6 25.5 1.0
CA A:CYS1074 4.7 24.8 1.0
CZ A:ARG1087 4.7 23.8 1.0
CA A:CYS1037 4.9 37.5 1.0
O A:TRP1081 4.9 24.4 1.0
N A:ASN1086 4.9 31.2 1.0
CB A:CYS1078 4.9 24.8 1.0

Zinc binding site 3 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 3 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn3

b:30.2
occ:1.00
 SG A:CYS1037 2.4 36.1 1.0
SG A:CYS1031 2.4 31.6 1.0
SG A:CYS1033 2.5 30.6 1.0
SG A:CYS1042 2.5 27.2 1.0
CB A:CYS1031 3.1 29.1 1.0
CB A:CYS1042 3.3 28.1 1.0
CB A:CYS1037 3.3 36.9 1.0
CB A:CYS1033 3.3 33.0 1.0
ZN A:ZN2 3.6 29.1 1.0
ZN A:ZN1236 3.7 30.4 1.0
SG A:CYS1074 3.9 26.8 1.0
CA A:CYS1042 4.0 29.3 1.0
CA A:CYS1037 4.0 37.5 1.0
N A:CYS1033 4.5 32.9 1.0
CA A:CYS1033 4.5 34.4 1.0
CA A:CYS1031 4.6 29.7 1.0
O A:HOH77 4.6 26.5 1.0
CB A:CYS1080 4.8 25.9 1.0
SG A:CYS1080 4.8 31.6 1.0
C A:CYS1042 4.8 29.3 1.0
N A:CYS1037 4.8 35.8 1.0
O A:HOH15 4.9 34.4 1.0
N A:MET1043 5.0 29.3 1.0
C A:CYS1031 5.0 31.7 1.0

Zinc binding site 4 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 4 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn4

b:48.6
occ:1.00
 SG A:CYS1225 2.4 49.9 1.0
SG A:CYS1172 2.7 47.4 1.0
SG A:CYS1227 2.7 57.8 1.0
SG A:CYS1232 2.7 60.6 1.0
CB A:CYS1227 2.7 56.8 1.0
CB A:CYS1232 3.5 58.9 1.0
CB A:CYS1225 3.7 55.6 1.0
CB A:CYS1172 3.8 42.6 1.0
CA A:CYS1232 3.9 59.0 1.0
CA A:CYS1227 4.0 57.8 1.0
N A:CYS1172 4.0 43.5 1.0
CE1 A:HIS1170 4.1 42.4 1.0
N A:CYS1227 4.2 59.0 1.0
N A:ARG1233 4.3 58.4 1.0
ND1 A:HIS1170 4.4 42.8 1.0
CA A:CYS1172 4.5 42.5 1.0
C A:CYS1227 4.6 57.7 1.0
N A:GLY1228 4.6 58.9 1.0
O A:CYS1225 4.6 55.6 1.0
C A:CYS1232 4.7 59.0 1.0
CB A:SER1229 4.7 58.8 1.0
N A:HIS1234 4.7 60.0 1.0
N A:SER1229 4.8 59.6 1.0
C A:CYS1225 4.8 56.8 1.0
CA A:CYS1225 4.9 56.2 1.0
C A:HIS1171 5.0 44.2 1.0

Zinc binding site 5 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 5 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn5

b:28.6
occ:1.00
 SG B:CYS1074 2.4 27.7 1.0
SG B:CYS1031 2.4 23.4 1.0
SG B:CYS1078 2.4 23.4 1.0
SG B:CYS1044 2.5 28.7 1.0
CB B:CYS1074 3.0 24.5 1.0
CB B:CYS1078 3.2 24.4 1.0
CB B:CYS1031 3.3 26.0 1.0
CB B:CYS1044 3.4 30.7 1.0
CA B:CYS1074 3.5 24.4 1.0
ZN B:ZN7 3.6 27.0 1.0
N B:CYS1031 3.6 28.7 1.0
ZN B:ZN6 3.6 24.1 1.0
SG B:CYS1080 3.9 20.7 1.0
CA B:CYS1031 4.0 27.3 1.0
SG B:CYS1042 4.2 22.7 1.0
N B:CYS1074 4.5 22.9 1.0
N B:ASN1075 4.5 25.4 1.0
CA B:CYS1078 4.6 27.4 1.0
C B:CYS1074 4.6 24.3 1.0
C B:TYR1030 4.6 30.2 1.0
SG B:CYS1037 4.6 25.3 1.0
CA B:CYS1044 4.6 32.9 1.0
N B:CYS1044 4.7 33.7 1.0
CA B:TYR1030 4.8 31.2 1.0
C B:CYS1031 4.8 28.3 1.0
ND2 B:ASN1086 4.9 30.2 1.0
O B:CYS1031 4.9 27.2 1.0

Zinc binding site 6 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 6 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn6

b:24.1
occ:1.00
 SG B:CYS1080 2.3 20.7 1.0
SG B:CYS1084 2.4 22.7 1.0
SG B:CYS1074 2.4 27.7 1.0
SG B:CYS1037 2.4 25.3 1.0
CB B:CYS1074 3.1 24.5 1.0
CB B:CYS1080 3.2 23.3 1.0
CB B:CYS1084 3.3 25.5 1.0
CB B:CYS1037 3.4 25.6 1.0
ZN B:ZN5 3.6 28.6 1.0
ZN B:ZN7 3.8 27.0 1.0
SG B:CYS1031 4.0 23.4 1.0
NH2 B:ARG1087 4.1 38.1 1.0
NE B:ARG1087 4.1 36.1 1.0
CZ B:ARG1087 4.5 37.4 1.0
CB B:ASN1086 4.5 27.1 1.0
CA B:CYS1074 4.5 24.4 1.0
CA B:CYS1080 4.6 26.0 1.0
CA B:CYS1084 4.7 25.7 1.0
O B:TRP1081 4.8 31.9 1.0
CA B:CYS1037 4.8 29.2 1.0
CB B:CYS1078 4.9 24.4 1.0
N B:ASN1086 4.9 28.1 1.0

Zinc binding site 7 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 7 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn7

b:27.0
occ:1.00
 SG B:CYS1031 2.4 23.4 1.0
SG B:CYS1042 2.4 22.7 1.0
SG B:CYS1037 2.5 25.3 1.0
SG B:CYS1033 2.5 28.4 1.0
CB B:CYS1031 2.9 26.0 1.0
CB B:CYS1042 3.2 24.1 1.0
CB B:CYS1037 3.3 25.6 1.0
CB B:CYS1033 3.3 29.4 1.0
ZN B:ZN5 3.6 28.6 1.0
CA B:CYS1042 3.8 26.7 1.0
ZN B:ZN6 3.8 24.1 1.0
SG B:CYS1074 4.0 27.7 1.0
CA B:CYS1037 4.0 29.2 1.0
CA B:CYS1031 4.4 27.3 1.0
N B:CYS1033 4.4 28.1 1.0
CA B:CYS1033 4.5 28.9 1.0
C B:CYS1042 4.5 28.6 1.0
O B:HOH59 4.5 22.5 1.0
N B:MET1043 4.7 30.5 1.0
SG B:CYS1080 4.7 20.7 1.0
CB B:CYS1080 4.8 23.3 1.0
N B:CYS1037 4.8 30.4 1.0
C B:CYS1031 4.9 28.3 1.0
CB B:CYS1044 4.9 30.7 1.0
N B:CYS1042 5.0 26.6 1.0

Zinc binding site 8 out of 8 in 3fpd

Go back to Zinc Binding Sites List in 3fpd
Zinc binding site 8 out of 8 in the G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of G9A-Like Protein Lysine Methyltransferase Inhibition By Bix- 01294 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn8

b:36.7
occ:1.00
 SG B:CYS1172 2.3 32.3 1.0
SG B:CYS1227 2.4 38.0 1.0
SG B:CYS1225 2.4 46.2 1.0
SG B:CYS1232 2.6 50.9 1.0
CB B:CYS1232 3.3 44.4 1.0
CB B:CYS1225 3.4 46.2 1.0
CB B:CYS1227 3.5 41.1 1.0
CB B:CYS1172 3.5 34.1 1.0
CA B:CYS1232 3.7 44.0 1.0
N B:CYS1172 4.0 35.9 1.0
N B:CYS1227 4.2 42.6 1.0
N B:ARG1233 4.2 43.3 1.0
CE1 B:HIS1170 4.3 36.1 1.0
CA B:CYS1227 4.4 42.2 1.0
CA B:CYS1172 4.4 36.0 1.0
C B:CYS1232 4.4 44.1 1.0
ND1 B:HIS1170 4.5 37.0 1.0
N B:HIS1234 4.5 44.9 1.0
CA B:CYS1225 4.7 46.5 1.0
N B:GLY1228 4.9 42.9 1.0
C B:CYS1225 4.9 45.1 1.0
N B:ARG1226 4.9 43.5 1.0
N B:CYS1232 5.0 43.4 1.0

Reference:

Y.Chang, X.Zhang, J.R.Horton, A.K.Upadhyay, A.Spannhoff, J.Liu, J.P.Snyder, M.T.Bedford, X.Cheng. Structural Basis For G9A-Like Protein Lysine Methyltransferase Inhibition By Bix-01294. Nat.Struct.Mol.Biol. V. 16 312 2009.
ISSN: ISSN 1545-9993
PubMed: 19219047
DOI: 10.1038/NSMB.1560
Page generated: Thu Oct 24 13:21:18 2024

Last articles

Mg in 3T2C
Mg in 3T2B
Mg in 3T1R
Mg in 3T1O
Mg in 3T0D
Mg in 3T1Q
Mg in 3T12
Mg in 3T1K
Mg in 3T10
Mg in 3T0Z
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy