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Magnesium in PDB 4cns: Crystal Structure of Truncated Human Crmp-4

Protein crystallography data

The structure of Crystal Structure of Truncated Human Crmp-4, PDB code: 4cns was solved by R.Ponnusamy, B.Lohkamp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.99 / 2.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 86.400, 89.620, 133.100, 90.00, 101.40, 90.00
R / Rfree (%) 18.904 / 22.581

Other elements in 4cns:

The structure of Crystal Structure of Truncated Human Crmp-4 also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Truncated Human Crmp-4 (pdb code 4cns). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Crystal Structure of Truncated Human Crmp-4, PDB code: 4cns:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 4cns

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Magnesium binding site 1 out of 5 in the Crystal Structure of Truncated Human Crmp-4


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 Truncated Human Crmp-4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1494

b:37.9
occ:1.00
O A:ASP128 2.6 19.3 1.0
O A:GLY464 2.7 18.7 1.0
O A:GLY466 2.8 21.6 1.0
C A:ASP128 3.5 17.8 1.0
CA A:ASP128 3.6 17.2 1.0
CB A:ASP128 3.9 16.9 1.0
C A:GLY464 3.9 18.0 1.0
C A:GLY466 4.0 19.4 1.0
CG A:ASP128 4.4 16.5 1.0
CA A:GLY464 4.5 17.8 1.0
OD1 A:ASP128 4.6 15.6 1.0
N A:GLY129 4.7 17.7 1.0
C A:ALA465 4.7 18.3 1.0
N A:GLY466 4.8 18.4 1.0
O A:ALA465 4.8 17.6 1.0
CA A:ARG467 4.8 19.7 1.0
N A:ARG467 4.9 19.4 1.0
N A:ALA465 4.9 17.8 1.0
CA A:GLY466 5.0 19.0 1.0

Magnesium binding site 2 out of 5 in 4cns

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Magnesium binding site 2 out of 5 in the Crystal Structure of Truncated Human Crmp-4


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 Truncated Human Crmp-4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1495

b:24.2
occ:1.00
OG1 A:THR303 2.1 17.1 1.0
O A:HOH2103 2.5 14.6 1.0
O A:HOH2119 2.9 12.7 1.0
CE A:LYS254 3.0 17.0 1.0
CB A:THR303 3.3 16.6 1.0
CG2 A:THR303 3.5 16.8 1.0
CD1 A:ILE279 3.6 10.8 1.0
NZ A:LYS254 3.8 17.9 1.0
CB A:ALA332 4.0 11.8 1.0
CD A:LYS254 4.3 15.8 1.0
O A:SER304 4.3 11.8 1.0
N A:SER304 4.4 13.9 1.0
CA A:THR303 4.5 15.9 1.0
CG A:LYS254 4.5 15.2 1.0
C A:THR303 4.7 14.5 1.0
O A:ALA332 4.7 14.2 1.0
O A:PRO305 4.8 11.5 1.0
C A:SER304 4.8 11.8 1.0
OG1 A:THR355 4.9 13.2 1.0

Magnesium binding site 3 out of 5 in 4cns

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Magnesium binding site 3 out of 5 in the Crystal Structure of Truncated Human Crmp-4


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 Truncated Human Crmp-4 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1490

b:29.3
occ:1.00
O B:GLY464 2.1 20.6 1.0
O B:ASP128 2.2 23.2 1.0
O B:GLY466 2.3 20.3 1.0
O B:HOH2037 2.3 6.0 1.0
C B:GLY464 3.1 21.9 1.0
C B:ASP128 3.2 21.8 1.0
C B:GLY466 3.4 20.8 1.0
CA B:ASP128 3.5 22.3 1.0
CA B:GLY464 3.7 23.3 1.0
N B:GLY466 4.0 20.4 1.0
C B:ALA465 4.1 20.9 1.0
CA B:GLY466 4.2 20.5 1.0
N B:ALA465 4.2 21.1 1.0
CB B:ASP128 4.2 21.9 1.0
O B:ALA127 4.4 22.1 1.0
O B:ALA465 4.4 20.3 1.0
N B:GLY129 4.4 21.1 1.0
N B:ARG467 4.5 21.4 1.0
CA B:ALA465 4.5 21.1 1.0
O B:SER131 4.7 18.8 1.0
N B:ASP128 4.7 21.6 1.0
OD1 B:ASP128 4.8 22.0 1.0
CA B:ARG467 4.8 22.3 1.0
CG B:ASP128 4.8 21.7 1.0

Magnesium binding site 4 out of 5 in 4cns

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Magnesium binding site 4 out of 5 in the Crystal Structure of Truncated Human Crmp-4


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 Truncated Human Crmp-4 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1491

b:37.4
occ:1.00
O C:GLY464 2.3 23.6 1.0
O C:ASP128 2.5 26.3 1.0
O C:GLY466 2.7 28.9 1.0
C C:GLY464 3.4 23.4 1.0
C C:ASP128 3.4 25.4 1.0
CA C:ASP128 3.8 24.3 1.0
C C:GLY466 3.9 26.7 1.0
CA C:GLY464 4.1 23.4 1.0
CB C:ASP128 4.1 24.9 1.0
C C:ALA465 4.4 24.9 1.0
N C:ALA465 4.5 23.9 1.0
N C:GLY466 4.5 25.4 1.0
O C:ALA465 4.6 26.6 1.0
N C:GLY129 4.6 25.5 1.0
CA C:ALA465 4.7 23.8 1.0
CA C:GLY466 4.8 25.4 1.0
CG C:ASP128 4.8 24.3 1.0
OD1 C:ASP128 4.9 25.0 1.0
N C:ARG467 4.9 27.5 1.0

Magnesium binding site 5 out of 5 in 4cns

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Magnesium binding site 5 out of 5 in the Crystal Structure of Truncated Human Crmp-4


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 Truncated Human Crmp-4 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1491

b:23.6
occ:1.00
O D:ASP128 2.3 12.9 1.0
O D:GLY464 2.3 14.2 1.0
O D:GLY466 2.7 14.7 1.0
C D:ASP128 3.3 13.5 1.0
C D:GLY464 3.4 12.7 1.0
CA D:ASP128 3.6 13.7 1.0
C D:GLY466 4.0 14.3 1.0
CA D:GLY464 4.1 12.8 1.0
CB D:ASP128 4.1 14.0 1.0
C D:ALA465 4.4 12.8 1.0
N D:GLY466 4.5 13.1 1.0
N D:ALA465 4.5 12.6 1.0
N D:GLY129 4.5 13.6 1.0
O D:ALA465 4.7 12.5 1.0
CA D:GLY466 4.8 13.5 1.0
CA D:ALA465 4.8 12.9 1.0
CG D:ASP128 4.8 13.5 1.0
OD1 D:ASP128 4.8 13.1 1.0
O D:ALA127 4.8 13.1 1.0
N D:ARG467 4.9 15.1 1.0
N D:ASP128 5.0 14.0 1.0

Reference:

R.Ponnusamy, A.Lebedev, S.Pahlow, B.Lohkamp. Crystal Structure of Human Crmp-4: Correction of Intensities For Lattice-Translocation Disorder Acta Crystallogr.,Sect.D V. 70 1680 2014.
ISSN: ISSN 0907-4449
PubMed: 24914979
DOI: 10.1107/S1399004714006634
Page generated: Mon Dec 14 11:41:30 2020

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