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Calcium in PDB 7pc7: The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten

Enzymatic activity of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten

All present enzymatic activity of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten:
3.1.3.16; 3.1.3.48; 3.1.3.67;

Protein crystallography data

The structure of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten, PDB code: 7pc7 was solved by A.Cousido-Siah, G.Trave, G.Gogl, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.69 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.31, 61.74, 285.39, 90, 90, 90
R / Rfree (%) 18.5 / 21.8

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten (pdb code 7pc7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten, PDB code: 7pc7:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in 7pc7

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Calcium binding site 1 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:59.2
occ:1.00
 O A:VAL173 2.3 38.4 1.0
OE1 A:GLU175 2.4 58.0 1.0
O A:GLY172 2.5 38.3 1.0
OE2 A:GLU175 3.0 61.7 1.0
CD A:GLU175 3.1 54.9 1.0
C A:GLY172 3.4 39.9 1.0
C A:VAL173 3.5 38.7 1.0
N A:VAL173 4.1 40.5 1.0
CA A:VAL173 4.1 38.5 1.0
CB A:VAL173 4.2 36.2 1.0
CA A:GLY172 4.5 40.0 1.0
CG A:GLU175 4.5 47.0 1.0
N A:GLU175 4.5 39.3 1.0
N A:ASP174 4.6 39.2 1.0
CA A:ASP174 4.8 37.7 1.0

Calcium binding site 2 out of 12 in 7pc7

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Calcium binding site 2 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca502

b:33.6
occ:1.00
 O A:LYS210 2.3 30.8 1.0
O A:LEU213 2.3 31.3 1.0
OE1 A:GLU218 2.3 49.5 1.0
CD A:GLU218 3.4 44.1 1.0
C A:LYS210 3.5 33.5 1.0
C A:LEU213 3.5 31.3 1.0
OE2 A:GLU218 3.9 53.6 1.0
CA A:SER214 4.1 33.2 1.0
N A:SER214 4.3 34.4 1.0
O A:SER211 4.4 35.3 1.0
CA A:SER211 4.4 34.3 1.0
N A:SER211 4.4 35.5 1.0
CA A:LYS210 4.4 30.2 1.0
C A:SER211 4.4 34.9 1.0
CB A:SER214 4.4 31.9 1.0
N A:LEU213 4.5 34.5 1.0
CA A:LEU213 4.6 32.8 1.0
CG A:LYS210 4.6 41.8 1.0
CG A:GLU218 4.6 32.7 1.0
CB A:GLU218 5.0 24.2 1.0
O A:LEU209 5.0 31.9 1.0

Calcium binding site 3 out of 12 in 7pc7

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Calcium binding site 3 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:38.3
occ:1.00
 O A:MET240 2.3 37.4 1.0
O A:GLY244 2.3 36.4 1.0
O A:GLY242 2.4 43.1 1.0
O A:HOH657 2.4 41.4 1.0
OD2 A:ASP284 2.5 38.5 1.0
OD1 A:ASP284 2.6 39.8 1.0
CG A:ASP284 2.9 40.5 1.0
O A:HOH821 3.0 60.3 1.0
C A:MET240 3.4 40.1 1.0
C A:GLY244 3.5 39.5 1.0
C A:GLY242 3.6 47.3 1.0
C A:LEU243 4.0 51.6 1.0
O A:LEU243 4.0 58.3 1.0
CA A:MET240 4.1 35.0 1.0
N A:GLY244 4.1 44.6 1.0
N A:GLY242 4.2 51.7 1.0
OG1 A:THR245 4.3 39.7 1.0
C A:LYS241 4.3 52.5 1.0
CA A:GLY244 4.3 40.6 1.0
CB A:ASP284 4.4 37.1 1.0
N A:LYS241 4.5 45.4 1.0
CA A:GLY242 4.5 51.4 1.0
O A:LYS241 4.5 54.9 1.0
N A:LEU243 4.5 47.1 1.0
N A:THR245 4.5 35.8 1.0
CB A:MET240 4.6 30.3 1.0
CA A:LEU243 4.6 49.3 1.0
CA A:LYS241 4.7 52.3 1.0
O A:HOH841 4.7 66.7 1.0
CA A:THR245 4.8 36.1 1.0
O A:HOH743 4.9 50.5 1.0
O A:HOH749 5.0 52.5 1.0

Calcium binding site 4 out of 12 in 7pc7

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Calcium binding site 4 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca504

b:40.9
occ:1.00
 O A:ARG327 2.4 43.4 1.0
O A:GLY329 2.4 40.8 1.0
O A:HOH734 2.4 47.7 1.0
O A:GLY324 2.4 35.3 1.0
OE1 A:GLU369 2.4 39.8 1.0
OE2 A:GLU369 2.4 40.0 1.0
O A:HOH827 2.4 43.4 1.0
CD A:GLU369 2.8 38.6 1.0
C A:GLY324 3.3 37.6 1.0
C A:GLY329 3.4 41.8 1.0
C A:ARG327 3.5 43.6 1.0
N A:GLY329 3.7 43.9 1.0
C A:LYS328 4.0 45.5 1.0
CA A:GLY329 4.1 42.4 1.0
N A:VAL325 4.1 38.9 1.0
CA A:GLY324 4.2 34.7 1.0
CA A:VAL325 4.2 38.5 1.0
CA A:LYS328 4.3 47.0 1.0
CG A:GLU369 4.3 36.0 1.0
OG1 A:THR330 4.3 39.2 1.0
N A:ARG327 4.3 41.5 1.0
N A:LYS328 4.4 46.2 1.0
C A:VAL325 4.4 43.8 1.0
O A:HOH643 4.4 50.8 1.0
N A:THR330 4.5 42.4 1.0
CA A:ARG327 4.5 39.8 1.0
O A:VAL325 4.5 47.8 1.0
CG A:ARG327 4.6 44.6 1.0
O A:LYS328 4.6 45.0 1.0
CA A:THR330 4.8 40.5 1.0
N A:LYS326 5.0 45.1 1.0

Calcium binding site 5 out of 12 in 7pc7

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Calcium binding site 5 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca505

b:29.9
occ:1.00
 O A:GLY404 2.3 32.1 1.0
O A:MET400 2.4 27.9 1.0
O A:GLY402 2.4 27.5 1.0
OD2 A:ASP444 2.5 23.8 1.0
OD1 A:ASP444 2.5 28.4 1.0
CG A:ASP444 2.8 30.6 1.0
C A:MET400 3.4 28.2 1.0
C A:GLY404 3.5 30.3 1.0
C A:GLY402 3.6 29.8 1.0
CA A:MET400 4.0 28.0 1.0
N A:GLY404 4.0 36.3 1.0
N A:GLY402 4.1 22.6 1.0
CA A:GLY404 4.2 30.5 1.0
C A:LYS403 4.2 36.6 1.0
CB A:ASP444 4.3 28.2 1.0
C A:LYS401 4.3 25.1 1.0
OG1 A:THR405 4.4 31.3 1.0
CA A:GLY402 4.4 24.1 1.0
O A:HOH648 4.5 37.2 1.0
N A:THR405 4.5 28.1 1.0
N A:LYS401 4.5 23.0 1.0
CB A:MET400 4.6 30.7 1.0
O A:LYS401 4.6 28.8 1.0
N A:LYS403 4.6 30.2 1.0
O A:LYS403 4.6 34.0 1.0
CA A:LYS403 4.7 33.1 1.0
CA A:THR405 4.8 30.0 1.0
O A:HOH680 4.9 27.9 1.0
CA A:LYS401 4.9 23.8 1.0
CA A:ASP444 5.0 30.6 1.0

Calcium binding site 6 out of 12 in 7pc7

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Calcium binding site 6 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca508

b:157.9
occ:1.00
 O A:HOH712 2.3 57.9 1.0
O A:HOH820 2.4 78.4 1.0
O A:THR245 2.5 35.5 1.0
O A:HOH833 2.6 97.0 1.0
O A:HOH776 2.7 68.3 1.0
OE1 A:GLU247 2.8 41.5 1.0
OE2 A:GLU247 3.0 45.8 1.0
CD A:GLU247 3.2 40.7 1.0
C A:THR245 3.7 34.8 1.0
N A:THR245 4.1 35.8 1.0
CA A:THR245 4.5 36.1 1.0
N A:ASP246 4.7 31.4 1.0
N A:GLU247 4.7 29.1 1.0
CG A:GLU247 4.7 35.2 1.0
CA A:ASP246 4.8 31.2 1.0
CB A:THR245 4.9 37.2 1.0
O A:HOH788 4.9 49.3 1.0

Calcium binding site 7 out of 12 in 7pc7

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Calcium binding site 7 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca501

b:56.3
occ:1.00
 O B:GLY172 2.3 55.5 1.0
O B:VAL173 2.4 47.2 1.0
O B:HOH697 2.4 55.0 1.0
O B:HOH669 2.4 68.4 1.0
OE2 B:GLU175 2.4 62.3 1.0
OE1 B:GLU175 2.7 56.8 1.0
CD B:GLU175 2.9 57.9 1.0
O B:HOH707 3.2 72.4 1.0
C B:GLY172 3.2 54.9 1.0
C B:VAL173 3.5 51.0 1.0
N B:VAL173 4.0 53.3 1.0
CA B:VAL173 4.1 50.5 1.0
CA B:GLY172 4.2 54.9 1.0
CB B:VAL173 4.3 48.9 1.0
CG B:GLU175 4.4 52.9 1.0
N B:ASP174 4.6 51.7 1.0
N B:GLU175 4.6 47.4 1.0
O B:HOH615 4.7 62.5 1.0
CA B:ASP174 4.9 50.9 1.0

Calcium binding site 8 out of 12 in 7pc7

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Calcium binding site 8 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca502

b:74.3
occ:1.00
 O B:HOH700 2.4 66.4 1.0
O B:LYS210 2.5 59.6 1.0
O B:LEU213 2.7 51.5 1.0
OE1 B:GLU218 2.8 67.5 1.0
CD B:GLU218 3.3 63.6 1.0
OE2 B:GLU218 3.4 67.3 1.0
C B:LYS210 3.7 55.6 1.0
C B:LEU213 3.9 50.4 1.0
CG B:LYS210 4.3 64.3 1.0
CA B:SER214 4.4 52.2 1.0
CA B:LYS210 4.5 54.1 1.0
CG B:GLU218 4.5 54.8 1.0
N B:SER214 4.6 48.7 1.0
O B:SER211 4.6 61.3 1.0
CB B:SER214 4.7 51.4 1.0
N B:SER211 4.7 55.7 1.0
CA B:SER211 4.7 58.1 1.0
C B:SER211 4.7 57.9 1.0
N B:LEU213 4.8 51.1 1.0
CA B:LEU213 5.0 50.6 1.0

Calcium binding site 9 out of 12 in 7pc7

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Calcium binding site 9 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:

Calcium binding site 10 out of 12 in 7pc7

Go back to Calcium Binding Sites List in 7pc7
Calcium binding site 10 out of 12 in the The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of The Pdz Domain of SNTG1 Complexed with the Acetylated Pdz-Binding Motif of Pten within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca504

b:75.1
occ:1.00
 O B:HOH634 2.3 66.7 1.0
O B:GLY329 2.3 73.8 1.0
O B:GLY324 2.4 65.0 1.0
O B:HOH693 2.4 64.3 1.0
OE1 B:GLU369 2.5 66.0 1.0
O B:ARG327 2.7 88.1 1.0
OE2 B:GLU369 2.8 70.0 1.0
CD B:GLU369 3.0 68.0 1.0
C B:GLY324 3.3 67.1 1.0
C B:GLY329 3.4 77.1 1.0
C B:ARG327 3.4 88.8 1.0
N B:GLY329 3.5 83.9 1.0
CA B:LYS328 3.6 90.7 1.0
C B:LYS328 3.7 85.0 1.0
N B:LYS328 3.9 90.5 1.0
CA B:GLY329 4.0 82.3 1.0
CA B:GLY324 4.0 64.0 1.0
N B:VAL325 4.2 66.6 1.0
OG1 B:THR330 4.3 77.6 1.0
CA B:VAL325 4.3 68.6 1.0
O B:VAL325 4.4 75.0 1.0
C B:VAL325 4.5 73.0 1.0
O B:LYS328 4.5 83.4 1.0
CG B:GLU369 4.5 66.2 1.0
N B:THR330 4.5 75.8 1.0
CA B:ARG327 4.6 87.6 1.0
CG B:ARG327 4.6 87.4 1.0
N B:ARG327 4.6 84.0 1.0
CA B:THR330 4.8 74.0 1.0
CB B:LYS328 5.0 99.6 1.0

Reference:

A.Cousido-Siah, L.Carneiro, C.Kostmann, P.Ecsedi, L.Nyitray, G.Trave, G.Gogl. A Scalable Strategy to Solve Structures of Pdz Domains and Their Complexes. Acta Crystallogr D Struct V. 78 509 2022BIOL.
ISSN: ISSN 2059-7983
PubMed: 35362473
DOI: 10.1107/S2059798322001784
Page generated: Tue Apr 4 18:27:04 2023

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