Chlorine in PDB 1kqs: The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis

The structure of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis, PDB code: 1kqs was solved by T.M.Schmeing, A.C.Seila, J.L.Hansen, B.Freeborn, J.K.Soukup, S.A.Scaringe, S.A.Strobel, 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)	20.00 / 3.10
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	212.784, 300.349, 574.961, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 22

The structure of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis also contains other interesting chemical elements:

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

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 The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis (pdb code 1kqs). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 22 binding sites of Chlorine where determined in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis, PDB code: 1kqs:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8503 b:49.9 occ:1.00 O 0:HOH5314 3.2 51.3 1.0 N2 0:G1676 3.2 31.5 1.0 O 0:HOH8934 3.3 34.2 1.0 O 0:HOH3074 3.7 43.7 1.0 C1' 0:G1452 3.7 38.5 1.0 CE 1:LYS2 3.9 29.9 1.0 O 0:HOH7066 3.9 35.0 1.0 O2' 0:G1452 4.0 40.3 1.0 O 0:HOH4209 4.0 62.9 1.0 C2 0:G1676 4.3 31.0 1.0 O4' 0:G1452 4.3 38.6 1.0 N3 0:A1486 4.4 34.6 1.0 C2 0:A1486 4.4 33.5 1.0 C2' 0:G1452 4.4 38.1 1.0 N3 0:G1676 4.4 31.9 1.0 O2 0:C1451 4.5 40.4 1.0 O 0:HOH6286 4.5 46.2 1.0 N9 0:G1452 4.6 39.0 1.0 N3 0:G1452 4.7 41.5 1.0 CD 1:LYS2 4.8 27.6 1.0 NZ 1:LYS2 4.8 30.9 1.0

Chlorine binding site 2 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8505 b:57.6 occ:1.00 N2 0:G201 3.0 46.1 1.0 O 0:HOH4405 3.1 40.5 1.0 O 0:HOH4036 3.3 36.6 1.0 O 0:HOH9690 3.5 31.7 1.0 C1' 0:U202 3.7 40.6 1.0 O4' 0:U202 3.7 43.3 1.0 C5 0:C197 3.8 49.1 1.0 C5' 0:G229 3.9 41.6 1.0 C2 0:G201 4.0 46.1 1.0 N3 0:G201 4.2 47.1 1.0 C4' 0:G229 4.3 40.8 1.0 O2 0:U202 4.4 44.0 1.0 N1 0:U202 4.4 41.0 1.0 O3' 0:G229 4.4 40.9 1.0 O2' 0:U202 4.5 39.9 1.0 C6 0:C197 4.5 48.6 1.0 O 0:HOH9260 4.5 34.9 1.0 O2 0:C195 4.6 30.6 1.0 C2 0:U202 4.6 41.8 1.0 N1 0:A199 4.7 58.3 1.0 C2' 0:U202 4.8 40.5 1.0 C4' 0:U202 4.8 43.3 1.0 N4 0:C197 4.8 50.3 1.0 C4 0:C197 4.8 49.5 1.0 C2 0:A199 4.9 57.8 1.0 OP1 0:G229 5.0 39.9 1.0 C3' 0:G229 5.0 40.3 1.0

Chlorine binding site 3 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8511 b:63.8 occ:1.00 O 0:HOH9669 3.0 8.0 1.0 O2' 0:C2388 3.2 26.1 1.0 N P:HIS53 3.2 37.1 1.0 CE2 P:PHE56 3.6 25.4 1.0 CB P:PHE52 3.8 38.2 1.0 C4' 0:C2388 3.8 27.7 1.0 CD2 P:PHE56 3.8 24.9 1.0 O4' 0:C2388 3.8 29.1 1.0 CA P:PHE52 3.9 39.0 1.0 CB P:HIS53 3.9 37.0 1.0 C1' 0:C2388 4.0 29.7 1.0 C P:PHE52 4.1 38.5 1.0 CG2 P:ILE84 4.1 34.6 1.0 C2' 0:C2388 4.1 28.4 1.0 CA P:HIS53 4.2 35.4 1.0 O 0:HOH3092 4.4 55.2 1.0 O P:HOH3082 4.5 49.8 1.0 CG1 P:ILE84 4.5 36.0 1.0 C3' 0:C2388 4.5 28.1 1.0 CB P:ILE84 4.7 35.9 1.0 CD1 P:ILE84 4.8 37.9 1.0 O3' 0:C2388 4.8 28.6 1.0 CZ P:PHE56 4.9 24.2 1.0 C5' 0:C2388 4.9 27.1 1.0 CA P:ILE84 4.9 36.7 1.0

Chlorine binding site 4 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8512 b:34.1 occ:1.00 O 0:HOH4599 2.8 40.4 1.0 NZ J:LYS14 2.9 21.0 1.0 OG J:SER33 3.3 36.6 1.0 C2 0:A2596 3.3 39.6 1.0 N2 0:G2582 3.5 34.4 1.0 N3 0:A2596 3.5 39.8 1.0 O J:ILE32 3.6 31.6 1.0 O 0:HOH7077 3.6 34.8 1.0 CB J:SER33 3.8 34.5 1.0 CG J:PRO45 3.9 29.7 1.0 CD J:LYS14 3.9 22.0 1.0 CE J:LYS14 3.9 20.2 1.0 CA J:SER33 3.9 33.4 1.0 CB J:PRO45 4.1 30.8 1.0 C1' 0:U2597 4.2 39.3 1.0 N3 0:A2583 4.4 33.8 1.0 N1 0:A2596 4.5 39.1 1.0 O J:HOH7169 4.5 0.4 1.0 C J:ILE32 4.6 30.9 1.0 O2' 0:U2597 4.6 40.7 1.0 O2 0:U2597 4.6 41.2 1.0 CG J:LYS14 4.6 23.3 1.0 C2 0:G2582 4.7 32.8 1.0 O4' 0:U2597 4.8 38.2 1.0 N J:SER33 4.8 31.8 1.0 C1' 0:A2583 4.8 28.4 1.0 N1 0:U2597 4.9 40.0 1.0 C4 0:A2596 4.9 39.2 1.0 N J:VAL34 4.9 34.4 1.0 C2' 0:U2597 5.0 38.3 1.0 C4 0:A2583 5.0 32.4 1.0

Chlorine binding site 5 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8513 b:52.8 occ:1.00 O 0:HOH4159 2.8 0.9 1.0 N1 0:A1329 3.1 21.4 1.0 O 0:HOH4449 3.3 41.6 1.0 O2' 0:G1300 3.6 21.7 1.0 N6 0:A1328 3.7 21.7 1.0 C2 0:A1329 3.7 19.3 1.0 O 0:HOH3145 3.8 30.2 1.0 O X:HOH8534 3.8 24.0 1.0 N2 0:G1299 3.8 29.2 1.0 C1' 0:G1300 4.0 24.6 1.0 C6 0:A1329 4.1 22.2 1.0 O4' 0:G1300 4.1 25.7 1.0 N6 0:A1329 4.2 25.6 1.0 N1 0:A1330 4.3 27.0 1.0 C2' 0:G1300 4.4 23.5 1.0 N3 0:G1299 4.6 29.6 1.0 C4' 0:G1300 4.6 24.4 1.0 C2 0:G1299 4.7 29.1 1.0 O 0:HOH4327 4.7 45.5 1.0 C2 0:A1330 4.7 27.3 1.0 C6 0:A1328 5.0 18.8 1.0

Chlorine binding site 6 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8514 b:44.9 occ:1.00 O 0:HOH7209 2.9 36.8 1.0 ND1 K:HIS13 3.0 14.3 1.0 O2' 0:G644 3.1 20.7 1.0 C2' 0:G644 3.7 18.0 1.0 CG K:GLN7 3.8 28.4 1.0 CE1 K:HIS13 3.9 13.8 1.0 N9 0:G644 3.9 17.6 1.0 CG K:HIS13 4.0 15.3 1.0 C4 0:G644 4.0 18.1 1.0 CB K:HIS13 4.1 15.1 1.0 C1' 0:G644 4.2 17.9 1.0 C8 0:G644 4.2 20.3 1.0 CG K:LYS4 4.3 26.1 1.0 CB K:GLN7 4.4 24.5 1.0 N3 0:G644 4.4 20.1 1.0 C5 0:G644 4.4 20.1 1.0 N7 0:G644 4.6 20.5 1.0 O 0:HOH9689 4.6 39.1 1.0 CD K:GLN7 4.7 30.6 1.0 CA K:LYS4 4.8 25.5 1.0 CB K:LYS4 4.9 24.4 1.0 OE1 K:GLN7 4.9 32.0 1.0 O 0:HOH6589 4.9 77.3 1.0 C2 0:G644 5.0 20.6 1.0

Chlorine binding site 7 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8515 b:72.2 occ:1.00 N6 0:A1598 3.1 40.3 1.0 N6 0:A1597 3.3 37.5 1.0 N2 0:G1646 3.5 43.1 1.0 O 0:HOH6282 3.6 66.0 1.0 N7 0:A1597 3.9 38.4 1.0 C6 0:A1598 4.0 38.4 1.0 C1' 0:G1647 4.2 44.2 1.0 C6 0:A1597 4.2 37.1 1.0 C1' 0:G1540 4.3 46.0 1.0 O4' 0:G1647 4.3 43.8 1.0 C5 0:A1597 4.4 38.2 1.0 O2' 0:U1596 4.5 50.1 1.0 C2 0:G1646 4.5 43.7 1.0 C5 0:A1598 4.6 37.6 1.0 O4' 0:G1540 4.7 44.8 1.0 N7 0:A1598 4.7 37.5 1.0 N3 0:G1646 4.7 43.9 1.0 N1 0:A1598 4.8 38.9 1.0 O2' 0:G1540 4.9 45.6 1.0 O2' 0:G1647 4.9 39.8 1.0 N3 0:G1540 5.0 46.5 1.0

Chlorine binding site 8 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8516 b:44.0 occ:1.00 O2' 0:G1119 3.2 24.1 1.0 NZ I:LYS56 3.3 31.3 1.0 C8 0:G1119 3.5 20.2 1.0 N4 0:C1243 3.6 30.6 1.0 CD I:LYS56 3.6 30.7 1.0 NE2 I:GLN52 3.8 42.8 1.0 C2' 0:G1119 3.9 24.1 1.0 CE I:LYS56 3.9 31.9 1.0 OE1 I:GLN52 4.1 41.9 1.0 N7 0:G1119 4.1 18.2 1.0 N9 0:G1119 4.2 20.1 1.0 CD I:GLN52 4.4 41.7 1.0 C1' 0:G1119 4.5 22.8 1.0 C4 0:C1243 4.6 31.6 1.0 C5 0:C1243 4.7 31.2 1.0 O 0:HOH9954 4.8 33.1 1.0 N6 0:A1242 4.9 23.4 1.0 CG I:LYS56 4.9 29.7 1.0 O I:HOH5036 4.9 44.1 1.0 O 0:HOH6431 5.0 41.9 1.0

Chlorine binding site 9 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8517 b:57.6 occ:1.00 O X:HOH8557 2.8 85.0 1.0 O2' 0:C594 2.9 38.0 1.0 O X:HOH8536 3.0 45.8 1.0 O X:HOH8596 3.3 40.1 1.0 CG X:ARG115 3.5 39.5 1.0 O4' 0:U595 3.6 47.3 1.0 CD X:ARG115 3.7 39.8 1.0 NE X:ARG115 3.7 42.2 1.0 C4' 0:U595 3.8 45.2 1.0 C5' 0:U595 3.8 41.2 1.0 NH2 X:ARG122 3.9 40.5 1.0 C2' 0:C594 3.9 39.8 1.0 O 0:HOH6026 4.2 42.5 1.0 O2 0:C594 4.5 49.0 1.0 O 0:HOH5780 4.6 61.7 1.0 CZ X:ARG115 4.8 43.9 1.0 C1' 0:C594 4.8 41.6 1.0 C1' 0:U595 4.8 47.5 1.0 NE2 X:GLN119 4.9 28.2 1.0 CB X:ARG115 4.9 39.9 1.0 CZ X:ARG122 4.9 40.8 1.0 O5' 0:U595 5.0 37.9 1.0

Chlorine binding site 10 out of 22 in the The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of The Haloarcula Marismortui 50S Complexed with A Pretranslocational Intermediate in Protein Synthesis within 5.0Å range: probe atom residue distance (Å) B Occ 0:Cl8522 b:76.2 occ:1.00 O 0:HOH4834 3.1 39.1 1.0 N1 0:G1072 3.1 17.7 1.0 C8 0:G1087 3.4 26.1 1.0 O2' 0:G1087 3.5 28.3 1.0 N2 0:G1072 3.5 16.0 1.0 N7 0:G1087 3.8 25.3 1.0 N7 0:A1291 3.8 27.6 1.0 C2 0:G1072 3.9 16.5 1.0 C2' 0:G1087 3.9 27.7 1.0 N9 0:G1087 3.9 26.3 1.0 OE2 V:GLU10 4.1 37.9 1.0 O6 0:G1072 4.1 23.4 1.0 C6 0:G1072 4.1 20.7 1.0 C5 0:A1291 4.2 27.3 1.0 O 0:HOH8663 4.3 42.8 1.0 N6 0:A1291 4.3 29.1 1.0 C1' 0:G1087 4.4 27.6 1.0 C8 0:A1291 4.4 26.5 1.0 C6 0:A1291 4.5 28.0 1.0 C5 0:G1087 4.5 26.0 1.0 C4 0:G1087 4.6 25.7 1.0

T.M.Schmeing, A.C.Seila, J.L.Hansen, B.Freeborn, J.K.Soukup, S.A.Scaringe, S.A.Strobel, P.B.Moore, T.A.Steitz. A Pre-Translocational Intermediate in Protein Synthesis Observed in Crystals of Enzymatically Active 50S Subunits. Nat.Struct.Biol. V. 9 225 2002.
ISSN: ISSN 1072-8368
PubMed: 11828326