Fluorine in PDB 7w7v: 'Late' E2P of SERCA2B

Enzymatic activity of 'Late' E2P of SERCA2B

All present enzymatic activity of 'Late' E2P of SERCA2B:
7.2.2.10;

Other elements in 7w7v:

The structure of 'Late' E2P of SERCA2B also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the 'Late' E2P of SERCA2B (pdb code 7w7v). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the 'Late' E2P of SERCA2B, PDB code: 7w7v:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 7w7v

Go back to Fluorine Binding Sites List in 7w7v
Fluorine binding site 1 out of 3 in the 'Late' E2P of SERCA2B


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of 'Late' E2P of SERCA2B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2001

b:21.7
occ:1.00
 F1 A:BEF2001 0.0 21.7 1.0
BE A:BEF2001 1.5 21.7 1.0
OD1 A:ASP351 2.4 20.9 1.0
N A:THR353 2.5 21.1 1.0
OG1 A:THR624 2.5 19.9 1.0
F3 A:BEF2001 2.5 21.7 1.0
F2 A:BEF2001 2.6 21.7 1.0
CG A:ASP351 2.9 20.9 1.0
N A:LYS352 3.0 21.8 1.0
OD2 A:ASP351 3.1 20.9 1.0
CB A:THR353 3.3 21.1 1.0
CB A:THR624 3.3 19.9 1.0
CA A:THR353 3.3 21.1 1.0
C A:LYS352 3.3 21.8 1.0
OG1 A:THR353 3.4 21.1 1.0
CA A:LYS352 3.4 21.8 1.0
CB A:LYS352 3.5 21.8 1.0
O A:THR353 3.8 21.1 1.0
CA A:THR624 3.9 19.9 1.0
O A:GLY182 4.0 17.8 1.0
C A:ASP351 4.0 20.9 1.0
C A:THR353 4.0 21.1 1.0
CB A:ASP351 4.2 20.9 1.0
CA A:GLY182 4.3 17.8 1.0
CA A:ASP351 4.3 20.9 1.0
N A:GLY625 4.4 20.1 1.0
MG A:MG2002 4.4 20.9 1.0
O A:LYS352 4.5 21.8 1.0
C A:GLY182 4.6 17.8 1.0
CG2 A:THR624 4.6 19.9 1.0
CG A:LYS352 4.7 21.8 1.0
O A:ILE623 4.7 19.6 1.0
CG2 A:THR353 4.7 21.1 1.0
C A:THR624 4.7 19.9 1.0
CE A:LYS352 4.9 21.8 1.0
O A:ASP351 5.0 20.9 1.0

Fluorine binding site 2 out of 3 in 7w7v

Go back to Fluorine Binding Sites List in 7w7v
Fluorine binding site 2 out of 3 in the 'Late' E2P of SERCA2B


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of 'Late' E2P of SERCA2B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2001

b:21.7
occ:1.00
 F2 A:BEF2001 0.0 21.7 1.0
BE A:BEF2001 1.6 21.7 1.0
OD1 A:ASP351 2.4 20.9 1.0
F3 A:BEF2001 2.5 21.7 1.0
F1 A:BEF2001 2.6 21.7 1.0
N A:GLY625 2.8 20.1 1.0
OG1 A:THR624 3.0 19.9 1.0
ND2 A:ASN705 3.1 18.9 1.0
NZ A:LYS683 3.1 22.3 1.0
CA A:THR624 3.2 19.9 1.0
C A:THR624 3.5 19.9 1.0
CG A:ASP351 3.5 20.9 1.0
CB A:THR624 3.6 19.9 1.0
CA A:GLY182 3.7 17.8 1.0
OD2 A:ASP351 3.9 20.9 1.0
CA A:GLY625 3.9 20.1 1.0
O A:THR181 4.0 20.6 1.0
CE A:LYS683 4.1 22.3 1.0
CG A:ASN705 4.3 18.9 1.0
O A:ILE623 4.3 19.6 1.0
N A:GLY182 4.3 17.8 1.0
O A:GLY182 4.4 17.8 1.0
N A:THR624 4.4 19.9 1.0
C A:THR181 4.4 20.6 1.0
C A:GLY182 4.5 17.8 1.0
OD1 A:ASP706 4.7 19.4 1.0
O A:THR624 4.7 19.9 1.0
N A:ASP626 4.8 24.2 1.0
CB A:ASP351 4.8 20.9 1.0
C A:ILE623 4.8 19.6 1.0
C A:GLY625 4.8 20.1 1.0
OD1 A:ASN705 4.9 18.9 1.0
N A:LYS352 4.9 21.8 1.0
N A:THR353 5.0 21.1 1.0
CG2 A:THR624 5.0 19.9 1.0

Fluorine binding site 3 out of 3 in 7w7v

Go back to Fluorine Binding Sites List in 7w7v
Fluorine binding site 3 out of 3 in the 'Late' E2P of SERCA2B


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of 'Late' E2P of SERCA2B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2001

b:21.7
occ:1.00
 F3 A:BEF2001 0.0 21.7 1.0
BE A:BEF2001 1.5 21.7 1.0
OD2 A:ASP351 2.0 20.9 1.0
OD1 A:ASP351 2.4 20.9 1.0
F2 A:BEF2001 2.5 21.7 1.0
CG A:ASP351 2.5 20.9 1.0
F1 A:BEF2001 2.5 21.7 1.0
MG A:MG2002 2.6 20.9 1.0
O A:THR353 3.2 21.1 1.0
ND2 A:ASN705 3.3 18.9 1.0
CA A:GLY182 3.4 17.8 1.0
CB A:THR353 3.8 21.1 1.0
N A:THR353 4.0 21.1 1.0
CB A:ASP351 4.0 20.9 1.0
C A:THR353 4.1 21.1 1.0
OD1 A:ASN705 4.1 18.9 1.0
CG A:ASN705 4.1 18.9 1.0
CA A:THR353 4.2 21.1 1.0
N A:GLY182 4.3 17.8 1.0
OD2 A:ASP706 4.4 19.4 1.0
NZ A:LYS683 4.4 22.3 1.0
C A:GLY182 4.5 17.8 1.0
OD1 A:ASP702 4.5 18.9 1.0
O A:SER178 4.5 19.8 1.0
O A:ASP702 4.5 18.9 1.0
O A:GLY182 4.5 17.8 1.0
OG1 A:THR624 4.5 19.9 1.0
OG1 A:THR353 4.6 21.1 1.0
CG2 A:THR353 4.7 21.1 1.0
OD1 A:ASP706 4.7 19.4 1.0
N A:LYS352 4.7 21.8 1.0
CG A:ASP706 4.9 19.4 1.0
CA A:ASP351 5.0 20.9 1.0

Reference:

Y.Zhang, S.Watanabe, A.Tsutsumi, H.Kadokura, K.Nagata, M.Kikkawa, K.Inaba. Cryo-Em Analysis Provides New Mechanistic Insight Into Atp Binding to CA2+ Pump SERCA2B To Be Published.
Page generated: Fri Aug 2 14:45:29 2024

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