Chlorine in PDB 9fyp: Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. (pdb code 9fyp). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 10 binding sites of Chlorine where determined in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH., PDB code: 9fyp:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 1 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Cl201

b:39.8
occ:1.00
 O I:HOH303 3.3 31.9 1.0
O I:VAL52 3.4 34.9 1.0
N I:GLY51 3.5 29.6 1.0
O K:GLY51 3.6 31.7 1.0
C I:VAL52 3.6 22.5 1.0
N I:VAL52 3.8 26.6 1.0
N I:ALA53 3.9 22.3 1.0
O K:HIS50 3.9 26.7 1.0
CB I:ALA53 4.0 26.4 1.0
C I:HIS50 4.1 26.6 1.0
C I:GLY51 4.1 26.0 1.0
N K:ALA53 4.1 21.3 1.0
CB I:HIS50 4.1 24.9 1.0
CA I:ALA53 4.2 24.4 1.0
CB K:ALA53 4.2 24.9 1.0
CA I:GLY51 4.2 26.5 1.0
CA I:HIS50 4.3 21.1 1.0
C K:GLY51 4.3 23.5 1.0
CA I:VAL52 4.3 27.1 1.0
C K:HIS50 4.4 26.6 1.0
CB K:HIS50 4.4 21.5 1.0
CL K:CL201 4.7 42.3 1.0
ND1 I:HIS50 4.7 33.8 1.0
O I:GLY51 4.7 31.9 1.0
CA K:VAL52 4.8 24.6 1.0
C K:VAL52 4.8 20.2 1.0
CA K:ALA53 4.8 22.0 1.0
N K:VAL52 4.8 23.9 1.0
O I:HIS50 4.9 30.1 1.0
N K:GLY51 4.9 27.9 1.0
CG I:HIS50 4.9 31.5 1.0

Chlorine binding site 2 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 2 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cl201

b:45.5
occ:1.00
 O J:HOH302 3.2 32.0 1.0
O J:VAL52 3.4 35.0 1.0
N J:GLY51 3.5 30.7 1.0
C J:VAL52 3.6 20.8 1.0
O L:GLY51 3.6 32.5 1.0
N J:VAL52 3.8 27.2 1.0
N J:ALA53 3.8 23.4 1.0
O L:HIS50 3.9 30.2 1.0
CB J:ALA53 4.0 29.3 1.0
C J:HIS50 4.0 26.9 1.0
C J:GLY51 4.0 25.7 1.0
CB J:HIS50 4.1 24.1 1.0
CA J:ALA53 4.1 24.8 1.0
N L:ALA53 4.2 22.4 1.0
CA J:GLY51 4.2 28.8 1.0
CA J:HIS50 4.2 21.6 1.0
CB L:ALA53 4.3 27.2 1.0
CA J:VAL52 4.3 26.4 1.0
C L:GLY51 4.4 28.0 1.0
CB L:HIS50 4.4 25.8 1.0
C L:HIS50 4.4 30.2 1.0
O J:GLY51 4.7 34.0 1.0
ND1 J:HIS50 4.7 35.9 1.0
O J:HIS50 4.8 29.9 1.0
CA L:VAL52 4.9 27.1 1.0
C L:VAL52 4.9 21.4 1.0
CA L:ALA53 4.9 25.0 1.0
CG J:HIS50 4.9 31.9 1.0
CL L:CL201 4.9 41.3 1.0
N L:VAL52 4.9 25.1 1.0
N L:GLY51 5.0 30.2 1.0

Chlorine binding site 3 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 3 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl201

b:42.3
occ:1.00
 O K:HOH302 3.2 30.3 1.0
N K:GLY51 3.5 27.9 1.0
O K:VAL52 3.5 31.0 1.0
O M:GLY51 3.5 32.1 1.0
C K:VAL52 3.7 20.2 1.0
N K:VAL52 3.8 23.9 1.0
O M:HIS50 3.9 30.1 1.0
N K:ALA53 3.9 21.3 1.0
C K:HIS50 4.0 26.6 1.0
CB K:HIS50 4.0 21.5 1.0
CB K:ALA53 4.0 24.9 1.0
C K:GLY51 4.1 23.5 1.0
CA K:HIS50 4.2 18.7 1.0
N M:ALA53 4.2 21.5 1.0
CA K:GLY51 4.2 25.3 1.0
CA K:ALA53 4.2 22.0 1.0
CB M:ALA53 4.3 26.8 1.0
C M:GLY51 4.3 28.0 1.0
CB M:HIS50 4.4 25.2 1.0
C M:HIS50 4.4 27.9 1.0
CA K:VAL52 4.4 24.6 1.0
ND1 K:HIS50 4.6 34.5 1.0
CL I:CL201 4.7 39.8 1.0
O K:GLY51 4.7 31.7 1.0
O K:HIS50 4.8 26.7 1.0
CG K:HIS50 4.8 30.8 1.0
CA M:VAL52 4.9 26.1 1.0
C M:VAL52 4.9 18.0 1.0
CL M:CL201 4.9 44.2 1.0
N M:VAL52 4.9 26.1 1.0
N M:GLY51 4.9 29.2 1.0
CA M:ALA53 4.9 26.4 1.0

Chlorine binding site 4 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 4 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Cl201

b:41.3
occ:1.00
 O L:HOH302 3.2 31.7 1.0
O L:VAL52 3.5 34.2 1.0
N L:GLY51 3.5 30.2 1.0
O N:GLY51 3.5 32.1 1.0
C L:VAL52 3.7 21.4 1.0
O N:HIS50 3.8 28.9 1.0
N L:VAL52 3.9 25.1 1.0
N L:ALA53 4.0 22.4 1.0
C L:HIS50 4.0 30.2 1.0
CB L:HIS50 4.1 25.8 1.0
CB L:ALA53 4.1 27.2 1.0
N N:ALA53 4.1 19.1 1.0
C L:GLY51 4.1 28.0 1.0
CA L:HIS50 4.2 23.4 1.0
CB N:ALA53 4.2 25.4 1.0
C N:GLY51 4.2 23.9 1.0
CA L:GLY51 4.2 28.1 1.0
CA L:ALA53 4.3 25.0 1.0
CB N:HIS50 4.3 21.1 1.0
C N:HIS50 4.3 24.8 1.0
CA L:VAL52 4.4 27.1 1.0
ND1 L:HIS50 4.7 37.0 1.0
CL N:CL201 4.7 41.0 1.0
C N:VAL52 4.8 17.3 1.0
CA N:VAL52 4.8 22.8 1.0
O L:GLY51 4.8 32.5 1.0
N N:GLY51 4.8 26.2 1.0
N N:VAL52 4.8 25.1 1.0
CA N:ALA53 4.8 21.3 1.0
O L:HIS50 4.9 30.2 1.0
CG L:HIS50 4.9 34.4 1.0
CL J:CL201 4.9 45.5 1.0
CA N:HIS50 5.0 17.8 1.0

Chlorine binding site 5 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 5 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Cl201

b:44.2
occ:1.00
 O M:HOH302 3.3 29.9 1.0
O M:VAL52 3.5 35.1 1.0
N M:GLY51 3.5 29.2 1.0
O O:GLY51 3.5 33.0 1.0
C M:VAL52 3.7 18.0 1.0
O O:HIS50 3.8 31.6 1.0
N M:VAL52 3.8 26.1 1.0
N M:ALA53 4.0 21.5 1.0
C M:HIS50 4.0 27.9 1.0
C M:GLY51 4.1 28.0 1.0
CB M:HIS50 4.1 25.2 1.0
N O:ALA53 4.1 21.4 1.0
CB M:ALA53 4.2 26.8 1.0
CA M:GLY51 4.2 27.1 1.0
C O:GLY51 4.2 28.6 1.0
CA M:HIS50 4.2 22.0 1.0
CB O:ALA53 4.3 28.2 1.0
C O:HIS50 4.3 29.5 1.0
CA M:ALA53 4.3 26.4 1.0
CB O:HIS50 4.3 27.1 1.0
CA M:VAL52 4.4 26.1 1.0
ND1 M:HIS50 4.7 36.8 1.0
CA O:VAL52 4.7 25.6 1.0
O M:GLY51 4.7 32.1 1.0
C O:VAL52 4.7 20.0 1.0
N O:GLY51 4.8 29.5 1.0
N O:VAL52 4.8 28.1 1.0
CL O:CL201 4.8 43.0 1.0
CA O:ALA53 4.8 25.0 1.0
O M:HIS50 4.8 30.1 1.0
CL K:CL201 4.9 42.3 1.0
CG M:HIS50 4.9 33.7 1.0
CA O:HIS50 5.0 23.2 1.0

Chlorine binding site 6 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 6 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Cl201

b:41.0
occ:1.00
 O N:HOH302 3.2 26.9 1.0
O N:VAL52 3.4 31.6 1.0
N N:GLY51 3.4 26.2 1.0
O P:GLY51 3.5 34.1 1.0
C N:VAL52 3.7 17.3 1.0
N N:VAL52 3.8 25.1 1.0
O P:HIS50 3.8 31.1 1.0
N N:ALA53 4.0 19.1 1.0
C N:HIS50 4.0 24.8 1.0
C N:GLY51 4.1 23.9 1.0
CB N:HIS50 4.1 21.1 1.0
CB N:ALA53 4.1 25.4 1.0
N P:ALA53 4.2 21.6 1.0
CA N:GLY51 4.2 24.8 1.0
CA N:HIS50 4.2 17.8 1.0
C P:GLY51 4.2 27.8 1.0
CA N:ALA53 4.3 21.3 1.0
CB P:ALA53 4.3 27.8 1.0
C P:HIS50 4.3 28.8 1.0
CB P:HIS50 4.3 24.1 1.0
CA N:VAL52 4.4 22.8 1.0
ND1 N:HIS50 4.7 35.0 1.0
CL L:CL201 4.7 41.3 1.0
O N:GLY51 4.7 32.1 1.0
CA P:VAL52 4.8 26.1 1.0
C P:VAL52 4.8 20.0 1.0
CL P:CL201 4.8 43.1 1.0
N P:VAL52 4.8 27.6 1.0
N P:GLY51 4.8 29.0 1.0
O N:HIS50 4.8 28.9 1.0
CA P:ALA53 4.9 24.9 1.0
CG N:HIS50 4.9 31.9 1.0

Chlorine binding site 7 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 7 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Cl201

b:43.0
occ:1.00
 O O:HOH302 3.3 32.0 1.0
O O:VAL52 3.4 36.0 1.0
O Q:GLY51 3.5 34.1 1.0
N O:GLY51 3.5 29.5 1.0
C O:VAL52 3.7 20.0 1.0
O Q:HIS50 3.8 32.4 1.0
N O:VAL52 3.9 28.1 1.0
N O:ALA53 4.0 21.4 1.0
C O:HIS50 4.1 29.5 1.0
N Q:ALA53 4.1 21.3 1.0
CB O:HIS50 4.1 27.1 1.0
CB O:ALA53 4.2 28.2 1.0
C O:GLY51 4.2 28.6 1.0
C Q:GLY51 4.2 26.5 1.0
CB Q:ALA53 4.2 27.3 1.0
CA O:HIS50 4.3 23.2 1.0
CA O:GLY51 4.3 27.9 1.0
C Q:HIS50 4.3 28.8 1.0
CB Q:HIS50 4.3 22.7 1.0
CA O:ALA53 4.3 25.0 1.0
CA O:VAL52 4.4 25.6 1.0
ND1 O:HIS50 4.7 37.1 1.0
CL Q:CL201 4.7 40.6 1.0
C Q:VAL52 4.7 18.1 1.0
CA Q:VAL52 4.7 24.3 1.0
N Q:VAL52 4.7 26.0 1.0
N Q:GLY51 4.8 27.9 1.0
CA Q:ALA53 4.8 23.1 1.0
CL M:CL201 4.8 44.2 1.0
O O:GLY51 4.9 33.0 1.0
CG O:HIS50 4.9 35.2 1.0
O O:HIS50 4.9 31.6 1.0
CA Q:HIS50 5.0 20.6 1.0

Chlorine binding site 8 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 8 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Cl201

b:43.1
occ:1.00
 O P:HOH302 3.3 31.8 1.0
O P:VAL52 3.4 35.9 1.0
N P:GLY51 3.5 29.0 1.0
O R:GLY51 3.5 33.6 1.0
C P:VAL52 3.7 20.0 1.0
O R:HIS50 3.8 34.8 1.0
N P:VAL52 3.8 27.6 1.0
N P:ALA53 4.0 21.6 1.0
C P:HIS50 4.1 28.8 1.0
CB P:ALA53 4.1 27.8 1.0
C P:GLY51 4.1 27.8 1.0
CB P:HIS50 4.1 24.1 1.0
N R:ALA53 4.1 22.4 1.0
CA P:GLY51 4.2 29.3 1.0
C R:GLY51 4.2 29.5 1.0
CA P:HIS50 4.3 23.3 1.0
CA P:ALA53 4.3 24.9 1.0
CB R:ALA53 4.3 28.0 1.0
C R:HIS50 4.3 30.3 1.0
CB R:HIS50 4.4 24.9 1.0
CA P:VAL52 4.4 26.1 1.0
ND1 P:HIS50 4.7 36.0 1.0
CA R:VAL52 4.8 26.3 1.0
C R:VAL52 4.8 20.1 1.0
O P:GLY51 4.8 34.1 1.0
CL N:CL201 4.8 41.0 1.0
N R:VAL52 4.8 28.8 1.0
N R:GLY51 4.8 30.9 1.0
CA R:ALA53 4.8 25.1 1.0
CL R:CL201 4.9 41.5 1.0
O P:HIS50 4.9 31.1 1.0
CG P:HIS50 4.9 34.3 1.0

Chlorine binding site 9 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 9 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
Q:Cl201

b:40.6
occ:1.00
 O Q:HOH303 3.2 31.7 1.0
O Q:VAL52 3.4 33.3 1.0
N Q:GLY51 3.6 27.9 1.0
C Q:VAL52 3.7 18.1 1.0
N Q:VAL52 3.8 26.0 1.0
N Q:ALA53 4.0 21.3 1.0
C Q:HIS50 4.1 28.8 1.0
C Q:GLY51 4.1 26.5 1.0
CB Q:ALA53 4.1 27.3 1.0
CB Q:HIS50 4.2 22.7 1.0
CA Q:GLY51 4.3 28.2 1.0
CA Q:ALA53 4.3 23.1 1.0
CA Q:HIS50 4.3 20.6 1.0
CA Q:VAL52 4.4 24.3 1.0
CL O:CL201 4.7 43.0 1.0
ND1 Q:HIS50 4.7 35.2 1.0
O Q:GLY51 4.8 34.1 1.0
O Q:HIS50 4.9 32.4 1.0
CG Q:HIS50 5.0 33.4 1.0

Chlorine binding site 10 out of 10 in 9fyp

Go back to Chlorine Binding Sites List in 9fyp
Chlorine binding site 10 out of 10 in the Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Cryo Em Structure of the Type 3B Polymorph of Alpha-Synuclein at Low pH. within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Cl201

b:41.5
occ:1.00
 O R:HOH303 3.2 35.4 1.0
O R:VAL52 3.4 36.2 1.0
N R:GLY51 3.7 30.9 1.0
C R:VAL52 3.7 20.1 1.0
N R:VAL52 3.9 28.8 1.0
N R:ALA53 4.0 22.4 1.0
CB R:ALA53 4.2 28.0 1.0
C R:HIS50 4.2 30.3 1.0
CB R:HIS50 4.2 24.9 1.0
C R:GLY51 4.2 29.5 1.0
CA R:ALA53 4.3 25.1 1.0
CA R:GLY51 4.4 29.9 1.0
CA R:HIS50 4.4 24.2 1.0
CA R:VAL52 4.5 26.3 1.0
ND1 R:HIS50 4.7 37.8 1.0
CL P:CL201 4.9 43.1 1.0
O R:GLY51 4.9 33.6 1.0

Reference:

L.Frey, D.Ghosh, B.M.Qureshi, D.Rhyner, R.Guerrero-Ferreira, A.Pokharna, W.Kwiatkowski, T.Serdiuk, P.Picotti, R.Riek, J.Greenwald. On the pH-Dependence of Alpha-Synuclein Amyloid Polymorphism and the Role of Secondary Nucleation in Seed-Based Amyloid Propagation Elife 2024.
ISSN: ESSN 2050-084X
DOI: 10.1101/2023.06.25.546428
Page generated: Tue Jul 30 14:04:01 2024

Last articles

Zn in 2YRC
Zn in 2YQP
Zn in 2YR2
Zn in 2YQL
Zn in 2YPT
Zn in 2YPA
Zn in 2YPU
Zn in 2YNW
Zn in 2YNT
Zn in 2YNV
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy