Atomistry » Chlorine » PDB 1y88-1ym9 » 1yjw
Atomistry »
  Chlorine »
    PDB 1y88-1ym9 »
      1yjw »

Chlorine in PDB 1yjw: Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui

Protein crystallography data

The structure of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui, PDB code: 1yjw was solved by D.Tu, G.Blaha, P.B.Moore, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.98 / 2.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 211.690, 299.779, 573.885, 90.00, 90.00, 90.00
R / Rfree (%) 17.1 / 22.3

Other elements in 1yjw:

The structure of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui also contains other interesting chemical elements:

Magnesium (Mg) 117 atoms
Potassium (K) 2 atoms
Cadmium (Cd) 5 atoms
Sodium (Na) 86 atoms

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Chlorine atom in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui (pdb code 1yjw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 22 binding sites of Chlorine where determined in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui, PDB code: 1yjw:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 1 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3186

b:43.6
occ:1.00
 N2 0:G1676 3.2 39.9 1.0
O 0:HOH7176 3.3 41.7 1.0
C1' 0:G1452 3.5 40.5 1.0
O 0:HOH7526 3.6 37.1 1.0
O2' 0:G1452 3.7 42.4 1.0
O 0:HOH7250 4.0 49.9 1.0
O 0:HOH7251 4.1 44.0 1.0
CE 2:LYS2 4.1 34.4 1.0
O4' 0:G1452 4.1 41.6 1.0
N3 0:A1486 4.1 35.0 1.0
C2 0:A1486 4.2 34.4 1.0
C2' 0:G1452 4.2 40.2 1.0
C2 0:G1676 4.3 38.8 1.0
O2 0:C1451 4.4 40.5 1.0
N3 0:G1676 4.5 39.3 1.0
N9 0:G1452 4.5 39.4 1.0
N3 0:G1452 4.6 39.0 1.0
O 0:HOH4402 4.7 34.3 1.0
CD 2:LYS2 4.8 32.4 1.0
C4 0:G1452 4.9 39.1 1.0
O 0:HOH4466 5.0 56.8 1.0

Chlorine binding site 2 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 2 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3187

b:57.1
occ:1.00
 O 0:HOH4593 3.1 44.9 1.0
O 0:HOH4597 3.4 26.6 1.0
N2 0:G201 3.5 40.6 1.0
O 0:HOH4578 3.5 36.4 1.0
C5 0:C197 3.6 43.2 1.0
O4' 0:U202 3.7 43.7 1.0
C1' 0:U202 3.7 42.8 1.0
C5' 0:G229 3.9 40.0 1.0
O3' 0:G229 4.0 38.2 1.0
C4' 0:G229 4.2 38.5 1.0
O2' 0:U202 4.3 41.2 1.0
N4 0:C197 4.3 42.6 1.0
C6 0:C197 4.4 41.1 1.0
C2 0:G201 4.4 40.8 1.0
C4 0:C197 4.4 43.2 1.0
N3 0:G201 4.5 41.8 1.0
N1 0:U202 4.6 41.5 1.0
O 0:HOH4695 4.6 31.5 1.0
OP1 0:C230 4.7 38.7 1.0
C4' 0:U202 4.7 42.4 1.0
C3' 0:G229 4.7 37.9 1.0
O2 0:U202 4.7 41.2 1.0
C2' 0:U202 4.7 42.3 1.0
OP1 0:G229 4.9 39.8 1.0
P 0:C230 4.9 39.5 1.0
C2 0:U202 4.9 41.1 1.0

Chlorine binding site 3 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 3 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3188

b:57.8
occ:1.00
 N Q:HIS53 3.0 35.6 1.0
O 0:HOH8773 3.1 25.8 1.0
O2' 0:C2388 3.3 30.9 1.0
CE2 Q:PHE56 3.6 30.2 1.0
CB Q:HIS53 3.7 35.3 1.0
CB Q:PHE52 3.8 37.2 1.0
CA Q:PHE52 3.8 36.9 1.0
CD2 Q:PHE56 3.8 29.8 1.0
C4' 0:C2388 3.8 29.9 1.0
O4' 0:C2388 3.9 31.0 1.0
C Q:PHE52 3.9 37.0 1.0
CA Q:HIS53 3.9 33.8 1.0
CG2 Q:ILE84 4.0 37.0 1.0
C1' 0:C2388 4.1 31.8 1.0
O 0:HOH8775 4.1 36.0 1.0
C2' 0:C2388 4.2 31.0 1.0
O 0:HOH8827 4.3 28.3 1.0
C3' 0:C2388 4.6 31.3 1.0
CG1 Q:ILE84 4.7 35.8 1.0
CB Q:ILE84 4.8 36.5 1.0
CZ Q:PHE56 4.8 31.4 1.0
O3' 0:C2388 4.9 32.9 1.0
C5' 0:C2388 4.9 29.1 1.0
O Q:HIS53 5.0 33.3 1.0
CG Q:PHE52 5.0 39.9 1.0
C Q:HIS53 5.0 32.9 1.0

Chlorine binding site 4 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 4 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3189

b:39.6
occ:1.00
 O K:HOH4017 2.6 47.9 1.0
C2 0:A2596 3.1 39.8 1.0
N3 0:A2596 3.3 40.5 1.0
NZ K:LYS14 3.3 28.9 1.0
N2 0:G2582 3.4 39.4 1.0
OG K:SER33 3.4 38.0 1.0
CD K:LYS14 3.5 29.0 1.0
O 0:HOH9244 3.6 33.9 1.0
O K:ILE32 3.6 37.3 1.0
CE K:LYS14 3.6 28.6 1.0
N3 0:A2583 4.0 35.3 1.0
CG K:PRO45 4.0 33.4 1.0
CB K:SER33 4.2 38.9 1.0
N1 0:A2596 4.3 40.4 1.0
C1' 0:U2597 4.3 41.5 1.0
CA K:SER33 4.3 38.3 1.0
CB K:PRO45 4.5 33.9 1.0
CG K:LYS14 4.6 29.2 1.0
C2 0:A2583 4.6 34.5 1.0
C4 0:A2583 4.6 34.8 1.0
C1' 0:A2583 4.6 33.4 1.0
C4 0:A2596 4.6 40.5 1.0
C2 0:G2582 4.6 38.4 1.0
O K:HOH4016 4.6 0.4 1.0
C K:ILE32 4.7 36.7 1.0
O2 0:U2597 4.7 45.7 1.0
O2' 0:U2597 4.9 41.8 1.0
N9 0:A2583 4.9 33.5 1.0
O4' 0:U2597 4.9 39.7 1.0
N1 0:U2597 4.9 42.6 1.0

Chlorine binding site 5 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 5 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3190

b:46.4
occ:1.00
 O 0:HOH6801 2.9 46.5 1.0
N1 0:G1329 3.0 32.5 1.0
N2 0:G1329 3.2 31.0 1.0
O2' 0:G1300 3.5 31.6 1.0
C2 0:G1329 3.6 32.2 1.0
N6 0:A1328 3.7 21.4 1.0
N2 0:G1299 3.7 28.5 1.0
O Y:HOH472 3.8 28.4 1.0
C1' 0:G1300 4.0 31.7 1.0
O 0:HOH6872 4.0 21.3 1.0
O 0:HOH6876 4.0 51.2 1.0
C6 0:G1329 4.1 33.7 1.0
N1 0:A1330 4.1 32.7 1.0
O6 0:G1329 4.2 37.4 1.0
O4' 0:G1300 4.2 33.7 1.0
C2' 0:G1300 4.4 31.8 1.0
N3 0:G1299 4.6 30.8 1.0
C2 0:G1299 4.6 30.0 1.0
C2 0:A1330 4.7 33.4 1.0
C4' 0:G1300 4.7 32.6 1.0
N3 0:G1329 4.9 32.3 1.0
NH2 Y:ARG169 5.0 35.6 1.0

Chlorine binding site 6 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 6 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3191

b:51.1
occ:1.00
 O2' 0:G644 2.9 23.9 1.0
ND1 L:HIS13 3.1 20.6 1.0
C2' 0:G644 3.5 24.0 1.0
N9 0:G644 3.7 17.3 1.0
C4 0:G644 3.9 17.8 1.0
CG L:GLN7 3.9 31.1 1.0
CE1 L:HIS13 3.9 19.8 1.0
O 0:HOH4226 3.9 32.8 1.0
C8 0:G644 4.0 20.0 1.0
CG L:HIS13 4.1 21.9 1.0
C1' 0:G644 4.1 22.4 1.0
CB L:HIS13 4.2 22.1 1.0
C5 0:G644 4.2 19.7 1.0
CG L:LYS4 4.3 32.6 1.0
N3 0:G644 4.3 18.1 1.0
N7 0:G644 4.3 19.8 1.0
CB L:GLN7 4.5 27.2 1.0
CD L:GLN7 4.8 34.5 1.0
O 0:HOH5640 4.8 31.3 1.0
CA L:LYS4 4.8 31.4 1.0
OE1 L:GLN7 4.8 36.7 1.0
CD L:LYS4 4.9 33.9 1.0
CE L:LYS4 4.9 37.6 1.0
CB L:LYS4 4.9 30.5 1.0
C2 0:G644 5.0 19.0 1.0
C3' 0:G644 5.0 26.2 1.0
C6 0:G644 5.0 20.1 1.0

Chlorine binding site 7 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 7 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3192

b:88.0
occ:1.00
 N6 0:A1598 3.1 43.7 1.0
N6 0:A1597 3.4 44.1 1.0
N2 0:G1646 3.4 45.6 1.0
O 0:HOH7407 3.7 34.4 1.0
N7 0:A1597 3.9 44.2 1.0
C6 0:A1598 4.0 41.7 1.0
C1' 0:G1647 4.1 43.4 1.0
O4' 0:G1647 4.2 43.1 1.0
C1' 0:G1540 4.2 50.7 1.0
C6 0:A1597 4.4 43.9 1.0
C2 0:G1646 4.5 46.1 1.0
C5 0:A1597 4.5 43.8 1.0
N3 0:G1646 4.6 46.8 1.0
O4' 0:G1540 4.6 49.2 1.0
C5 0:A1598 4.7 41.7 1.0
O2' 0:U1596 4.7 49.1 1.0
N3 0:G1540 4.7 52.0 1.0
N7 0:A1598 4.8 42.5 1.0
O2' 0:G1540 4.8 51.7 1.0
O2' 0:G1647 4.9 41.6 1.0
N1 0:A1598 4.9 41.5 1.0
N9 0:G1540 4.9 51.3 1.0
N9 0:G1647 5.0 43.6 1.0

Chlorine binding site 8 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 8 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3193

b:56.0
occ:1.00
 O2' 0:G1119 3.1 33.7 1.0
N4 0:C1243 3.2 31.8 1.0
NZ J:LYS56 3.2 30.2 1.0
C8 0:G1119 3.4 33.2 1.0
CD J:LYS56 3.7 30.9 1.0
C2' 0:G1119 3.9 34.0 1.0
N7 0:G1119 3.9 33.5 1.0
NE2 J:GLN52 3.9 48.8 1.0
O 0:HOH4307 4.0 44.9 1.0
CE J:LYS56 4.1 29.3 1.0
N9 0:G1119 4.1 32.7 1.0
OE1 J:GLN52 4.2 48.3 1.0
C4 0:C1243 4.2 33.2 1.0
C5 0:C1243 4.4 33.2 1.0
C1' 0:G1119 4.5 34.5 1.0
CD J:GLN52 4.5 48.3 1.0
N6 0:A1242 4.5 36.7 1.0
O 0:HOH6698 4.7 33.4 1.0
N7 0:A1242 4.8 36.0 1.0
C5 0:G1119 4.8 31.3 1.0
NA 0:NA3113 4.9 44.3 1.0
O6 0:G1121 4.9 30.6 1.0
C4 0:G1119 5.0 31.2 1.0

Chlorine binding site 9 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 9 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3194

b:58.7
occ:1.00
 O Y:HOH423 2.9 72.1 1.0
O2' 0:C594 3.1 52.7 1.0
O Y:HOH425 3.1 22.6 1.0
O4' 0:U595 3.3 53.8 1.0
C5' 0:U595 3.4 50.9 1.0
C4' 0:U595 3.4 52.0 1.0
O Y:HOH427 3.4 43.0 1.0
CG Y:ARG115 3.6 43.5 1.0
CD Y:ARG115 3.6 43.5 1.0
NE Y:ARG115 3.7 44.7 1.0
C2' 0:C594 3.9 53.4 1.0
NH2 Y:ARG122 3.9 36.9 1.0
O 0:HOH5318 3.9 72.4 1.0
O5' 0:U595 4.6 49.8 1.0
C1' 0:U595 4.6 53.8 1.0
O2 0:C594 4.6 59.8 1.0
O 0:HOH6733 4.8 45.9 1.0
CB Y:ARG115 4.9 42.9 1.0
CZ Y:ARG115 4.9 46.1 1.0
C1' 0:C594 4.9 55.3 1.0
O 0:HOH5320 4.9 25.4 1.0
C3' 0:U595 4.9 52.3 1.0
O Y:HOH422 4.9 34.4 1.0
CZ Y:ARG122 5.0 36.4 1.0

Chlorine binding site 10 out of 22 in 1yjw

Go back to Chlorine Binding Sites List in 1yjw
Chlorine binding site 10 out of 22 in the Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Crystal Structure of Quinupristin Bound to the G2099A Mutant 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Cl3195

b:88.6
occ:1.00
 O2' 0:G1087 3.3 37.1 1.0
N1 0:G1072 3.5 28.2 1.0
C8 0:G1087 3.6 31.0 1.0
O 0:HOH6408 3.6 45.6 1.0
N2 0:G1072 3.7 27.9 1.0
C2' 0:G1087 3.8 33.3 1.0
N7 0:A1291 4.0 32.8 1.0
N7 0:G1087 4.1 32.4 1.0
N9 0:G1087 4.1 30.3 1.0
C2 0:G1072 4.1 28.6 1.0
O 0:HOH6448 4.3 33.4 1.0
OE2 W:GLU10 4.4 44.1 1.0
C5 0:A1291 4.4 32.4 1.0
O6 0:G1072 4.5 30.3 1.0
C1' 0:G1087 4.5 32.0 1.0
C6 0:G1072 4.5 28.4 1.0
N6 0:A1291 4.5 35.0 1.0
C8 0:A1291 4.6 32.1 1.0
O 0:HOH6776 4.7 40.4 1.0
C6 0:A1291 4.7 33.3 1.0
C5 0:G1087 4.9 31.4 1.0
C4 0:G1087 4.9 30.9 1.0

Reference:

D.Tu, G.Blaha, P.B.Moore, T.A.Steitz. Structures of Mlsbk Antibiotics Bound to Mutated Large Ribosomal Subunits Provide A Structural Explanation For Resistance. Cell(Cambridge,Mass.) V. 121 257 2005.
ISSN: ISSN 0092-8674
PubMed: 15851032
DOI: 10.1016/J.CELL.2005.02.005
Page generated: Sat Jul 20 04:21:49 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy