Bromine in PDB 7o21: Structure of Bdellovibrio Bacteriovorus BD1075

Protein crystallography data

The structure of Structure of Bdellovibrio Bacteriovorus BD1075, PDB code: 7o21 was solved by A.L.Lovering, M.Valdivia-Delgado, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.76 / 1.34
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 49.189, 100.631, 62.279, 90, 108.07, 90
R / Rfree (%) 18.6 / 21.3

Bromine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 19;

Binding sites:

The binding sites of Bromine atom in the Structure of Bdellovibrio Bacteriovorus BD1075 (pdb code 7o21). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 19 binding sites of Bromine where determined in the Structure of Bdellovibrio Bacteriovorus BD1075, PDB code: 7o21:
Jump to Bromine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Bromine binding site 1 out of 19 in 7o21

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Bromine binding site 1 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br401

b:25.9
occ:0.41
 OG A:SER34 3.1 30.1 1.0
N A:SER34 3.2 19.3 1.0
CB A:SER34 3.4 26.8 1.0
N A:ASN185 3.4 20.0 1.0
CG1 A:VAL184 3.5 25.3 1.0
N A:ALA33 3.5 17.7 1.0
O A:ASN185 3.8 26.5 1.0
CA A:VAL184 3.8 22.4 1.0
CA A:SER34 3.9 18.8 1.0
C A:PRO32 4.0 19.9 1.0
CB A:PRO32 4.0 19.1 1.0
C A:VAL184 4.1 23.3 1.0
CB A:VAL184 4.1 27.5 1.0
CA A:PRO32 4.1 19.9 1.0
C A:ALA33 4.2 19.6 1.0
CA A:ALA33 4.2 19.6 1.0
CA A:ASN185 4.4 23.6 1.0
C A:ASN185 4.4 24.8 1.0
CB A:ALA33 4.4 21.7 1.0
CD2 A:PHE181 4.5 21.1 1.0
CG2 A:VAL184 4.5 31.3 1.0
CB A:ASN185 4.7 26.1 1.0
CE2 A:PHE181 4.7 20.1 1.0
O A:PRO32 4.8 17.8 1.0
O A:HIS183 4.8 37.7 1.0
C A:SER34 4.9 17.2 1.0
O A:HOH614 5.0 34.4 1.0

Bromine binding site 2 out of 19 in 7o21

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Bromine binding site 2 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br402

b:21.6
occ:0.53
 O A:HOH610 3.2 23.7 1.0
NZ A:LYS285 3.3 16.6 1.0
O A:HOH757 3.4 33.9 1.0
NE2 A:GLN272 3.4 17.3 1.0
NZ B:LYS108 3.6 28.6 1.0
CD1 A:TRP303 3.6 21.3 1.0
O1 A:EDO411 3.7 35.2 0.8
CG A:TRP303 3.8 18.7 1.0
CE A:LYS285 3.9 17.1 1.0
CB A:TRP303 4.0 19.2 1.0
CH2 A:TRP210 4.0 18.7 1.0
CD B:LYS108 4.2 27.6 1.0
CE B:LYS108 4.3 27.4 1.0
NE1 A:TRP303 4.3 19.9 1.0
CD A:GLN272 4.4 18.3 1.0
OE1 A:GLN272 4.4 19.8 1.0
CZ2 A:TRP210 4.5 19.9 1.0
C1 A:EDO411 4.6 32.9 0.8
CD2 A:TRP303 4.6 19.5 1.0
O B:HOH568 4.7 27.4 1.0
C2 A:EDO411 4.8 29.6 0.8
CE2 A:TRP303 4.9 19.3 1.0

Bromine binding site 3 out of 19 in 7o21

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Bromine binding site 3 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br404

b:84.7
occ:1.00
 OE2 A:GLU302 3.0 24.3 0.4
O A:HOH735 3.7 44.6 1.0
CD A:PRO229 3.8 24.6 1.0
CA A:ALA228 3.9 18.5 1.0
CD A:ARG300 3.9 26.0 1.0
CD A:GLU302 4.0 23.6 0.4
N A:PRO229 4.1 19.3 1.0
O A:LYS227 4.1 19.6 1.0
C A:ALA228 4.1 18.2 1.0
OE1 A:GLU302 4.2 27.1 0.4
CD1 A:LEU126 4.2 24.1 1.0
C A:LYS227 4.4 19.9 1.0
N A:ALA228 4.4 17.7 1.0
CG A:PRO229 4.4 21.9 1.0
CD2 A:LEU126 4.5 25.4 1.0
NE A:ARG300 4.6 29.8 1.0
CB A:ARG300 4.8 16.9 1.0
CG A:ARG300 4.8 26.9 1.0
O A:ALA228 4.9 19.1 1.0
CB A:LYS227 4.9 26.6 1.0
O A:HOH730 4.9 44.1 1.0
OE2 A:GLU302 5.0 30.9 0.6

Bromine binding site 4 out of 19 in 7o21

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Bromine binding site 4 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br408

b:44.6
occ:0.27
 O A:HOH553 1.9 20.5 1.0
O A:HOH716 2.2 23.2 1.0
CG A:ARG160 3.7 17.6 1.0
OD1 A:ASP162 3.8 19.1 1.0
CB A:ARG160 3.9 17.9 1.0
O A:HOH656 4.1 19.3 1.0
CD A:ARG160 4.1 21.1 1.0
OD2 A:ASP162 4.3 23.8 1.0
CG A:ASP162 4.3 20.2 1.0
O A:HOH737 4.7 19.9 1.0
NE A:ARG160 4.9 19.7 1.0

Bromine binding site 5 out of 19 in 7o21

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Bromine binding site 5 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 5 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br412

b:27.5
occ:0.55
 O B:HOH589 3.1 31.4 1.0
NZ B:LYS285 3.2 21.4 1.0
NZ A:LYS108 3.4 39.5 1.0
O A:HOH770 3.5 36.8 1.0
NE2 B:GLN272 3.6 23.1 1.0
CD1 B:TRP303 3.7 21.6 1.0
CG B:TRP303 3.9 20.6 1.0
CB B:TRP303 4.0 21.5 1.0
CE B:LYS285 4.0 19.2 1.0
CE A:LYS108 4.1 34.6 1.0
CH2 B:TRP210 4.1 22.8 1.0
CD A:LYS108 4.1 33.9 1.0
O A:HOH740 4.3 43.7 1.0
NE1 B:TRP303 4.4 22.9 1.0
CZ2 B:TRP210 4.4 22.9 1.0
OE1 B:GLN272 4.4 23.0 1.0
CD B:GLN272 4.5 22.9 1.0
O A:HOH570 4.6 28.2 1.0
CD2 B:TRP303 4.7 27.0 1.0
OE2 B:GLU301 4.9 19.6 1.0
CE2 B:TRP303 5.0 24.7 1.0

Bromine binding site 6 out of 19 in 7o21

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Bromine binding site 6 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 6 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br401

b:83.8
occ:1.00
 O B:HOH564 3.9 37.8 1.0
O B:HOH504 3.9 41.3 1.0
SG B:CYS156 3.9 21.6 1.0
CA A:GLY230 4.0 22.3 1.0
OH B:TYR114 4.1 21.3 1.0
CD2 B:TRP139 4.2 16.8 1.0
OG B:SER136 4.3 56.6 1.0
N A:GLY230 4.3 22.1 1.0
CE2 B:TRP139 4.4 17.8 1.0
CE3 B:TRP139 4.4 17.5 1.0
CG B:TRP139 4.5 15.9 1.0
O B:GLY137 4.5 30.6 1.0
O B:SER136 4.5 48.5 1.0
CB B:SER153 4.6 49.5 1.0
CE1 B:TYR114 4.7 18.0 1.0
NE1 B:TRP139 4.7 16.4 1.0
O B:HOH515 4.7 35.6 1.0
CD1 B:TRP139 4.8 17.1 1.0
CZ2 B:TRP139 4.8 19.0 1.0
CZ B:TYR114 4.8 19.1 1.0
CZ3 B:TRP139 4.8 19.0 1.0
CB B:SER136 4.9 40.8 1.0
C A:GLY230 4.9 18.2 1.0
C B:SER136 4.9 48.0 1.0
C B:GLY137 4.9 27.6 1.0
OG B:SER153 5.0 58.2 1.0
CH2 B:TRP139 5.0 17.5 1.0
CB B:TRP139 5.0 16.4 1.0

Bromine binding site 7 out of 19 in 7o21

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Bromine binding site 7 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 7 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br402

b:31.2
occ:0.59
 NH2 B:ARG160 3.2 22.0 1.0
O B:HOH676 3.3 31.5 1.0
O B:HOH690 3.3 20.3 1.0
N B:LEU149 3.5 17.8 1.0
CA B:PRO148 3.7 19.3 1.0
CG B:LEU149 4.0 16.5 1.0
C B:PRO148 4.1 20.3 1.0
CB B:PRO148 4.2 22.1 1.0
CZ B:ARG160 4.3 16.3 1.0
CB B:LEU149 4.4 17.4 1.0
CA B:LEU149 4.6 16.1 1.0
NE B:ARG160 4.7 18.2 1.0
CD1 B:LEU149 4.7 19.2 1.0
O B:VAL147 4.8 17.7 1.0
N B:PRO148 4.8 17.4 1.0
C2 B:EDO403 4.8 31.5 1.0
CD2 B:LEU149 5.0 18.8 1.0

Bromine binding site 8 out of 19 in 7o21

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Bromine binding site 8 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 8 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br404

b:36.8
occ:0.43
 OG B:SER34 2.6 23.0 0.4
OG B:SER34 2.9 21.9 0.6
CB B:SER34 3.2 22.2 0.6
CB B:SER34 3.2 22.2 0.4
N B:SER34 3.3 18.4 0.4
N B:SER34 3.3 18.4 0.6
N B:ASN185 3.4 23.5 1.0
CG1 B:VAL184 3.5 30.1 1.0
CA B:VAL184 3.6 25.8 1.0
O B:ASN185 3.8 25.4 1.0
N B:ALA33 3.9 18.1 1.0
CA B:SER34 3.9 19.5 0.4
CA B:SER34 3.9 19.5 0.6
ND1 B:HIS262 4.0 21.5 1.0
C B:VAL184 4.0 29.6 1.0
O B:HOH704 4.0 40.6 1.0
CB B:VAL184 4.0 28.8 1.0
CE1 B:HIS262 4.1 26.8 1.0
C B:ALA33 4.2 20.7 1.0
O B:HIS183 4.3 29.2 1.0
CG2 B:VAL184 4.4 24.9 1.0
CA B:ALA33 4.4 18.7 1.0
CA B:ASN185 4.4 26.9 1.0
CB B:ALA33 4.4 23.4 1.0
C B:PRO32 4.4 17.1 1.0
C B:ASN185 4.5 24.4 1.0
CD2 B:PHE181 4.5 18.7 1.0
CB B:PRO32 4.6 22.3 1.0
O B:HOH543 4.6 35.3 1.0
CB B:ASN185 4.6 30.9 1.0
CA B:PRO32 4.7 21.4 1.0
N B:VAL184 4.8 25.4 1.0
CE2 B:PHE181 4.8 23.0 1.0
C B:HIS183 5.0 27.2 1.0

Bromine binding site 9 out of 19 in 7o21

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Bromine binding site 9 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 9 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br405

b:98.2
occ:1.00
 OE2 B:GLU175 3.5 31.8 1.0
O B:HOH555 4.1 37.9 1.0
CE1 B:PHE306 4.1 40.9 1.0
CD1 B:PHE306 4.2 38.1 1.0
CD B:GLU175 4.3 26.1 1.0
CE1 B:PHE44 4.4 26.0 1.0
CG2 B:VAL284 4.4 21.9 1.0
O B:HOH546 4.5 32.2 1.0
CB B:ALA43 4.5 22.3 1.0
O B:ALA43 4.5 21.6 1.0
OE1 B:GLU175 4.6 24.6 1.0
CD1 B:PHE44 4.7 20.2 1.0

Bromine binding site 10 out of 19 in 7o21

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Bromine binding site 10 out of 19 in the Structure of Bdellovibrio Bacteriovorus BD1075


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Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 10 of Structure of Bdellovibrio Bacteriovorus BD1075 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br406

b:100.5
occ:1.00
 N B:GLY137 3.8 46.1 1.0
OH B:TYR123 3.9 31.9 1.0
CE1 B:TYR123 3.9 25.6 1.0
O B:GLY137 3.9 30.6 1.0
CZ B:TYR123 4.0 29.5 1.0
N B:SER136 4.1 36.8 1.0
O B:THR134 4.2 47.5 1.0
C B:GLY137 4.3 27.6 1.0
CA B:GLY137 4.3 34.5 1.0
CG B:PRO94 4.4 37.5 1.0
CA B:GLY135 4.4 43.9 1.0
C B:GLY135 4.4 42.6 1.0
OG B:SER136 4.5 56.6 1.0
O B:HOH504 4.6 41.3 1.0
O B:ARG154 4.7 34.3 1.0
CD B:PRO94 4.7 30.9 1.0
CD1 B:TYR123 4.7 21.5 1.0
CG1 B:ILE138 4.8 20.2 1.0
C B:SER136 4.8 48.0 1.0
CA B:SER136 4.9 46.7 1.0
CE2 B:TYR123 4.9 22.0 1.0

Reference:

A.L.Lovering, M.Valdivia-Delgado. Structure of Bdellovibrio Bacteriovorus BD1075 To Be Published.
Page generated: Sat Jul 10 10:00:22 2021

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