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Cadmium in PDB 4fdw: Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution, PDB code: 4fdw was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.80 / 2.05
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.140, 112.320, 55.990, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 22

Other elements in 4fdw:

The structure of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Cadmium atom in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution (pdb code 4fdw). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 15 binding sites of Cadmium where determined in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution, PDB code: 4fdw:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 15 in 4fdw

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Cadmium binding site 1 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd501

b:29.8
occ:0.70
O A:HOH615 2.1 26.3 1.0
O A:HOH609 2.1 25.1 1.0
OD1 A:ASP82 2.4 49.5 1.0
OD2 A:ASP82 2.4 53.5 1.0
O A:HOH781 2.5 54.4 1.0
CG A:ASP82 2.7 48.0 1.0
O A:HOH801 4.0 57.9 1.0
CB A:ASP82 4.2 40.5 1.0
OE2 A:GLU51 4.6 65.9 1.0
O A:ASP82 4.8 44.5 1.0

Cadmium binding site 2 out of 15 in 4fdw

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Cadmium binding site 2 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd502

b:49.6
occ:0.50
OD2 A:ASP52 2.3 61.0 1.0
O A:HOH676 2.4 39.6 1.0
CG A:ASP52 3.2 53.1 1.0
OD1 A:ASP52 3.4 53.0 1.0
NZ A:LYS119 3.6 67.5 1.0
CE A:LYS119 4.3 57.7 1.0
O A:HOH693 4.3 41.9 1.0
O A:HOH851 4.5 69.3 1.0
O A:HOH797 4.5 57.3 1.0
CB A:ASP52 4.6 40.0 1.0
O A:HOH852 5.0 50.7 1.0

Cadmium binding site 3 out of 15 in 4fdw

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Cadmium binding site 3 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd503

b:44.1
occ:0.70
O A:HOH601 2.0 16.0 1.0
OE1 A:GLU56 2.5 59.8 1.0
OE2 A:GLU56 2.6 39.9 1.0
CD A:GLU56 2.9 56.6 1.0
OG A:SER54 3.8 52.0 1.0
O A:HOH721 4.0 49.8 1.0
CD A:CD511 4.1 67.2 0.7
CG A:GLU56 4.4 47.3 1.0
CB A:SER54 4.8 39.1 1.0
CA A:GLU56 5.0 38.7 1.0

Cadmium binding site 4 out of 15 in 4fdw

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Cadmium binding site 4 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd504

b:31.6
occ:0.80
OD1 A:ASN370 2.3 36.9 1.0
OG A:SER367 2.4 29.2 0.4
O A:HOH603 2.4 20.6 1.0
O A:SER367 2.4 31.7 1.0
CL A:CL518 2.5 33.7 1.0
O A:HOH605 2.6 24.3 1.0
CB A:SER367 3.0 32.2 0.6
CB A:SER367 3.1 28.7 0.4
C A:SER367 3.3 33.3 1.0
OG A:SER367 3.4 44.6 0.6
CG A:ASN370 3.4 42.1 1.0
CA A:SER367 3.6 29.4 0.4
CA A:SER367 3.6 30.4 0.6
CD A:CD514 3.9 54.6 0.4
ND2 A:ASN370 3.9 36.4 1.0
CA A:GLY344 4.1 25.4 1.0
N A:GLY344 4.3 26.4 1.0
N A:ASN371 4.3 31.6 1.0
O A:HOH735 4.4 49.4 1.0
N A:ALA368 4.5 29.2 1.0
O A:HOH706 4.5 43.0 1.0
N A:ASN370 4.5 28.3 1.0
CB A:ASN371 4.5 30.8 1.0
CB A:ASN370 4.7 30.3 1.0
C A:ALA368 4.8 29.9 1.0
CG A:GLN343 4.9 35.1 1.0
CA A:ASN370 5.0 30.0 1.0

Cadmium binding site 5 out of 15 in 4fdw

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Cadmium binding site 5 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd505

b:28.2
occ:0.70
OE2 A:GLU315 2.3 39.8 1.0
OE1 A:GLU315 2.4 38.2 1.0
O A:HOH700 2.6 42.8 1.0
CD A:GLU315 2.7 45.5 1.0
CG A:GLU315 4.2 38.3 1.0
CD A:CD506 4.5 35.1 0.7
O A:HOH772 4.6 52.3 1.0
O A:HOH677 4.8 39.1 1.0
CB A:GLU315 4.8 32.4 1.0

Cadmium binding site 6 out of 15 in 4fdw

Go back to Cadmium Binding Sites List in 4fdw
Cadmium binding site 6 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd506

b:35.1
occ:0.70
OE1 A:GLU315 2.4 38.2 1.0
OD1 A:ASP313 2.4 41.2 1.0
O A:HOH604 2.5 20.6 1.0
OD2 A:ASP313 2.7 53.0 1.0
CG A:ASP313 2.9 41.8 1.0
O A:HOH772 3.1 52.3 1.0
CD A:GLU315 3.4 45.5 1.0
CG A:GLU315 3.7 38.3 1.0
CB A:GLU315 4.0 32.4 1.0
O A:HOH785 4.4 54.7 1.0
CB A:ASP313 4.4 33.6 1.0
CD A:CD505 4.5 28.2 0.7
OE2 A:GLU315 4.6 39.8 1.0
N A:GLU315 4.8 30.3 1.0
O A:HOH700 4.9 42.8 1.0

Cadmium binding site 7 out of 15 in 4fdw

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Cadmium binding site 7 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd507

b:41.8
occ:0.40
O A:HOH686 2.1 42.1 1.0
O A:HOH668 2.2 36.3 1.0
OE2 A:GLU336 2.3 55.7 1.0
OE1 A:GLU336 2.6 47.6 1.0
OE1 A:GLU380 2.6 44.7 1.0
CD A:GLU336 2.8 59.6 1.0
CD A:CD508 3.7 48.5 0.5
CD A:GLU380 3.8 70.2 1.0
CB A:PRO358 4.2 29.4 1.0
CG A:GLU336 4.3 37.6 1.0
CA A:PRO358 4.3 28.4 1.0
OE2 A:GLU380 4.4 74.5 1.0
O A:HOH660 4.6 35.6 1.0
N A:ALA359 4.6 31.3 1.0
O A:HOH795 4.8 54.6 1.0
CG A:GLU380 4.9 45.2 1.0
CG A:PRO358 4.9 31.5 1.0

Cadmium binding site 8 out of 15 in 4fdw

Go back to Cadmium Binding Sites List in 4fdw
Cadmium binding site 8 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd508

b:48.5
occ:0.50
OE2 A:GLU380 2.4 74.5 1.0
OE1 A:GLU380 2.9 44.7 1.0
CD A:GLU380 3.0 70.2 1.0
O A:HOH800 3.5 54.4 1.0
CD A:CD507 3.7 41.8 0.4
O A:HOH668 4.0 36.3 1.0
NZ A:LYS378 4.0 71.6 1.0
CG A:GLU380 4.4 45.2 1.0
O A:HOH686 4.7 42.1 1.0

Cadmium binding site 9 out of 15 in 4fdw

Go back to Cadmium Binding Sites List in 4fdw
Cadmium binding site 9 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd509

b:48.7
occ:0.60
OD2 A:ASP178 2.2 64.2 1.0
O A:HOH650 2.2 34.0 1.0
O A:HOH719 2.2 49.4 1.0
O A:HOH687 2.5 42.1 1.0
O A:HOH779 2.7 62.5 1.0
OD1 A:ASP178 2.7 55.1 1.0
CG A:ASP178 2.8 54.0 1.0
CB A:ASP178 4.2 36.1 1.0
CG A:GLU200 4.5 45.8 0.5
CB A:LYS199 4.5 31.1 1.0
OE1 A:GLU200 4.6 61.4 0.5
OE1 A:GLU200 4.7 52.6 0.5
CD A:LYS199 4.8 45.6 1.0
N A:GLU200 4.8 33.8 1.0
CD A:GLU200 4.8 64.5 0.5
CG A:LYS199 4.9 34.7 1.0
CD A:GLU200 5.0 56.9 0.5

Cadmium binding site 10 out of 15 in 4fdw

Go back to Cadmium Binding Sites List in 4fdw
Cadmium binding site 10 out of 15 in the Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Crystal Structure of A Putative Cell Surface Protein (BACOVA_01565) From Bacteroides Ovatus Atcc 8483 at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd510

b:96.4
occ:0.50
OE1 A:GLU233 2.6 64.2 1.0
OE2 A:GLU233 2.9 53.5 1.0
CD A:GLU233 3.0 59.4 1.0
O A:HOH812 3.3 61.6 1.0
NZ A:LYS256 4.3 47.5 1.0
CG A:GLU233 4.5 40.4 1.0
CE A:LYS256 4.6 44.6 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Sat Dec 12 08:24:30 2020

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