Fluorine in PDB 3cmt: Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures

The structure of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmt was solved by Z.Chen, H.Yang, N.P.Pavletich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 3.15
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	159.000, 300.500, 80.100, 90.00, 90.00, 90.00
R / Rfree (%)	21.7 / 24.3

The structure of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures also contains other interesting chemical elements:

Magnesium	(Mg)	10 atoms
Aluminium	(Al)	10 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40;

Binding sites:

The binding sites of Fluorine atom in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures (pdb code 3cmt). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 40 binding sites of Fluorine where determined in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmt:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F501 b:44.1 occ:1.00 F1 A:ALF501 0.0 44.1 1.0 AL A:ALF501 1.8 44.1 1.0 F3 A:ALF501 2.5 39.0 1.0 F4 A:ALF501 2.5 38.6 1.0 O3B A:ADP502 2.6 49.0 1.0 CD2 A:PHE1217 3.1 41.9 1.0 CA A:GLU68 3.1 45.5 1.0 CB A:GLU68 3.3 46.2 1.0 NZ A:LYS1248 3.4 37.4 1.0 N A:SER69 3.4 46.1 1.0 O A:PHE1217 3.6 46.1 1.0 F2 A:ALF501 3.6 46.7 1.0 CA A:PHE1217 3.6 44.9 1.0 NZ A:LYS72 3.6 44.7 1.0 C A:GLU68 3.8 45.9 1.0 CG A:PHE1217 3.8 43.4 1.0 CE2 A:PHE1217 3.9 42.0 1.0 CB A:PHE1217 3.9 43.7 1.0 C A:PHE1217 4.0 45.4 1.0 PB A:ADP502 4.1 49.2 1.0 N A:GLU68 4.2 43.3 1.0 CE A:LYS1248 4.3 37.8 1.0 CE A:LYS72 4.4 44.4 1.0 O A:PRO67 4.6 40.8 1.0 CA A:SER69 4.6 46.4 1.0 O2B A:ADP502 4.7 47.3 1.0 CG A:GLU68 4.7 50.0 1.0 OE2 A:GLU96 4.7 56.1 1.0 N A:PHE1217 4.7 45.5 1.0 O A:LYS1216 4.7 46.1 1.0 C A:PRO67 4.8 41.8 1.0 O1B A:ADP502 4.9 46.2 1.0 O3A A:ADP502 5.0 47.1 1.0 MG A:MG500 5.0 44.5 1.0

Fluorine binding site 2 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F501 b:46.7 occ:1.00 F2 A:ALF501 0.0 46.7 1.0 AL A:ALF501 1.8 44.1 1.0 MG A:MG500 2.0 44.5 1.0 O3B A:ADP502 2.5 49.0 1.0 F4 A:ALF501 2.5 38.6 1.0 F3 A:ALF501 2.6 39.0 1.0 O1B A:ADP502 2.7 46.2 1.0 NZ A:LYS1250 3.0 47.7 1.0 CE A:LYS1250 3.0 46.5 1.0 PB A:ADP502 3.1 49.2 1.0 OE1 A:GLU96 3.2 57.1 1.0 F1 A:ALF501 3.6 44.1 1.0 OG1 A:THR73 3.6 45.5 1.0 O2A A:ADP502 3.6 47.9 1.0 CD A:GLU96 3.9 54.8 1.0 OE2 A:GLU96 4.0 56.1 1.0 O3A A:ADP502 4.1 47.1 1.0 CD A:LYS1250 4.4 44.5 1.0 O2B A:ADP502 4.4 47.3 1.0 PA A:ADP502 4.5 48.5 1.0 O A:PHE1217 4.7 46.1 1.0 OD1 A:ASP144 4.8 56.2 1.0 CB A:THR73 4.8 44.9 1.0 CG A:LYS1250 4.9 44.4 1.0 OD2 A:ASP144 4.9 56.7 1.0

Fluorine binding site 3 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F501 b:39.0 occ:1.00 F3 A:ALF501 0.0 39.0 1.0 AL A:ALF501 1.8 44.1 1.0 O3B A:ADP502 2.4 49.0 1.0 F1 A:ALF501 2.5 44.1 1.0 F2 A:ALF501 2.6 46.7 1.0 NZ A:LYS1248 2.7 37.4 1.0 CE A:LYS1248 3.0 37.8 1.0 CE A:LYS1250 3.4 46.5 1.0 NZ A:LYS1250 3.5 47.7 1.0 F4 A:ALF501 3.6 38.6 1.0 O A:PHE1217 3.6 46.1 1.0 N A:SER69 3.7 46.1 1.0 PB A:ADP502 3.8 49.2 1.0 CD A:LYS1250 3.9 44.5 1.0 O3A A:ADP502 4.1 47.1 1.0 CG A:LYS1250 4.2 44.4 1.0 OG A:SER69 4.2 49.1 1.0 CA A:SER69 4.3 46.4 1.0 O2A A:ADP502 4.3 47.9 1.0 O1B A:ADP502 4.3 46.2 1.0 MG A:MG500 4.5 44.5 1.0 CD A:LYS1248 4.5 38.5 1.0 C A:PHE1217 4.7 45.4 1.0 CB A:GLU68 4.7 46.2 1.0 C A:GLU68 4.7 45.9 1.0 CA A:GLU68 4.7 45.5 1.0 O A:ALA1219 4.8 44.3 1.0 CB A:SER69 4.8 47.0 1.0 CA A:PHE1217 4.9 44.9 1.0 PA A:ADP502 4.9 48.5 1.0 O2B A:ADP502 5.0 47.3 1.0

Fluorine binding site 4 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F501 b:38.6 occ:1.00 F4 A:ALF501 0.0 38.6 1.0 AL A:ALF501 1.8 44.1 1.0 F1 A:ALF501 2.5 44.1 1.0 F2 A:ALF501 2.5 46.7 1.0 O3B A:ADP502 2.7 49.0 1.0 MG A:MG500 3.0 44.5 1.0 OE2 A:GLU96 3.1 56.1 1.0 CE A:LYS72 3.2 44.4 1.0 NZ A:LYS72 3.3 44.7 1.0 PB A:ADP502 3.5 49.2 1.0 F3 A:ALF501 3.6 39.0 1.0 O1B A:ADP502 3.6 46.2 1.0 OE1 A:GLU96 3.7 57.1 1.0 CD A:GLU96 3.8 54.8 1.0 CD2 A:PHE1217 3.9 41.9 1.0 O2B A:ADP502 4.1 47.3 1.0 OG A:SER145 4.4 51.2 1.0 CG A:GLN194 4.6 47.6 1.0 O A:PHE1217 4.6 46.1 1.0 CE2 A:PHE1217 4.6 42.0 1.0 CD A:LYS72 4.6 44.2 1.0 OE1 A:GLN194 4.7 51.9 1.0 NZ A:LYS1250 4.8 47.7 1.0 OD1 A:ASP144 4.8 56.2 1.0 CB A:PHE1217 4.9 43.7 1.0 CG A:PHE1217 4.9 43.4 1.0 O3A A:ADP502 5.0 47.1 1.0

Fluorine binding site 5 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F1501 b:41.2 occ:1.00 F1 A:ALF1501 0.0 41.2 1.0 AL A:ALF1501 1.8 35.1 1.0 O3B A:ADP1502 2.4 35.2 1.0 F4 A:ALF1501 2.5 36.0 1.0 F3 A:ALF1501 2.5 36.0 1.0 CA A:GLU1068 3.0 43.1 1.0 N A:SER1069 3.2 44.2 1.0 CB A:GLU1068 3.2 43.6 1.0 CD2 A:PHE2217 3.3 43.9 1.0 NZ A:LYS2248 3.5 37.5 1.0 F2 A:ALF1501 3.5 38.6 1.0 NZ A:LYS1072 3.6 46.4 1.0 C A:GLU1068 3.6 43.7 1.0 O A:PHE2217 3.8 47.3 1.0 PB A:ADP1502 3.8 34.7 1.0 CA A:PHE2217 3.9 45.6 1.0 CE2 A:PHE2217 4.0 43.8 1.0 N A:GLU1068 4.1 41.8 1.0 CG A:PHE2217 4.2 43.3 1.0 CB A:PHE2217 4.2 44.3 1.0 CE A:LYS2248 4.2 36.3 1.0 C A:PHE2217 4.3 45.9 1.0 CA A:SER1069 4.4 45.3 1.0 CE A:LYS1072 4.4 45.4 1.0 O A:PRO1067 4.5 41.7 1.0 O2B A:ADP1502 4.5 33.0 1.0 O1B A:ADP1502 4.6 35.4 1.0 CG A:GLU1068 4.6 49.8 1.0 C A:PRO1067 4.7 42.1 1.0 O3A A:ADP1502 4.8 33.8 1.0 O A:GLU1068 4.9 44.3 1.0 OE2 A:GLU1096 4.9 58.2 1.0 O A:LYS2216 4.9 48.5 1.0

Fluorine binding site 6 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F1501 b:38.6 occ:1.00 F2 A:ALF1501 0.0 38.6 1.0 AL A:ALF1501 1.8 35.1 1.0 MG A:MG1500 2.0 38.0 1.0 F3 A:ALF1501 2.5 36.0 1.0 F4 A:ALF1501 2.6 36.0 1.0 NZ A:LYS2250 2.7 49.9 1.0 CE A:LYS2250 2.8 48.0 1.0 O1B A:ADP1502 2.8 35.4 1.0 O3B A:ADP1502 2.8 35.2 1.0 OE1 A:GLU1096 3.1 60.6 1.0 PB A:ADP1502 3.3 34.7 1.0 F1 A:ALF1501 3.5 41.2 1.0 O2A A:ADP1502 3.8 33.4 1.0 CD A:GLU1096 3.8 57.5 1.0 OE2 A:GLU1096 3.9 58.2 1.0 OG1 A:THR1073 3.9 44.7 1.0 CD A:LYS2250 4.1 46.7 1.0 O3A A:ADP1502 4.3 33.8 1.0 O A:PHE2217 4.6 47.3 1.0 CG A:LYS2250 4.6 45.3 1.0 O2B A:ADP1502 4.7 33.0 1.0 PA A:ADP1502 4.7 33.5 1.0 NZ A:LYS2248 5.0 37.5 1.0

Fluorine binding site 7 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F1501 b:36.0 occ:1.00 F3 A:ALF1501 0.0 36.0 1.0 AL A:ALF1501 1.8 35.1 1.0 O3B A:ADP1502 2.4 35.2 1.0 F2 A:ALF1501 2.5 38.6 1.0 F1 A:ALF1501 2.5 41.2 1.0 NZ A:LYS2248 2.9 37.5 1.0 CE A:LYS2248 3.0 36.3 1.0 CE A:LYS2250 3.4 48.0 1.0 F4 A:ALF1501 3.6 36.0 1.0 NZ A:LYS2250 3.6 49.9 1.0 PB A:ADP1502 3.7 34.7 1.0 N A:SER1069 3.7 44.2 1.0 CD A:LYS2250 3.9 46.7 1.0 O A:PHE2217 3.9 47.3 1.0 CG A:LYS2250 4.0 45.3 1.0 OG A:SER1069 4.0 44.9 1.0 O3A A:ADP1502 4.0 33.8 1.0 O1B A:ADP1502 4.1 35.4 1.0 O2A A:ADP1502 4.2 33.4 1.0 CA A:SER1069 4.2 45.3 1.0 MG A:MG1500 4.3 38.0 1.0 CD A:LYS2248 4.5 37.0 1.0 C A:GLU1068 4.7 43.7 1.0 CB A:SER1069 4.7 45.4 1.0 CB A:GLU1068 4.7 43.6 1.0 CA A:GLU1068 4.8 43.1 1.0 PA A:ADP1502 4.8 33.5 1.0 O A:ALA2219 4.9 44.8 1.0 O2B A:ADP1502 4.9 33.0 1.0 C A:PHE2217 4.9 45.9 1.0

Fluorine binding site 8 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F1501 b:36.0 occ:1.00 F4 A:ALF1501 0.0 36.0 1.0 AL A:ALF1501 1.8 35.1 1.0 F1 A:ALF1501 2.5 41.2 1.0 F2 A:ALF1501 2.6 38.6 1.0 O3B A:ADP1502 2.7 35.2 1.0 OE2 A:GLU1096 3.1 58.2 1.0 MG A:MG1500 3.3 38.0 1.0 CE A:LYS1072 3.4 45.4 1.0 NZ A:LYS1072 3.4 46.4 1.0 O1B A:ADP1502 3.4 35.4 1.0 PB A:ADP1502 3.4 34.7 1.0 F3 A:ALF1501 3.6 36.0 1.0 OE1 A:GLU1096 3.6 60.6 1.0 CD A:GLU1096 3.8 57.5 1.0 CD2 A:PHE2217 4.1 43.9 1.0 O2B A:ADP1502 4.1 33.0 1.0 OG A:SER1145 4.5 49.3 1.0 O A:PHE2217 4.6 47.3 1.0 NZ A:LYS2250 4.6 49.9 1.0 CG A:GLN1194 4.7 46.6 1.0 OE1 A:GLN1194 4.7 52.7 1.0 CE2 A:PHE2217 4.8 43.8 1.0 CD A:LYS1072 4.8 43.6 1.0 OD1 A:ASP1144 4.9 60.6 1.0 O3A A:ADP1502 4.9 33.8 1.0 CB A:PHE2217 5.0 44.3 1.0

Fluorine binding site 9 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F2501 b:27.3 occ:1.00 F1 A:ALF2501 0.0 27.3 1.0 AL A:ALF2501 1.8 26.5 1.0 O3B A:ADP2502 2.5 27.5 1.0 F4 A:ALF2501 2.5 24.9 1.0 F3 A:ALF2501 2.5 25.5 1.0 CA A:GLU2068 3.0 45.0 1.0 CD2 A:PHE3217 3.1 42.1 1.0 N A:SER2069 3.2 45.9 1.0 CB A:GLU2068 3.3 45.6 1.0 NZ A:LYS2072 3.5 42.6 1.0 F2 A:ALF2501 3.6 28.5 1.0 C A:GLU2068 3.6 45.1 1.0 NZ A:LYS3248 3.7 38.1 1.0 CE2 A:PHE3217 3.8 39.5 1.0 CA A:PHE3217 3.9 44.2 1.0 PB A:ADP2502 3.9 22.4 1.0 O A:PHE3217 3.9 48.4 1.0 CG A:PHE3217 4.0 42.2 1.0 N A:GLU2068 4.1 43.6 1.0 CB A:PHE3217 4.2 42.4 1.0 CE A:LYS2072 4.3 43.0 1.0 CA A:SER2069 4.4 46.5 1.0 CE A:LYS3248 4.4 39.2 1.0 C A:PHE3217 4.4 45.6 1.0 O2B A:ADP2502 4.4 23.9 1.0 O A:PRO2067 4.4 42.6 1.0 CG A:GLU2068 4.6 51.4 1.0 C A:PRO2067 4.7 43.1 1.0 O1B A:ADP2502 4.7 21.2 1.0 MG A:MG2500 4.8 25.7 1.0 O A:GLU2068 4.9 44.0 1.0 O3A A:ADP2502 4.9 24.1 1.0 OE2 A:GLU2096 4.9 59.0 1.0 O A:LYS3216 4.9 46.8 1.0

Fluorine binding site 10 out of 40 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:F2501 b:28.5 occ:1.00 F2 A:ALF2501 0.0 28.5 1.0 AL A:ALF2501 1.8 26.5 1.0 MG A:MG2500 1.9 25.7 1.0 F3 A:ALF2501 2.5 25.5 1.0 F4 A:ALF2501 2.5 24.9 1.0 O3B A:ADP2502 2.7 27.5 1.0 O1B A:ADP2502 2.9 21.2 1.0 NZ A:LYS3250 3.0 51.3 1.0 CE A:LYS3250 3.0 49.1 1.0 OE1 A:GLU2096 3.1 59.4 1.0 PB A:ADP2502 3.3 22.4 1.0 F1 A:ALF2501 3.6 27.3 1.0 OG1 A:THR2073 3.8 40.8 1.0 CD A:GLU2096 3.9 57.0 1.0 O2A A:ADP2502 4.0 27.2 1.0 OE2 A:GLU2096 4.0 59.0 1.0 CD A:LYS3250 4.3 44.6 1.0 O3A A:ADP2502 4.3 24.1 1.0 O2B A:ADP2502 4.6 23.9 1.0 O A:PHE3217 4.7 48.4 1.0 CG A:LYS3250 4.8 43.1 1.0 PA A:ADP2502 4.8 26.0 1.0 OD1 A:ASP2144 5.0 57.6 1.0 CB A:THR2073 5.0 43.2 1.0

Z.Chen, H.Yang, N.P.Pavletich. Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures. Nature V. 453 489 2008.
ISSN: ISSN 0028-0836
PubMed: 18497818
DOI: 10.1038/NATURE06971