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Calcium in PDB 5n7f: Magi-1 Complexed with A PRSK1 Peptide

Enzymatic activity of Magi-1 Complexed with A PRSK1 Peptide

All present enzymatic activity of Magi-1 Complexed with A PRSK1 Peptide:
2.7.11.1;

Protein crystallography data

The structure of Magi-1 Complexed with A PRSK1 Peptide, PDB code: 5n7f was solved by G.Gogl, L.Nyitray, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.73 / 2.30
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.150, 98.560, 200.310, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 24

Calcium Binding Sites:

The binding sites of Calcium atom in the Magi-1 Complexed with A PRSK1 Peptide (pdb code 5n7f). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the Magi-1 Complexed with A PRSK1 Peptide, PDB code: 5n7f:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Calcium binding site 1 out of 9 in 5n7f

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Calcium binding site 1 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca904

b:42.8
occ:1.00
 O A:GLY589 2.4 67.2 1.0
O A:VAL590 2.5 24.5 1.0
O A:HOH1104 2.5 52.8 1.0
OE1 A:GLU592 2.5 30.9 1.0
OE2 A:GLU592 2.8 29.8 1.0
CD A:GLU592 3.0 25.7 1.0
O A:HOH1332 3.0 31.1 1.0
C A:GLY589 3.3 45.3 1.0
C A:VAL590 3.6 25.7 1.0
N A:VAL590 4.0 39.2 1.0
CA A:VAL590 4.1 30.1 1.0
O A:HOH1300 4.1 44.5 1.0
CA A:GLY589 4.3 37.5 1.0
O A:HOH1220 4.4 43.9 1.0
CB A:VAL590 4.4 27.3 1.0
O A:HOH1071 4.4 36.6 1.0
CG A:GLU592 4.5 23.4 1.0
N A:ASP591 4.7 25.9 1.0
N A:GLU592 4.8 23.3 1.0
O A:HOH1033 4.9 22.7 1.0

Calcium binding site 2 out of 9 in 5n7f

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Calcium binding site 2 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca905

b:72.0
occ:1.00
 O A:HOH1085 2.5 46.4 1.0
O A:ARG744 2.5 84.4 1.0
OE1 A:GLU786 2.5 72.4 1.0
O A:GLY746 2.5 63.6 1.0
O A:GLY741 2.6 79.2 1.0
OE2 A:GLU786 3.0 71.9 1.0
CD A:GLU786 3.1 69.6 1.0
O A:VAL742 3.6 82.7 1.0
C A:GLY746 3.6 73.5 1.0
C A:GLY741 3.7 74.2 1.0
C A:ARG744 3.7 88.6 1.0
N A:GLY746 4.0 73.7 1.0
C A:VAL742 4.1 81.2 1.0
CA A:VAL742 4.1 80.8 1.0
CA A:GLY746 4.2 69.5 1.0
N A:VAL742 4.3 77.6 1.0
C A:LYS745 4.3 84.8 1.0
N A:ARG744 4.3 79.6 1.0
O A:HOH1184 4.5 53.5 1.0
CA A:ARG744 4.6 83.2 1.0
CG A:GLU786 4.6 58.4 1.0
N A:LYS745 4.7 93.9 1.0
CA A:GLY741 4.7 61.7 1.0
CA A:LYS745 4.7 91.0 1.0
N A:THR747 4.8 75.3 1.0
O A:LYS745 4.9 86.4 1.0

Calcium binding site 3 out of 9 in 5n7f

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Calcium binding site 3 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca906

b:32.8
occ:1.00
 OG A:SER773 2.5 42.3 1.0
O A:HOH1178 2.6 35.8 1.0
CB A:SER773 3.5 41.1 1.0
CA A:SER773 3.9 41.2 1.0
O A:SER773 4.5 45.2 1.0
NH1 A:ARG770 4.6 41.4 1.0
O A:HOH1131 4.7 37.8 1.0
C A:SER773 4.7 46.9 1.0

Calcium binding site 4 out of 9 in 5n7f

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Calcium binding site 4 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca907

b:66.2
occ:1.00
 O A:HOH1194 2.6 42.5 1.0
O A:ASP815 2.9 24.2 1.0
N A:GLY819 3.1 23.9 1.0
O A:HOH1289 3.2 53.3 1.0
O A:SER816 3.5 27.6 1.0
N A:LYS818 3.5 21.0 1.0
C A:SER816 3.6 19.2 1.0
C A:MET817 3.6 20.4 1.0
CA A:GLY819 3.7 25.6 1.0
N A:MET817 3.8 21.2 1.0
C A:ASP815 4.0 20.6 1.0
CA A:MET817 4.0 23.4 1.0
O A:MET817 4.1 20.9 1.0
C A:GLY819 4.1 25.5 1.0
C A:LYS818 4.1 23.6 1.0
CG A:LYS818 4.1 23.2 1.0
O A:GLY819 4.3 26.0 1.0
CA A:LYS818 4.3 22.1 1.0
CA A:SER816 4.3 22.4 1.0
O A:GLY821 4.4 21.9 1.0
O A:HOH1290 4.4 57.0 1.0
O A:LYS820 4.4 28.7 1.0
N A:SER816 4.6 21.3 1.0
N A:LYS820 4.8 28.6 1.0
CB A:LYS818 4.8 22.7 1.0

Calcium binding site 5 out of 9 in 5n7f

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Calcium binding site 5 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca908

b:97.0
occ:1.00
 OD1 A:ASP524 3.2 39.0 1.0
OG A:SER521 3.5 36.3 1.0
O A:HOH1305 3.5 43.2 1.0
CA A:ASP524 3.8 37.5 1.0
OE2 A:GLU551 3.8 35.8 1.0
C A:ASP524 4.1 36.2 1.0
CB A:SER521 4.1 33.4 1.0
CG A:ASP524 4.2 35.3 1.0
O A:ASP524 4.2 36.5 1.0
O A:HOH1120 4.4 21.2 1.0
CB A:ASP524 4.6 34.2 1.0
N A:ASP524 4.7 30.1 1.0
N A:THR525 4.8 31.1 1.0
CD A:GLU551 4.9 41.7 1.0

Calcium binding site 6 out of 9 in 5n7f

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Calcium binding site 6 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca904

b:0.2
occ:1.00
 O B:VAL590 2.6 43.8 1.0
CG B:GLU592 3.3 51.8 1.0
O B:HOH1029 3.5 34.3 1.0
CD B:GLU592 3.5 69.9 1.0
OE2 B:GLU592 3.5 78.3 1.0
O B:GLY589 3.6 81.9 1.0
C B:VAL590 3.8 41.5 1.0
N B:GLU592 4.0 38.6 1.0
CB B:GLU592 4.1 41.7 1.0
OE1 B:GLU592 4.1 74.5 1.0
C B:GLY589 4.4 72.7 1.0
O B:HOH1004 4.6 53.9 1.0
CA B:VAL590 4.6 47.1 1.0
N B:ASP591 4.7 35.2 1.0
N B:VAL590 4.8 58.7 1.0
CA B:GLU592 4.8 36.8 1.0
CB B:VAL590 4.8 36.6 1.0
CA B:ASP591 4.8 34.1 1.0
C B:ASP591 4.9 40.1 1.0

Calcium binding site 7 out of 9 in 5n7f

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Calcium binding site 7 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca905

b:37.9
occ:1.00
 O B:HOH1188 2.3 39.4 1.0
O B:ARG744 2.3 39.8 1.0
O B:GLY741 2.3 28.7 1.0
O B:GLY746 2.4 40.0 1.0
OE1 B:GLU786 2.5 28.2 1.0
OE2 B:GLU786 2.6 35.1 1.0
O B:HOH1200 2.7 45.2 1.0
CD B:GLU786 2.9 35.6 1.0
C B:GLY741 3.4 31.1 1.0
C B:ARG744 3.5 39.0 1.0
C B:GLY746 3.6 40.8 1.0
N B:GLY746 3.8 43.2 1.0
C B:LYS745 4.0 42.6 1.0
O B:HOH1110 4.1 46.7 1.0
CA B:VAL742 4.2 35.9 1.0
N B:VAL742 4.2 29.1 1.0
CA B:GLY746 4.2 43.7 1.0
CA B:GLY741 4.2 26.6 1.0
CA B:LYS745 4.3 43.3 1.0
O B:HOH1185 4.3 41.7 1.0
O B:VAL742 4.4 41.5 1.0
N B:LYS745 4.4 39.3 1.0
OG1 B:THR747 4.4 30.6 1.0
CG B:GLU786 4.4 35.0 1.0
N B:ARG744 4.4 33.5 1.0
C B:VAL742 4.4 37.4 1.0
CA B:ARG744 4.6 35.8 1.0
CG B:ARG744 4.6 41.0 1.0
O B:LYS745 4.6 46.9 1.0
O B:HOH1148 4.6 46.0 1.0
N B:THR747 4.7 38.1 1.0
CA B:THR747 4.9 35.5 1.0
O B:HOH1228 5.0 41.2 1.0

Calcium binding site 8 out of 9 in 5n7f

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Calcium binding site 8 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca906

b:29.9
occ:1.00
 OG B:SER773 2.3 27.1 1.0
O B:HOH1128 2.5 21.9 1.0
CB B:SER773 3.4 26.3 1.0
CA B:SER773 3.9 25.3 1.0
NH1 B:ARG770 4.3 29.1 1.0
O B:SER773 4.4 29.5 1.0
O B:HOH1040 4.5 18.4 1.0
C B:SER773 4.6 31.1 1.0

Calcium binding site 9 out of 9 in 5n7f

Go back to Calcium Binding Sites List in 5n7f
Calcium binding site 9 out of 9 in the Magi-1 Complexed with A PRSK1 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Magi-1 Complexed with A PRSK1 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca907

b:81.3
occ:1.00
 O B:HOH1107 2.3 31.7 1.0
O B:LYS820 3.6 32.9 1.0
O B:SER816 4.1 36.6 1.0
N B:ARG823 4.1 29.6 1.0
O B:ASP815 4.4 30.8 1.0
C B:THR822 4.5 27.8 1.0
O B:GLY821 4.5 33.9 1.0
CB B:ARG823 4.5 43.9 1.0
CA B:THR822 4.6 28.4 1.0
CG B:ARG823 4.6 62.9 1.0
C B:GLY821 4.6 34.1 1.0
N B:THR822 4.6 30.4 1.0
C B:LYS820 4.6 37.3 1.0
C B:SER816 4.7 26.6 1.0
C B:GLY819 4.8 38.4 1.0
NE B:ARG823 4.8 86.3 1.0
CA B:GLY819 4.8 39.8 1.0
CA B:ARG823 4.8 31.1 1.0
N B:GLY819 4.9 41.6 1.0
N B:LYS820 4.9 36.1 1.0

Reference:

G.Gogl, B.Biri-Kovacs, A.L.Poti, H.Vadaszi, B.Szeder, A.Bodor, G.Schlosser, A.Acs, L.Turiak, L.Buday, A.Alexa, L.Nyitray, A.Remenyi. Dynamic Control of Rsk Complexes By Phosphoswitch-Based Regulation. Febs J. V. 285 46 2018.
ISSN: ISSN 1742-4658
PubMed: 29083550
DOI: 10.1111/FEBS.14311
Page generated: Mon Jul 15 08:50:44 2024

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