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Magnesium in PDB 2a07: Crystal Structure of FOXP2 Bound Specifically to Dna.

Protein crystallography data

The structure of Crystal Structure of FOXP2 Bound Specifically to Dna., PDB code: 2a07 was solved by J.C.Stroud, Y.Wu, D.L.Bates, A.Han, K.Nowick, S.Paabo, H.Tong, L.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 67.542, 124.210, 67.666, 90.00, 110.81, 90.00
R / Rfree (%) 22.2 / 24.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of FOXP2 Bound Specifically to Dna. (pdb code 2a07). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of FOXP2 Bound Specifically to Dna., PDB code: 2a07:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 2a07

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Magnesium binding site 1 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg601

b:69.3
occ:1.00
 O F:SER557 2.6 42.3 1.0
O F:HOH613 2.8 54.9 1.0
C F:SER557 2.8 42.0 1.0
C F:LEU558 2.9 44.1 1.0
O F:LEU558 3.0 44.1 1.0
N F:LEU558 3.2 43.4 1.0
CA F:LEU558 3.3 43.8 1.0
N F:HIS559 3.4 44.9 1.0
O F:HIS559 3.5 47.9 1.0
C F:HIS559 3.6 47.8 1.0
CA F:SER557 3.7 41.0 1.0
O F:LEU556 4.0 36.4 1.0
CA F:HIS559 4.0 46.7 1.0
N F:LYS560 4.1 48.4 1.0
CA F:LYS560 4.5 49.0 1.0
N F:SER557 4.5 38.0 1.0
C F:LEU556 4.6 36.1 1.0
CB F:LEU558 4.8 43.3 1.0
CG F:LYS560 4.9 54.6 1.0
CB F:SER557 4.9 41.0 1.0

Magnesium binding site 2 out of 6 in 2a07

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Magnesium binding site 2 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg604

b:34.8
occ:1.00
 O G:LEU556 2.4 28.1 1.0
O G:PHE562 2.4 30.4 1.0
O G:HIS559 2.4 27.7 1.0
C G:HIS559 3.4 30.1 1.0
C G:PHE562 3.6 32.0 1.0
C G:LEU556 3.6 27.7 1.0
CA G:LYS560 4.0 33.2 1.0
O G:SER557 4.1 30.4 1.0
C G:SER557 4.1 28.9 1.0
N G:LYS560 4.1 31.3 1.0
CA G:SER557 4.1 29.2 1.0
CB G:PHE562 4.1 27.3 1.0
CA G:PHE562 4.2 30.0 1.0
N G:PHE562 4.3 28.9 1.0
CZ3 G:TRP573 4.3 34.0 1.0
N G:SER557 4.3 27.9 1.0
C G:LYS560 4.4 32.0 1.0
N G:HIS559 4.4 27.1 1.0
O G:LYS560 4.5 33.4 1.0
CA G:HIS559 4.5 29.0 1.0
O G:HOH623 4.6 52.0 1.0
N G:VAL563 4.7 33.5 1.0
CA G:LEU556 4.7 25.7 1.0
N G:LEU558 4.7 26.5 1.0
C G:LEU558 4.8 27.9 1.0
O G:ASN555 4.9 24.7 1.0
CA G:VAL563 4.9 35.6 1.0

Magnesium binding site 3 out of 6 in 2a07

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Magnesium binding site 3 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg602

b:38.7
occ:1.00
 O H:HIS559 2.5 27.9 1.0
O H:PHE562 2.6 34.6 1.0
O H:LEU556 2.6 26.0 1.0
O H:HOH397 2.7 60.4 1.0
C H:HIS559 3.4 31.1 1.0
C H:PHE562 3.7 36.9 1.0
C H:LEU556 3.8 26.7 1.0
CA H:LYS560 3.9 35.9 1.0
N H:LYS560 4.0 32.6 1.0
O H:SER557 4.1 30.2 1.0
C H:SER557 4.1 28.9 1.0
CA H:SER557 4.2 29.5 1.0
CB H:PHE562 4.2 31.0 1.0
N H:PHE562 4.3 32.6 1.0
C H:LYS560 4.3 34.9 1.0
CA H:PHE562 4.3 33.7 1.0
N H:HIS559 4.3 28.1 1.0
CZ3 H:TRP573 4.4 37.4 1.0
CA H:HIS559 4.4 29.6 1.0
N H:SER557 4.5 26.5 1.0
O H:LYS560 4.5 36.6 1.0
N H:LEU558 4.7 27.2 1.0
C H:LEU558 4.7 28.8 1.0
O H:HOH329 4.8 62.3 1.0
N H:VAL563 4.8 39.8 1.0
CA H:LEU556 4.9 24.5 1.0
O H:HOH334 5.0 72.3 1.0

Magnesium binding site 4 out of 6 in 2a07

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Magnesium binding site 4 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg603

b:82.8
occ:1.00
 O I:SER557 3.1 49.9 1.0
O I:HIS559 3.1 58.9 1.0
C I:LEU558 3.2 55.2 1.0
C I:SER557 3.2 49.2 1.0
O I:LEU558 3.3 54.9 1.0
C I:HIS559 3.3 59.1 1.0
N I:LEU558 3.5 51.9 1.0
N I:HIS559 3.5 56.3 1.0
CA I:LEU558 3.7 54.1 1.0
N I:LYS560 3.8 59.8 1.0
O I:LEU556 3.8 40.7 1.0
CA I:SER557 3.9 47.1 1.0
CA I:HIS559 3.9 58.2 1.0
CA I:LYS560 4.1 59.9 1.0
C I:LEU556 4.6 40.3 1.0
N I:SER557 4.6 43.2 1.0
CG I:LYS560 4.7 66.1 1.0
O I:PHE562 4.9 59.4 1.0
CB I:LYS560 5.0 62.6 1.0

Magnesium binding site 5 out of 6 in 2a07

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Magnesium binding site 5 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg605

b:18.9
occ:1.00
 O J:LEU556 2.3 13.9 1.0
O J:PHE562 2.4 17.0 1.0
O J:HIS559 2.4 17.0 1.0
O J:HOH673 2.6 29.8 1.0
O J:SER557 3.2 18.0 1.0
C J:HIS559 3.4 18.9 1.0
C J:LEU556 3.4 15.0 1.0
C J:PHE562 3.5 19.0 1.0
C J:SER557 3.6 17.8 1.0
CA J:SER557 3.8 18.6 1.0
CB J:PHE562 3.9 16.3 1.0
CA J:PHE562 4.1 18.4 1.0
O J:HOH678 4.1 57.6 1.0
N J:SER557 4.1 15.8 1.0
N J:PHE562 4.1 18.2 1.0
O J:HOH615 4.1 20.9 1.0
CZ3 J:TRP573 4.2 14.9 1.0
N J:LYS560 4.2 18.9 1.0
CA J:LYS560 4.2 23.5 1.0
N J:HIS559 4.2 16.8 1.0
CA J:HIS559 4.4 17.7 1.0
O J:HOH682 4.5 59.3 1.0
C J:LYS560 4.5 23.5 1.0
N J:LEU558 4.5 17.0 1.0
CA J:LEU556 4.6 13.5 1.0
C J:LEU558 4.6 17.0 1.0
N J:VAL563 4.6 18.1 1.0
O J:LYS560 4.7 24.0 1.0
O J:ASN555 4.8 11.3 1.0
CH2 J:TRP573 4.9 13.5 1.0
O J:HOH655 4.9 65.1 1.0
CA J:VAL563 5.0 19.7 1.0

Magnesium binding site 6 out of 6 in 2a07

Go back to Magnesium Binding Sites List in 2a07
Magnesium binding site 6 out of 6 in the Crystal Structure of FOXP2 Bound Specifically to Dna.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of FOXP2 Bound Specifically to Dna. within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg606

b:21.9
occ:1.00
 O K:LEU556 2.3 12.9 1.0
O K:PHE562 2.4 16.4 1.0
O K:HIS559 2.5 17.4 1.0
O K:HOH645 2.6 40.2 1.0
O D:HOH24 2.7 17.1 1.0
O K:SER557 3.1 19.3 1.0
C K:HIS559 3.4 19.2 1.0
C K:LEU556 3.5 15.1 1.0
C K:SER557 3.5 17.8 1.0
C K:PHE562 3.5 19.3 1.0
CA K:SER557 3.7 18.6 1.0
CB K:PHE562 4.0 16.7 1.0
N K:SER557 4.1 15.9 1.0
O K:HOH663 4.1 61.5 1.0
CA K:PHE562 4.1 18.8 1.0
N K:PHE562 4.1 18.9 1.0
N K:LYS560 4.2 19.9 1.0
CA K:LYS560 4.2 24.2 1.0
O K:HOH610 4.2 16.9 1.0
N K:HIS559 4.2 15.7 1.0
CZ3 K:TRP573 4.3 14.5 1.0
CA K:HIS559 4.4 17.7 1.0
C K:LYS560 4.5 23.5 1.0
N K:LEU558 4.5 16.4 1.0
O K:HOH671 4.5 57.0 1.0
C K:LEU558 4.6 16.0 1.0
CA K:LEU556 4.6 13.1 1.0
O K:LYS560 4.7 24.6 1.0
N K:VAL563 4.7 17.8 1.0
O K:ASN555 4.8 11.1 1.0
O K:HOH662 4.9 73.5 1.0
CH2 K:TRP573 4.9 13.2 1.0

Reference:

J.C.Stroud, Y.Wu, D.L.Bates, A.Han, K.Nowick, S.Paabo, H.Tong, L.Chen. Structure of the Forkhead Domain of FOXP2 Bound to Dna. Structure V. 14 159 2006.
ISSN: ISSN 0969-2126
PubMed: 16407075
DOI: 10.1016/J.STR.2005.10.005
Page generated: Tue Aug 13 20:20:00 2024

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