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Zinc in PDB 3l22: Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution, PDB code: 3l22 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) 29.41 / 2.05
Space group P 43 2 2
Cell size a, b, c (Å), α, β, γ (°) 94.034, 94.034, 201.581, 90.00, 90.00, 90.00
R / Rfree (%) 14.6 / 17.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution (pdb code 3l22). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution, PDB code: 3l22:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 10 in 3l22

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Zinc binding site 1 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1

b:22.1
occ:1.00
O A:HOH621 1.9 12.7 1.0
ND1 A:HIS220 2.0 19.0 1.0
OE2 A:GLU142 2.1 14.9 1.0
O A:HOH644 2.3 2.0 1.0
CD A:GLU142 2.8 15.8 1.0
OE1 A:GLU142 2.8 15.8 1.0
CE1 A:HIS220 2.9 22.0 1.0
CG A:HIS220 3.0 17.0 1.0
CB A:HIS220 3.4 12.2 1.0
O A:HOH670 4.1 12.4 1.0
O A:HOH779 4.1 19.6 1.0
NE2 A:HIS220 4.1 26.2 1.0
CD2 A:HIS220 4.1 23.2 1.0
CD A:ARG138 4.2 13.7 1.0
CG A:GLU142 4.2 13.0 1.0
O A:HOH675 4.3 14.6 1.0
CG A:ARG138 4.6 15.2 1.0
CG2 A:THR216 4.7 12.2 1.0
CD2 A:LEU48 4.8 18.4 1.0
CA A:HIS220 4.9 12.3 1.0

Zinc binding site 2 out of 10 in 3l22

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Zinc binding site 2 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2

b:30.1
occ:0.75
O A:ACT18 1.7 52.7 1.0
OE2 A:GLU130 2.2 24.1 1.0
O A:ACT17 2.3 59.2 1.0
OXT A:ACT17 2.3 58.5 1.0
C A:ACT18 2.6 54.0 1.0
OE1 A:GLU130 2.7 23.1 1.0
OXT A:ACT18 2.7 55.1 1.0
CD A:GLU130 2.7 22.3 1.0
C A:ACT17 2.8 59.3 1.0
CH3 A:ACT18 4.0 54.4 1.0
C1 A:EDO23 4.2 57.6 1.0
CG A:GLU130 4.2 23.4 1.0
O1 A:EDO23 4.2 53.8 1.0
CH3 A:ACT17 4.3 59.4 1.0
O2 A:EDO23 4.3 61.5 1.0
C2 A:EDO23 4.8 59.2 1.0

Zinc binding site 3 out of 10 in 3l22

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Zinc binding site 3 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn3

b:49.9
occ:1.00
OE2 A:GLU257 2.3 29.3 1.0
O A:HOH514 2.4 28.1 1.0
O A:HOH513 2.4 35.9 1.0
O A:HOH509 2.4 38.1 1.0
O A:HOH876 2.4 20.1 1.0
O A:HOH515 2.4 44.3 1.0
CD A:GLU257 3.1 22.8 1.0
OE1 A:GLU257 3.2 23.1 1.0
O A:HOH1017 4.0 27.4 1.0
O A:HOH994 4.1 44.3 1.0
O A:HOH529 4.2 50.1 1.0
O A:GLY380 4.2 12.6 1.0
O A:HOH857 4.3 20.3 1.0
CG A:GLU257 4.5 20.1 1.0
CH3 A:ACT11 4.6 77.8 1.0
CA A:ARG381 4.7 13.6 1.0
O A:HOH1052 4.8 36.3 1.0
C A:GLY380 4.9 12.3 1.0

Zinc binding site 4 out of 10 in 3l22

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Zinc binding site 4 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn4

b:22.6
occ:1.00
O A:ACT13 1.9 31.4 1.0
OD1 A:ASP209 2.0 14.3 1.0
OE2 A:GLU211 2.1 14.6 1.0
OXT A:ACT13 2.6 35.7 1.0
C A:ACT13 2.6 35.2 1.0
CG A:ASP209 2.9 16.6 1.0
CD A:GLU211 2.9 12.6 1.0
CG A:GLU211 3.1 14.4 1.0
OD2 A:ASP209 3.3 17.4 1.0
O A:HOH715 3.7 12.5 1.0
CH3 A:ACT13 4.1 35.6 1.0
OE1 A:GLU211 4.1 14.8 1.0
NH1 A:ARG138 4.2 16.5 1.0
CB A:ASP209 4.2 13.2 1.0
O A:HOH531 4.4 37.3 1.0
CB A:GLU211 4.4 13.4 1.0
O A:HOH533 4.6 44.5 1.0
NH2 A:ARG138 4.6 17.0 1.0
O A:HOH779 4.7 19.6 1.0
CA A:ASP209 4.8 13.3 1.0
N A:THR210 4.8 12.8 1.0
N A:GLU211 4.9 13.3 1.0
CZ A:ARG138 4.9 16.4 1.0

Zinc binding site 5 out of 10 in 3l22

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Zinc binding site 5 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5

b:35.2
occ:0.50
ZN A:ZN5 0.0 35.2 0.5
NE2 A:HIS428 1.8 18.3 0.5
O A:ACT12 1.9 38.1 1.0
CE1 A:HIS428 2.0 15.2 0.5
O A:HOH505 2.2 42.0 1.0
NE2 A:HIS428 2.3 14.9 0.5
CE1 A:HIS428 2.5 18.1 0.5
ZN A:ZN5 2.8 29.5 0.5
C A:ACT12 2.8 39.5 1.0
CD2 A:HIS428 3.0 17.2 0.5
ND1 A:HIS428 3.2 13.0 0.5
CH3 A:ACT12 3.5 38.6 1.0
CD2 A:HIS428 3.6 16.8 0.5
OXT A:ACT12 3.7 38.7 1.0
ND1 A:HIS428 3.7 19.9 0.5
O A:HOH855 4.0 21.9 1.0
CG A:HIS428 4.0 14.7 0.5
CG A:HIS428 4.0 16.7 0.5
O A:HOH536 4.6 30.9 1.0
CD A:PRO442 4.8 15.9 1.0
O A:HOH534 4.8 28.1 1.0

Zinc binding site 6 out of 10 in 3l22

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Zinc binding site 6 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5

b:29.5
occ:0.50
ZN A:ZN5 0.0 29.5 0.5
NE2 A:HIS428 2.1 14.9 0.5
O A:ACT12 2.1 38.1 1.0
CE1 A:HIS428 2.1 18.1 0.5
O A:HOH536 2.2 30.9 1.0
O A:HOH534 2.4 28.1 1.0
ZN A:ZN5 2.8 35.2 0.5
NE2 A:HIS428 3.0 18.3 0.5
C A:ACT12 3.0 39.5 1.0
OXT A:ACT12 3.0 38.7 1.0
CD2 A:HIS428 3.1 16.8 0.5
CE1 A:HIS428 3.1 15.2 0.5
ND1 A:HIS428 3.2 19.9 0.5
O A:HOH525 4.2 54.3 1.0
CD2 A:HIS428 4.2 17.2 0.5
ND1 A:HIS428 4.2 13.0 0.5
O A:HOH535 4.2 33.0 1.0
CG A:HIS428 4.2 14.7 0.5
CG A:HIS428 4.3 16.7 0.5
CA A:GLY441 4.4 16.2 1.0
CH3 A:ACT12 4.4 38.6 1.0
O A:HOH505 4.6 42.0 1.0
OG A:SER443 4.7 15.8 0.5
N A:GLY441 4.7 16.1 1.0
OD2 A:ASP444 4.8 21.3 1.0

Zinc binding site 7 out of 10 in 3l22

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Zinc binding site 7 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn6

b:50.7
occ:0.50
O A:HOH481 1.8 25.4 1.0
OD1 A:ASP137 2.3 21.8 1.0
O A:HOH1044 2.5 46.4 1.0
O A:HOH674 2.5 12.0 0.4
O A:HOH634 2.6 33.9 1.0
OD2 A:ASP137 2.8 28.2 1.0
CG A:ASP137 2.8 22.4 1.0
O A:HOH817 3.4 24.4 1.0
O A:HOH794 4.0 25.1 1.0
NH1 A:ARG129 4.0 14.7 1.0
O A:HOH834 4.0 22.1 1.0
CD2 A:TYR136 4.2 11.9 1.0
CB A:ASP137 4.3 15.7 1.0
O A:HOH913 4.5 31.4 1.0
N A:ASP137 4.8 13.6 1.0
CE2 A:TYR136 4.9 13.1 1.0
CA A:ASP137 4.9 15.2 1.0

Zinc binding site 8 out of 10 in 3l22

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Zinc binding site 8 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn7

b:29.4
occ:1.00
OXT A:ACT10 2.0 49.2 1.0
ND1 A:HIS197 2.2 12.4 1.0
O A:ACT10 2.2 51.8 1.0
O A:HOH952 2.2 19.1 1.0
C A:ACT10 2.5 51.5 1.0
CE1 A:HIS197 3.1 11.3 1.0
CG A:HIS197 3.2 11.5 1.0
CB A:HIS197 3.5 13.2 1.0
CA A:HIS197 3.9 13.4 1.0
CH3 A:ACT10 4.0 51.1 1.0
CD1 A:LEU175 4.1 15.8 1.0
CB A:SER200 4.2 14.2 1.0
NE2 A:HIS197 4.2 10.5 1.0
OG A:SER200 4.2 16.5 1.0
O A:HOH541 4.3 42.4 1.0
CD2 A:HIS197 4.3 12.0 1.0
O A:HIS197 4.6 13.5 1.0
C A:HIS197 4.7 13.2 1.0
O A:HOH858 4.9 28.2 1.0
N A:HIS197 5.0 13.2 1.0
CD2 A:LEU173 5.0 18.6 1.0

Zinc binding site 9 out of 10 in 3l22

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Zinc binding site 9 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn8

b:38.9
occ:0.25
O A:HOH944 2.4 30.8 1.0
O A:HOH506 2.6 32.2 1.0
C1 A:EDO20 2.9 50.1 0.5
O A:HOH627 3.1 59.3 1.0
O1 A:EDO20 3.4 50.0 0.5
C2 A:EDO20 3.6 50.2 0.5
O A:THR437 4.1 16.7 1.0
N A:THR437 4.7 17.0 1.0
CB A:THR437 5.0 16.2 1.0
O2 A:EDO20 5.0 50.9 0.5

Zinc binding site 10 out of 10 in 3l22

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Zinc binding site 10 out of 10 in the Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of A Susd Superfamily Protein (BF_0597) From Bacteroides Fragilis at 2.05 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn9

b:25.5
occ:0.30
O A:HOH800 2.4 18.5 1.0
O A:HOH840 2.4 14.8 1.0
OD2 A:ASP313 2.8 27.1 1.0
CG A:ASP313 3.4 20.9 1.0
OD1 A:ASP313 3.6 22.3 1.0
O A:HOH908 3.9 30.5 1.0
CB A:ASP313 4.6 17.9 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Wed Dec 16 04:31:39 2020

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