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Manganese in PDB 6i9l: Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca)

Enzymatic activity of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca)

All present enzymatic activity of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca):
1.14.11.27;

Protein crystallography data

The structure of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca), PDB code: 6i9l was solved by R.Chowdhury, M.S.Islam, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.84 / 1.53
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.591, 64.809, 77.914, 90.00, 90.00, 90.00
R / Rfree (%) 14.6 / 16.4

Manganese Binding Sites:

The binding sites of Manganese atom in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca) (pdb code 6i9l). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca), PDB code: 6i9l:

Manganese binding site 1 out of 1 in 6i9l

Go back to Manganese Binding Sites List in 6i9l
Manganese binding site 1 out of 1 in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn501

b:7.3
occ:1.00
 OD2 A:ASP323 2.2 8.3 1.0
O A:HOH664 2.2 10.3 1.0
O21 A:PD2502 2.2 8.6 1.0
N1 A:PD2502 2.2 7.3 1.0
NE2 A:HIS400 2.3 7.3 1.0
NE2 A:HIS321 2.3 9.7 1.0
C21 A:PD2502 3.0 9.7 1.0
C2 A:PD2502 3.0 6.8 1.0
CE1 A:HIS400 3.2 7.1 1.0
CG A:ASP323 3.2 10.1 1.0
CE1 A:HIS321 3.2 9.1 1.0
C6 A:PD2502 3.2 10.2 1.0
HE1 A:HIS400 3.3 8.5 1.0
CD2 A:HIS321 3.3 8.9 1.0
H6 A:PD2502 3.3 12.2 1.0
CD2 A:HIS400 3.3 6.7 1.0
HE1 A:HIS321 3.4 10.9 1.0
HD2 A:HIS321 3.5 10.6 1.0
OD1 A:ASP323 3.5 11.0 1.0
HZ2 A:TRP414 3.5 12.9 1.0
HD2 A:HIS400 3.5 8.0 1.0
O A:HOH674 3.9 14.8 1.0
HE1 A:TRP414 4.1 13.1 1.0
O22 A:PD2502 4.2 10.8 1.0
CZ2 A:TRP414 4.3 10.8 1.0
ND1 A:HIS400 4.3 6.1 1.0
ND1 A:HIS321 4.4 9.0 1.0
HD22 A:ASN327 4.4 10.5 1.0
C3 A:PD2502 4.4 6.6 1.0
O A:HOH807 4.4 19.1 1.0
CG A:HIS400 4.4 5.2 1.0
CG A:HIS321 4.4 8.3 1.0
CB A:ASP323 4.5 8.5 1.0
C5 A:PD2502 4.5 8.4 1.0
HB2 A:ASP323 4.6 10.2 1.0
HH2 A:TRP310 4.7 10.7 1.0
NE1 A:TRP414 4.7 10.9 1.0
HD21 A:ASN327 4.8 10.5 1.0
HZ2 A:TRP310 4.8 10.1 1.0
CE2 A:TRP414 4.8 8.5 1.0
ND2 A:ASN327 4.9 8.8 1.0
C4 A:PD2502 5.0 6.3 1.0

Reference:

S.Islam, C.J.Schofield, R.Chowdhury. Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and Pyridine-2,4-Dicarboxylic Acid (2,4-Pdca) To Be Published.
Page generated: Sun Oct 6 04:52:56 2024

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