Atomistry » Bromine » PDB 9dzm-9hh2 » 9eff
Atomistry »
  Bromine »
    PDB 9dzm-9hh2 »
      9eff »

Bromine in PDB 9eff: Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.

Protein crystallography data

The structure of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus., PDB code: 9eff was solved by R.Dhanaraju, G.Gonzalez-Gutierrez, S.D.Bell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.26 / 1.82
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 37.742, 136.051, 38.38, 90, 109.12, 90
R / Rfree (%) 20 / 22.8

Bromine Binding Sites:

The binding sites of Bromine atom in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. (pdb code 9eff). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 8 binding sites of Bromine where determined in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus., PDB code: 9eff:
Jump to Bromine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Bromine binding site 1 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 1 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Br21

b:34.5
occ:1.00
BR D:BRU21 0.0 34.5 1.0
C5 D:BRU21 1.9 25.1 1.0
C6 D:BRU21 2.9 29.9 1.0
C4 D:BRU21 2.9 26.5 1.0
O4 D:BRU21 3.1 24.8 1.0
O D:HOH109 3.3 32.7 1.0
C8 D:DA20 3.7 31.7 1.0
N7 D:DA20 3.9 31.4 1.0
O5' D:DA20 4.0 34.6 1.0
OP2 D:BRU21 4.0 27.3 1.0
N9 D:DA20 4.0 30.5 1.0
C3' D:DA20 4.1 29.3 1.0
CE A:LYS63 4.1 52.9 1.0
N1 D:BRU21 4.1 32.8 1.0
N3 D:BRU21 4.2 26.2 1.0
CD1 A:LEU68 4.2 31.8 1.0
NZ A:LYS63 4.2 54.1 1.0
C5 D:DA20 4.3 31.5 1.0
CD1 A:LEU61 4.3 23.9 1.0
C2' D:DA20 4.3 28.4 1.0
C4 D:DA20 4.4 29.6 1.0
CD2 A:LEU68 4.5 31.6 1.0
C7 D:DT22 4.5 25.9 1.0
C2 D:BRU21 4.6 30.5 1.0
C1' D:DA20 4.6 31.6 1.0
O4 D:DT22 4.8 22.9 1.0
O5' D:BRU21 4.9 31.0 1.0
C4' D:DA20 4.9 32.6 1.0
P D:BRU21 4.9 32.2 1.0
CG A:LEU68 5.0 28.2 1.0
O4' D:DA20 5.0 34.5 1.0

Bromine binding site 2 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 2 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Br24

b:25.6
occ:1.00
BR D:BRU24 0.0 25.6 1.0
C5 D:BRU24 1.9 17.5 1.0
C6 D:BRU24 2.8 24.4 1.0
C4 D:BRU24 2.9 21.9 1.0
O A:TYR41 3.0 19.8 1.0
O4 D:BRU24 3.1 19.2 1.0
O A:HOH266 3.3 21.2 1.0
CE A:LYS39 3.7 15.1 1.0
C8 D:DA23 3.8 20.1 1.0
NZ A:LYS39 3.8 19.6 1.0
N7 D:DA23 3.9 21.4 1.0
CG1 A:ILE43 4.1 21.9 1.0
O D:HOH116 4.1 18.6 1.0
C A:TYR41 4.1 21.4 1.0
N1 D:BRU24 4.1 23.8 1.0
N9 D:DA23 4.1 19.4 1.0
CD1 A:ILE43 4.1 27.2 1.0
N3 D:BRU24 4.1 24.7 1.0
C2' D:DA23 4.2 20.6 1.0
CD2 A:TYR41 4.2 29.0 1.0
N A:ILE43 4.3 19.1 1.0
C5 D:DA23 4.4 20.2 1.0
CA A:HIS42 4.4 16.7 1.0
C4 D:DA23 4.5 21.9 1.0
C2 D:BRU24 4.6 19.4 1.0
N A:HIS42 4.7 20.8 1.0
CE2 A:TYR41 4.7 38.4 1.0
C1' D:DA23 4.7 20.8 1.0
C A:HIS42 4.8 19.5 1.0
CB A:ILE43 4.9 21.2 1.0
O D:HOH126 4.9 18.0 1.0
CG A:TYR41 4.9 25.6 1.0
N7 D:DA25 5.0 18.3 1.0

Bromine binding site 3 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 3 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Br42

b:56.7
occ:1.00
BR E:BRU42 0.0 56.7 1.0
C5 E:BRU42 1.9 27.3 1.0
C6 E:BRU42 2.8 26.6 1.0
C4 E:BRU42 2.9 28.8 1.0
O4 E:BRU42 3.1 30.1 1.0
O E:HOH122 3.7 39.8 1.0
O A:HOH207 3.7 33.8 1.0
C2' E:DC41 3.8 35.5 1.0
C6 E:DC41 3.9 38.2 1.0
CG A:LYS46 4.1 50.1 1.0
OH A:TYR51 4.1 31.8 1.0
N1 E:BRU42 4.1 24.4 1.0
N1 E:DC41 4.1 37.6 1.0
C5 E:DC41 4.2 37.5 1.0
N3 E:BRU42 4.2 23.7 1.0
O E:HOH120 4.2 35.5 1.0
CB A:LYS46 4.4 42.0 1.0
C2 E:DC41 4.5 33.9 1.0
CZ A:TYR51 4.5 29.9 1.0
C1' E:DC41 4.5 37.7 1.0
C4 E:DC41 4.5 34.6 1.0
CE1 A:TYR51 4.6 27.6 1.0
C2 E:BRU42 4.6 25.0 1.0
N3 E:DC41 4.7 32.8 1.0
C3' E:DC41 4.8 39.1 1.0
ND2 A:ASN47 4.9 55.0 1.0
C7 E:DT43 4.9 20.9 1.0

Bromine binding site 4 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 4 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Br49

b:34.8
occ:1.00
BR E:BRU49 0.0 34.8 1.0
C5 E:BRU49 1.9 20.7 1.0
C6 E:BRU49 2.9 22.7 1.0
C4 E:BRU49 2.9 23.0 1.0
O4 E:BRU49 3.1 20.6 1.0
O A:LEU68 3.1 30.5 1.0
CB A:LEU68 3.7 28.6 1.0
O E:HOH109 3.7 35.4 1.0
O A:HOH211 3.8 26.8 1.0
C A:LEU68 3.8 30.2 1.0
NE1 A:TRP70 3.9 22.9 1.0
C2' E:DA48 3.9 32.9 1.0
C8 E:DA48 4.0 22.5 1.0
CD1 A:TRP70 4.0 19.5 1.0
N1 E:BRU49 4.1 26.9 1.0
N7 E:DA48 4.1 23.3 1.0
N9 E:DA48 4.1 23.2 1.0
N3 E:BRU49 4.1 21.7 1.0
CA A:LEU68 4.2 34.4 1.0
OP2 E:BRU49 4.2 35.7 1.0
CG A:LEU68 4.2 28.2 1.0
C5 E:DA48 4.3 18.3 1.0
C4 E:DA48 4.3 20.3 1.0
N A:LEU68 4.4 35.5 1.0
O A:HOH235 4.4 33.8 1.0
CD2 A:LEU68 4.4 31.6 1.0
O E:HOH123 4.6 39.0 1.0
C2 E:BRU49 4.6 27.1 1.0
C1' E:DA48 4.7 27.4 1.0
O E:HOH107 4.7 37.5 1.0
C3' E:DA48 4.8 27.6 1.0
N A:LYS69 4.9 24.2 1.0
N3 E:DA48 5.0 22.6 1.0

Bromine binding site 5 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 5 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 5 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Br21

b:38.9
occ:1.00
BR C:BRU21 0.0 38.9 1.0
C5 C:BRU21 1.9 31.7 1.0
C6 C:BRU21 2.9 32.2 1.0
C4 C:BRU21 3.0 33.5 1.0
O4 C:BRU21 3.2 31.9 1.0
O C:HOH107 3.4 29.5 1.0
O B:HOH204 3.7 33.4 1.0
C8 C:DA20 3.7 40.9 1.0
N7 C:DA20 3.8 39.8 1.0
OP2 C:BRU21 3.9 35.8 1.0
O5' C:DA20 4.0 42.1 1.0
CD1 B:LEU68 4.0 30.7 1.0
N9 C:DA20 4.1 41.4 1.0
C3' C:DA20 4.1 39.7 1.0
N1 C:BRU21 4.1 34.8 1.0
C5 C:DA20 4.2 38.6 1.0
N3 C:BRU21 4.2 32.5 1.0
CD1 B:LEU61 4.2 24.9 1.0
C4 C:DA20 4.3 42.8 1.0
C2' C:DA20 4.4 40.3 1.0
CD2 B:LEU68 4.4 33.2 1.0
NZ B:LYS63 4.6 56.5 1.0
C2 C:BRU21 4.7 37.9 1.0
C7 C:DT22 4.7 27.1 1.0
C1' C:DA20 4.8 41.6 1.0
CG B:LEU68 4.8 29.2 1.0
C6 C:DA20 4.9 38.4 1.0
P C:BRU21 4.9 37.9 1.0
O4 C:DT22 4.9 28.5 1.0
O5' C:BRU21 4.9 38.9 1.0
CE B:LYS63 4.9 43.8 1.0

Bromine binding site 6 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 6 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 6 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Br24

b:31.4
occ:1.00
BR C:BRU24 0.0 31.4 1.0
C5 C:BRU24 1.9 22.4 1.0
C6 C:BRU24 2.8 24.6 1.0
C4 C:BRU24 2.9 24.6 1.0
O B:TYR41 3.0 24.1 1.0
O4 C:BRU24 3.1 25.0 1.0
CD1 B:ILE43 3.5 39.4 1.0
O C:HOH114 3.6 26.1 1.0
CE B:LYS39 3.6 24.9 1.0
NZ B:LYS39 3.7 20.9 1.0
C8 C:DA23 3.7 23.5 1.0
N7 C:DA23 3.9 23.0 1.0
N1 C:BRU24 4.1 30.0 1.0
C B:TYR41 4.1 25.7 1.0
N3 C:BRU24 4.1 27.1 1.0
N9 C:DA23 4.1 27.0 1.0
O C:HOH113 4.2 21.9 1.0
C2' C:DA23 4.2 26.7 1.0
N B:ILE43 4.3 25.4 1.0
C5 C:DA23 4.3 23.3 1.0
CA B:HIS42 4.4 25.0 1.0
CD2 B:TYR41 4.4 31.6 1.0
CG1 B:ILE43 4.4 33.8 1.0
C4 C:DA23 4.5 24.3 1.0
C2 C:BRU24 4.6 29.6 1.0
N B:HIS42 4.7 24.4 1.0
C B:HIS42 4.8 25.7 1.0
C1' C:DA23 4.8 26.1 1.0
O C:HOH122 4.8 21.9 1.0
CE2 B:TYR41 4.9 39.4 1.0
CB B:ILE43 5.0 30.2 1.0
CD B:LYS39 5.0 21.5 1.0

Bromine binding site 7 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 7 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 7 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Br42

b:69.0
occ:1.00
BR F:BRU42 0.0 69.0 1.0
C5 F:BRU42 1.9 39.0 1.0
C6 F:BRU42 2.9 35.8 1.0
C4 F:BRU42 2.9 34.0 1.0
O4 F:BRU42 3.1 35.0 1.0
C2' F:DC41 3.7 42.3 1.0
C6 F:DC41 3.8 45.9 1.0
O F:HOH111 4.0 42.1 1.0
CG B:LYS46 4.0 44.3 1.0
N1 F:DC41 4.0 45.5 1.0
C5 F:DC41 4.1 45.0 1.0
OH B:TYR51 4.1 40.9 1.0
N1 F:BRU42 4.1 34.4 1.0
N3 F:BRU42 4.2 32.7 1.0
CB B:LYS46 4.4 41.3 1.0
CE2 B:TYR51 4.5 34.9 1.0
C2 F:DC41 4.5 46.9 1.0
C1' F:DC41 4.5 44.9 1.0
C4 F:DC41 4.5 42.8 1.0
O5' F:DC41 4.5 57.4 1.0
CZ B:TYR51 4.5 36.8 1.0
C2 F:BRU42 4.6 34.3 1.0
N3 F:DC41 4.7 44.8 1.0
C3' F:DC41 4.8 44.8 1.0
C7 F:DT43 5.0 31.6 1.0

Bromine binding site 8 out of 8 in 9eff

Go back to Bromine Binding Sites List in 9eff
Bromine binding site 8 out of 8 in the Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 8 of Crystal Structure of A Nucleoid-Associated Protein (Ubp) Bound to Dna From Sulfolobus Islandicus. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Br49

b:36.1
occ:1.00
BR F:BRU49 0.0 36.1 1.0
C5 F:BRU49 1.9 24.4 1.0
C6 F:BRU49 2.9 27.9 1.0
C4 F:BRU49 2.9 24.0 1.0
O4 F:BRU49 3.1 26.5 1.0
O B:LEU68 3.1 25.7 1.0
O F:HOH104 3.6 35.3 1.0
CB B:LEU68 3.7 25.6 1.0
OP2 F:BRU49 3.8 32.7 1.0
NE1 B:TRP70 3.9 25.2 1.0
C B:LEU68 3.9 28.2 1.0
C2' F:DA48 3.9 28.2 1.0
O F:HOH110 4.0 29.4 1.0
C8 F:DA48 4.0 24.4 1.0
CD1 B:TRP70 4.0 19.7 1.0
N9 F:DA48 4.0 27.9 1.0
N1 F:BRU49 4.1 29.8 1.0
N3 F:BRU49 4.1 28.2 1.0
N7 F:DA48 4.2 20.5 1.0
C4 F:DA48 4.2 26.0 1.0
CG B:LEU68 4.3 29.2 1.0
C5 F:DA48 4.3 25.4 1.0
CA B:LEU68 4.3 27.8 1.0
CD2 B:LEU68 4.4 33.2 1.0
C3' F:DA48 4.4 28.5 1.0
N B:LEU68 4.5 32.8 1.0
C1' F:DA48 4.6 31.9 1.0
O F:HOH121 4.6 40.0 1.0
C2 F:BRU49 4.6 32.0 1.0
N3 F:DA48 4.8 24.7 1.0
P F:BRU49 5.0 38.8 1.0
C6 F:DA48 5.0 22.4 1.0

Reference:

R.Dhanaraju, R.Y.Samson, X.Feng, A.Costa, G.Gonzalez-Gutierrez, S.D.Bell. Identification and Characterization of An Archaeal Nucleoid-Associated Protein That Plays An Essential Role in Dna Replication Initiation. To Be Published.
Page generated: Mon Jul 7 12:47:25 2025

Last articles

Mn in 9LJU
Mn in 9LJW
Mn in 9LJS
Mn in 9LJR
Mn in 9LJT
Mn in 9LJV
Mg in 9UA2
Mg in 9R96
Mg in 9VM1
Mg in 9P01
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy