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Calcium in PDB 4m0k: Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.

Enzymatic activity of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.

All present enzymatic activity of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.:
2.4.2.7;

Protein crystallography data

The structure of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775., PDB code: 4m0k was solved by V.N.Malashkevich, R.Bhosle, R.Toro, B.Hillerich, A.Gizzi, S.Garforth, A.Kar, M.K.Chan, J.Lafluer, H.Patel, B.Matikainen, S.Chamala, S.Lim, A.Celikgil, G.Villegas, B.Evans, J.Love, A.Fiser, K.Khafizov, R.Seidel, J.B.Bonanno, S.C.Almo, New York Structural Genomics Researchconsortium (Nysgrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.40
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 40.214, 64.609, 73.148, 87.30, 77.23, 85.37
R / Rfree (%) 18.4 / 20.9

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. (pdb code 4m0k). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775., PDB code: 4m0k:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4m0k

Go back to Calcium Binding Sites List in 4m0k
Calcium binding site 1 out of 4 in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:38.9
occ:1.00
 O A:HOH522 2.3 34.0 1.0
O A:HOH521 2.4 33.7 1.0
O A:HOH474 2.4 33.3 1.0
O A:HOH472 2.5 28.7 1.0
OD1 A:ASP77 2.5 21.1 1.0
OD2 A:ASP77 2.7 19.1 1.0
CG A:ASP77 3.0 19.2 1.0
O A:HOH475 3.9 30.5 1.0
CB A:ASP77 4.5 17.6 1.0
O A:HIS75 4.5 17.2 1.0
O A:HIS74 4.6 17.4 1.0
N A:ASP77 4.9 15.8 1.0

Calcium binding site 2 out of 4 in 4m0k

Go back to Calcium Binding Sites List in 4m0k
Calcium binding site 2 out of 4 in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:30.6
occ:1.00
 O B:HOH544 2.3 41.0 1.0
O B:HOH466 2.3 30.2 1.0
O B:HOH478 2.3 35.5 1.0
O B:HOH456 2.5 22.6 1.0
O B:HOH495 2.5 35.4 1.0
O B:HOH548 3.0 60.1 1.0
O B:LEU89 4.2 15.2 1.0
O B:HOH535 4.4 43.8 1.0
O B:HOH546 4.5 37.0 1.0
OG1 B:THR93 4.6 17.0 1.0
O B:TYR91 4.6 16.4 1.0
CA B:GLY87 4.7 18.1 1.0
O B:HOH503 4.7 29.9 1.0
OE1 B:GLU108 4.8 21.7 1.0

Calcium binding site 3 out of 4 in 4m0k

Go back to Calcium Binding Sites List in 4m0k
Calcium binding site 3 out of 4 in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca202

b:20.4
occ:1.00
 OE1 B:GLN11 2.3 19.9 1.0
OE2 C:GLU134 2.4 20.4 1.0
O C:HOH368 2.4 25.3 1.0
O C:HOH331 2.4 23.6 1.0
O B:HOH409 2.5 21.8 1.0
O B:HOH437 2.5 25.4 1.0
OE1 C:GLU134 2.8 18.4 1.0
CD C:GLU134 2.9 18.7 1.0
CD B:GLN11 3.5 19.9 1.0
NH2 C:ARG138 4.0 18.4 1.0
O C:HOH463 4.2 39.8 1.0
NE2 B:GLN11 4.3 19.8 1.0
CG C:GLU134 4.4 17.1 1.0
O C:ARG164 4.5 20.2 1.0
CG B:GLN11 4.5 19.8 1.0
CB B:GLN11 4.5 19.8 1.0
O C:HOH320 4.6 22.1 1.0
NE C:ARG164 4.7 22.2 1.0
O B:GLN11 4.7 19.5 1.0
CG C:ARG164 4.8 22.1 1.0
O C:HOH394 4.8 19.4 1.0
O C:HOH322 4.9 17.4 1.0
CA B:GLN11 5.0 19.3 1.0

Calcium binding site 4 out of 4 in 4m0k

Go back to Calcium Binding Sites List in 4m0k
Calcium binding site 4 out of 4 in the Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca301

b:19.0
occ:1.00
 OE1 D:GLN11 2.3 18.0 1.0
O D:HOH498 2.3 24.8 1.0
O D:HOH464 2.4 19.5 1.0
O D:HOH496 2.4 20.8 1.0
O D:HOH427 2.5 20.4 1.0
CD D:GLN11 3.5 17.1 1.0
NE2 D:GLN11 4.4 16.7 1.0
CB D:GLN11 4.5 16.8 1.0
CG D:GLN11 4.5 17.5 1.0
O D:GLN11 4.7 18.1 1.0
CA D:GLN11 4.9 16.5 1.0

Reference:

V.N.Malashkevich, R.Bhosle, R.Toro, B.Hillerich, A.Gizzi, S.Garforth, A.Kar, M.K.Chan, J.Lafluer, H.Patel, B.Matikainen, S.Chamala, S.Lim, A.Celikgil, G.Villegas, B.Evans, J.Love, A.Fiser, K.Khafizov, R.Seidel, J.B.Bonanno, S.C.Almo. Crystal Structure of Adenine Phosphoribosyltransferase From Rhodothermus Marinus Dsm 4252, Nysgrc Target 029775. To Be Published.
Page generated: Wed Jul 9 00:03:06 2025

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