Atomistry » Zinc » PDB 3krv-3l2u » 3l22
Atomistry »
  Zinc »
    PDB 3krv-3l2u »
      3l22 »

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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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

Go back to Zinc Binding Sites List in 3l22
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: Sat Oct 26 08:21:03 2024

Last articles

As in 3BFT
As in 2Z3J
As in 3AAL
As in 2Z3I
As in 2XZ1
As in 2Y0O
As in 2XQ9
As in 2XOE
As in 2XOD
As in 2XQ4
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy