Atomistry » Chlorine » PDB 3o6j-3ohg » 3oaz
Atomistry »
  Chlorine »
    PDB 3o6j-3ohg »
      3oaz »

Chlorine in PDB 3oaz: A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity

Protein crystallography data

The structure of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity, PDB code: 3oaz was solved by K.J.Doores, Z.Fulton, V.Hong, M.K.Patel, C.N.Scanlan, M.R.Wormald, M.G.Finn, D.R.Burton, I.A.Wilson, B.G.Davis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.65 / 1.75
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 72.623, 72.092, 84.074, 90.00, 95.78, 90.00
R / Rfree (%) 17.6 / 21.8

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 28;

Binding sites:

The binding sites of Chlorine atom in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity (pdb code 3oaz). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 28 binding sites of Chlorine where determined in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity, PDB code: 3oaz:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 1 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl232

b:15.1
occ:1.00
 O H:HOH555 3.4 16.1 1.0
O H:HOH296 3.5 17.8 1.0
OD1 H:ASP98 3.8 34.8 0.5
CE1 L:TYR49 3.9 17.7 1.0
CG L:LYS55 3.9 22.8 1.0
CA H:SER97 3.9 27.3 0.3
CA H:SER97 3.9 27.7 0.7
OG H:SER97 3.9 31.2 0.7
N H:ASP98 4.0 31.0 1.0
CE L:LYS55 4.2 31.0 1.0
CZ L:TYR49 4.3 21.9 1.0
CD2 L:LEU46 4.3 15.5 1.0
CB H:SER97 4.3 27.6 0.3
CG H:ASP98 4.3 33.3 0.5
CB H:SER97 4.3 28.0 0.7
CB H:ASP101 4.4 20.4 1.0
CD L:LYS55 4.4 25.0 1.0
OH L:TYR49 4.4 24.9 1.0
C H:SER97 4.4 29.2 1.0
CD1 L:TYR49 4.5 19.6 1.0
OD2 H:ASP98 4.6 34.5 0.5
CB L:LYS55 4.8 19.3 1.0
O H:GLY96 4.8 22.5 1.0
OD2 H:ASP101 4.9 22.7 1.0
O L:HOH561 5.0 25.7 1.0

Chlorine binding site 2 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 2 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl233

b:18.5
occ:1.00
 O H:ASP101 2.8 22.6 1.0
O L:HOH283 2.9 26.9 1.0
O L:HOH645 3.0 30.1 1.0
N L:LEU46 3.4 14.6 1.0
C H:ASP101 3.6 20.2 1.0
O H:HOH292 3.9 16.7 1.0
CA L:LYS45 4.0 17.1 1.0
CB L:LEU46 4.1 14.5 1.0
CD1 H:TRP103 4.2 14.9 1.0
CE L:LYS55 4.2 31.0 1.0
C L:LYS45 4.2 15.1 1.0
N H:ALA102 4.3 18.7 1.0
CA L:LEU46 4.4 14.4 1.0
CA H:ALA102 4.4 18.6 1.0
O L:PRO44 4.4 17.1 1.0
CA H:ASP101 4.4 19.4 1.0
NZ L:LYS55 4.6 31.5 1.0
CB L:LYS45 4.7 18.5 1.0
O H:PHE100F 4.7 16.5 1.0
CD L:LYS55 4.7 25.0 1.0
NE1 H:TRP103 4.8 16.2 1.0
O L:LEU46 4.9 14.5 1.0
CG L:LYS45 4.9 25.0 1.0

Chlorine binding site 3 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 3 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl234

b:31.0
occ:1.00
 O H:HOH1101 2.7 19.5 1.0
O H:HOH1091 2.9 25.5 1.0
O H:HOH1028 3.4 28.4 1.0
C H:ALA88 3.9 15.5 1.0
CA H:ALA88 3.9 15.8 1.0
N H:ILE89 4.2 14.8 1.0
N H:ALA88 4.2 15.9 1.0
O H:HOH580 4.2 35.6 1.0
CG H:PRO41 4.2 21.7 1.0
CG1 H:VAL108 4.2 20.9 1.0
CG2 H:THR87 4.3 20.0 1.0
CG1 H:ILE89 4.3 19.5 1.0
O H:ALA88 4.4 15.9 1.0
C H:THR87 4.7 17.0 1.0
O H:ARG39 4.7 18.0 1.0
CD H:PRO41 4.8 19.6 1.0
O H:VAL109 4.9 18.3 1.0
N H:PRO41 4.9 20.6 1.0
O H:THR87 4.9 17.0 1.0
CB H:PRO41 5.0 22.7 1.0
CA H:PRO41 5.0 22.1 1.0

Chlorine binding site 4 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 4 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl235

b:30.9
occ:1.00
 OD1 H:ASN211 2.1 34.7 1.0
CG H:ASN211 3.0 29.1 1.0
ND2 H:ASN211 3.2 33.6 1.0
O H:HOH1025 3.7 25.4 1.0
CG H:LYS218 3.8 29.7 1.0
CA H:LYS213 3.8 23.1 1.0
CE H:LYS218 3.9 36.2 1.0
N H:LYS213 3.9 22.1 1.0
O H:THR217 4.0 25.7 1.0
O H:HIS212 4.0 21.9 1.0
C H:HIS212 4.0 21.6 1.0
CA H:ASN216 4.1 26.5 0.5
CA H:ASN216 4.1 27.0 0.5
N H:THR217 4.1 25.7 1.0
C H:ASN216 4.2 26.9 1.0
CD H:LYS213 4.2 34.3 1.0
N H:HIS212 4.3 21.8 1.0
CB H:ASN211 4.4 24.7 1.0
C H:THR217 4.4 25.6 1.0
CD H:LYS218 4.4 34.3 1.0
ND2 H:ASN216 4.6 33.3 0.5
CB H:LYS213 4.7 23.8 1.0
CA H:ASN211 4.7 23.0 1.0
NZ H:LYS213 4.8 37.8 1.0
C H:ASN211 4.8 22.3 1.0
CG H:ASN216 4.8 31.4 0.5
C H:LYS213 4.8 22.8 1.0
N H:ASN216 4.8 25.6 1.0
O H:LYS213 4.9 23.1 1.0
CA H:HIS212 4.9 21.0 1.0
CA H:THR217 4.9 26.6 1.0
CG H:LYS213 4.9 28.9 1.0
N H:LYS218 4.9 26.3 1.0
O H:ASN216 4.9 28.6 1.0
ND2 H:ASN216 4.9 25.3 0.5

Chlorine binding site 5 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 5 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl236

b:34.4
occ:1.00
 CB H:SER112 3.7 30.6 0.5
O H:HOH267 3.8 22.8 1.0
CA H:SER112 3.8 29.7 0.5
CA H:SER112 3.8 30.0 0.5
CB H:SER112 3.9 30.9 0.5
CD H:PRO113 4.0 23.6 1.0
O M:LEU178 4.1 36.1 1.0
CA M:SER180 4.1 44.5 1.0
OG H:SER112 4.1 32.4 0.5
N M:SER180 4.2 41.4 1.0
CG2 H:THR110 4.3 26.4 1.0
C M:GLN179 4.5 39.4 1.0
CB M:SER180 4.5 46.1 1.0
N H:SER112 4.5 27.2 1.0
O H:VAL111 4.7 24.4 1.0
CD1 H:LEU11 4.7 26.7 0.7
O M:GLN179 4.8 39.9 1.0
O M:HOH889 4.8 26.3 1.0
N H:PRO113 4.9 21.8 1.0
C H:SER112 4.9 31.6 1.0
C H:VAL111 4.9 25.1 1.0
NE2 L:GLN160 5.0 45.8 1.0

Chlorine binding site 6 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 6 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl217

b:2.5
occ:1.00
 OD1 K:ASN137 3.6 20.0 1.0
OG K:SER114 3.6 20.8 1.0
CB K:SER114 3.8 16.4 1.0
O K:HOH602 4.1 38.8 1.0
O K:HOH705 4.1 35.0 1.0
CB K:ASN137 4.1 14.3 1.0
ND2 K:ASN138 4.2 20.6 1.0
CZ K:PHE116 4.3 19.1 1.0
CG K:ASN137 4.3 17.1 1.0
O K:HOH454 4.3 14.6 1.0
CG2 H:THR137 4.4 20.1 1.0
CE2 K:PHE116 4.5 17.8 1.0
CG2 H:THR192 4.5 17.1 1.0
CG K:ASN138 4.7 14.9 1.0
O K:ASN137 4.7 16.5 1.0
CB K:ASN138 4.8 16.0 1.0
OG1 H:THR192 4.9 18.0 1.0
CB H:THR137 4.9 19.1 1.0
CB H:THR192 4.9 14.8 1.0
C K:ASN137 5.0 14.4 1.0

Chlorine binding site 7 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 7 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl218

b:17.5
occ:1.00
 OG H:SER134 3.1 32.0 1.0
CE K:LYS207 3.4 33.5 1.0
NZ K:LYS207 3.5 38.7 1.0
N K:VAL115 3.6 16.6 1.0
O K:HOH722 3.8 24.8 1.0
CB H:SER134 4.1 28.4 1.0
O K:VAL115 4.1 15.7 1.0
CA K:SER114 4.2 17.0 1.0
O K:HOH436 4.2 29.9 1.0
CG1 K:VAL205 4.4 24.5 1.0
CB K:VAL115 4.4 16.4 1.0
C K:SER114 4.4 16.1 1.0
CA K:VAL115 4.4 15.4 1.0
O H:HOH727 4.5 44.1 1.0
CG2 K:VAL115 4.6 15.3 1.0
O K:PRO113 4.7 17.4 1.0
C K:VAL115 4.8 15.7 1.0
CB K:SER114 4.8 16.4 1.0
CD K:LYS207 4.9 31.6 1.0
CA H:SER134 4.9 28.6 1.0

Chlorine binding site 8 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 8 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl219

b:17.1
occ:1.00
 NZ K:LYS169 3.3 35.4 1.0
O H:HOH844 3.3 26.7 1.0
CB H:SER168 3.9 23.7 1.0
CA H:SER168 4.0 22.4 1.0
CD K:LYS169 4.1 29.2 1.0
OG H:SER168 4.2 28.0 1.0
CE K:LYS169 4.2 31.2 1.0
N H:SER168 4.7 21.4 1.0

Chlorine binding site 9 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 9 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl220

b:24.7
occ:1.00
 O K:HOH622 3.3 26.7 1.0
O K:HOH232 3.4 15.3 1.0
OG1 K:THR85 3.6 16.0 1.0
O K:HOH263 3.8 15.2 1.0
CG K:ARG103 3.9 17.6 1.0
CG K:PRO40 3.9 20.5 1.0
N K:THR85 3.9 14.0 1.0
C K:ALA84 3.9 14.5 1.0
O K:HOH373 4.0 23.9 1.0
CA K:ALA84 4.0 15.4 1.0
CD K:PRO40 4.2 20.2 1.0
CD K:ARG103 4.3 23.3 1.0
O K:ALA84 4.5 13.7 1.0
O K:HOH299 4.5 20.9 1.0
CB K:THR85 4.5 15.5 1.0
N K:ALA84 4.6 15.9 1.0
O K:GLN38 4.7 15.7 1.0
CA K:THR85 4.7 13.8 1.0
OE1 K:GLU165 4.8 25.8 0.5
O K:HOH268 4.9 16.7 1.0
N K:PRO40 4.9 20.0 1.0

Chlorine binding site 10 out of 28 in 3oaz

Go back to Chlorine Binding Sites List in 3oaz
Chlorine binding site 10 out of 28 in the A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of A Non-Self Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cl222

b:23.6
occ:1.00
 O H:HOH868 2.4 26.1 1.0
OE1 K:GLN160 3.1 28.7 1.0
O K:HOH635 3.1 28.0 1.0
O K:HOH251 3.4 14.3 1.0
CG2 H:VAL177 3.6 19.2 0.3
CB K:GLN160 3.8 20.4 1.0
CD K:GLN160 3.9 28.7 1.0
CG K:GLN160 4.2 25.2 1.0
CB K:THR178 4.2 18.3 1.0
CG2 K:THR178 4.3 20.0 1.0
CG H:GLN179 4.3 22.5 1.0
O K:HOH253 4.4 20.5 1.0
OE1 H:GLN179 4.4 26.3 1.0
O H:HOH545 4.4 27.8 1.0
OG1 K:THR180 4.6 27.1 1.0
CB H:SER186 4.7 17.0 1.0
CB H:VAL177 4.7 22.2 0.7
CD H:GLN179 4.7 23.9 1.0
OG1 K:THR178 4.8 19.0 1.0
O K:THR178 4.8 16.7 1.0
CG1 H:VAL177 4.8 22.8 0.7
CB H:VAL177 4.8 21.2 0.3
OG H:SER186 4.9 21.0 1.0
CA K:GLN160 4.9 20.1 1.0
O K:HOH539 4.9 28.9 1.0
N K:GLN160 5.0 19.0 1.0

Reference:

K.J.Doores, Z.Fulton, V.Hong, M.K.Patel, C.N.Scanlan, M.R.Wormald, M.G.Finn, D.R.Burton, I.A.Wilson, B.G.Davis. A Nonself Sugar Mimic of the Hiv Glycan Shield Shows Enhanced Antigenicity. Proc.Natl.Acad.Sci.Usa V. 107 17107 2010.
ISSN: ISSN 0027-8424
PubMed: 20852065
DOI: 10.1073/PNAS.1002717107
Page generated: Sun Jul 21 01:31:31 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy