Zinc in PDB 6cko: Crystal Structure of An AF10 Fragment

Enzymatic activity of Crystal Structure of An AF10 Fragment

All present enzymatic activity of Crystal Structure of An AF10 Fragment:
2.1.1.43;

Protein crystallography data

The structure of Crystal Structure of An AF10 Fragment, PDB code: 6cko was solved by H.Zhang, W.Tempel, C.Bountra, C.H.Arrowsmith, A.M.Edwards, J.Min, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.70 / 2.00
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 101.701, 122.558, 65.404, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 23.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of An AF10 Fragment (pdb code 6cko). 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 An AF10 Fragment, PDB code: 6cko:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 6cko

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Zinc binding site 1 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn801

b:36.5
occ:1.00
 OE2 A:GLU774 2.0 36.0 1.0
NE2 C:HIS574 2.1 39.6 1.0
UNK A:UNX806 2.1 23.0 1.0
CD A:GLU774 2.7 34.5 1.0
OE1 A:GLU774 2.7 33.8 1.0
CE1 C:HIS574 3.0 41.2 1.0
CD2 C:HIS574 3.1 37.7 1.0
CD2 C:LEU578 4.1 32.9 1.0
CG A:GLU774 4.1 32.8 1.0
ND1 C:HIS574 4.2 40.1 1.0
CG C:HIS574 4.2 37.8 1.0
CD1 C:LEU578 4.2 31.1 1.0
ND2 A:ASN770 4.6 32.1 1.0
CG C:LEU578 4.7 31.3 1.0

Zinc binding site 2 out of 8 in 6cko

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Zinc binding site 2 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn802

b:40.2
occ:1.00
 NE2 A:HIS764 2.0 43.6 1.0
OE1 A:GLU737 2.1 57.6 1.0
OE2 A:GLU737 2.1 62.4 1.0
UNK A:UNX804 2.1 37.5 1.0
UNK A:UNX805 2.1 22.2 1.0
CD A:GLU737 2.4 56.3 1.0
CD2 A:HIS764 2.9 41.4 1.0
CE1 A:HIS764 3.0 42.2 1.0
CG A:GLU737 3.9 55.8 1.0
ND1 A:HIS764 4.1 39.9 1.0
CG A:HIS764 4.1 39.6 1.0
CD1 A:TRP740 4.2 49.2 1.0
CG2 A:VAL768 4.3 36.6 1.0
NE1 A:TRP740 4.6 51.2 1.0
CB A:GLU737 4.8 53.2 1.0

Zinc binding site 3 out of 8 in 6cko

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Zinc binding site 3 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn803

b:61.5
occ:0.70
 UNK A:UNX810 2.1 39.9 1.0
OE1 A:GLU775 2.1 55.3 1.0
UNK A:UNX809 2.1 45.2 1.0
CD A:GLU775 3.3 49.5 1.0
OE2 A:GLU775 4.0 54.9 1.0
CB A:GLU775 4.4 37.3 1.0
CG A:GLU775 4.4 43.1 1.0

Zinc binding site 4 out of 8 in 6cko

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Zinc binding site 4 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn801

b:41.3
occ:1.00
 OE2 B:GLU774 2.0 52.1 1.0
NE2 D:HIS574 2.0 46.3 1.0
UNK B:UNX804 2.1 25.3 1.0
CD B:GLU774 3.0 47.0 1.0
CE1 D:HIS574 3.0 47.1 1.0
CD2 D:HIS574 3.0 46.2 1.0
CG B:GLU774 3.3 44.6 1.0
ND1 D:HIS574 4.1 43.8 1.0
OE1 B:GLU774 4.1 48.4 1.0
CG D:HIS574 4.2 43.0 1.0
CD1 D:LEU578 4.3 42.2 1.0
CB B:GLU774 4.8 42.6 1.0
O B:HOH905 4.9 48.0 1.0
CB B:ASN770 5.0 42.3 1.0

Zinc binding site 5 out of 8 in 6cko

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Zinc binding site 5 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn802

b:55.2
occ:1.00
 NE2 B:HIS764 1.9 60.9 1.0
OE1 B:GLU737 2.0 75.9 1.0
UNK B:UNX805 2.1 46.0 1.0
UNK B:UNX806 2.1 46.9 1.0
OE2 B:GLU737 2.5 66.0 1.0
CD B:GLU737 2.6 67.0 1.0
CE1 B:HIS764 2.9 58.6 1.0
CD2 B:HIS764 2.9 57.6 1.0
ND1 B:HIS764 4.0 54.0 1.0
CG B:GLU737 4.0 65.3 1.0
CG B:HIS764 4.1 53.0 1.0
CD1 B:TRP740 4.1 57.4 1.0
NE1 B:TRP740 4.3 58.3 1.0
CG2 B:VAL768 4.4 47.7 1.0
CG B:GLN765 4.9 57.3 1.0
CG B:TRP740 4.9 56.3 1.0

Zinc binding site 6 out of 8 in 6cko

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Zinc binding site 6 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn803

b:74.1
occ:0.70
 OE1 B:GLU733 2.0 88.8 1.0
CD B:GLU733 3.0 76.5 1.0
OE2 B:GLU733 3.3 76.1 1.0
CG B:GLU775 4.1 58.7 1.0
CG B:GLU733 4.3 73.3 1.0
CD B:GLU775 4.7 64.6 1.0
OE1 B:GLU775 4.9 68.2 1.0

Zinc binding site 7 out of 8 in 6cko

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Zinc binding site 7 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn2001

b:29.0
occ:1.00
 OE2 C:GLU591 1.9 32.5 1.0
NE2 C:HIS587 2.0 32.6 1.0
UNK C:UNX2002 2.1 15.4 1.0
CD C:GLU591 2.9 33.6 1.0
CE1 C:HIS587 2.9 33.0 1.0
CD2 C:HIS587 3.0 30.2 1.0
CG C:GLU591 3.3 31.7 1.0
OE1 C:GLU591 4.0 36.1 1.0
ND1 C:HIS587 4.1 31.2 1.0
CG C:HIS587 4.2 30.1 1.0
CB C:GLU591 4.8 31.2 1.0

Zinc binding site 8 out of 8 in 6cko

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Zinc binding site 8 out of 8 in the Crystal Structure of An AF10 Fragment


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 An AF10 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:41.7
occ:1.00
 NE2 D:HIS587 2.0 50.6 1.0
UNK D:UNX2005 2.1 34.5 1.0
UNK D:UNX2004 2.1 30.6 1.0
CD2 D:HIS587 3.0 45.3 1.0
CE1 D:HIS587 3.0 49.2 1.0
ND1 D:HIS587 4.1 45.3 1.0
CG D:HIS587 4.1 42.8 1.0
OE2 D:GLU591 4.7 49.8 1.0
CG D:GLU591 4.7 42.9 1.0
CD D:GLU591 4.8 46.0 1.0

Reference:

H.Zhang, B.Zhou, S.Qin, J.Xu, R.Harding, W.Tempel, V.Nayak, Y.Li, P.Loppnau, Y.Dou, J.Min. Structural and Functional Analysis of the DOT1L-AF10 Complex Reveals Mechanistic Insights Into Mll-AF10-Associated Leukemogenesis. Genes Dev. V. 32 341 2018.
ISSN: ISSN 1549-5477
PubMed: 29563185
DOI: 10.1101/GAD.311639.118
Page generated: Wed Dec 16 11:36:53 2020

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