Atomistry » Cadmium » PDB 5wgr-6fpc » 6fj4
Atomistry »
  Cadmium »
    PDB 5wgr-6fpc »
      6fj4 »

Cadmium in PDB 6fj4: Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B

Enzymatic activity of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B

All present enzymatic activity of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B:
3.2.1.8;

Protein crystallography data

The structure of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B, PDB code: 6fj4 was solved by A.A.Mccarthy, C.Mueller-Dieckmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 79.21 / 1.70
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 112.023, 112.023, 65.865, 90.00, 90.00, 90.00
R / Rfree (%) 16 / 17.8

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B (pdb code 6fj4). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B, PDB code: 6fj4:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in 6fj4

Go back to Cadmium Binding Sites List in 6fj4
Cadmium binding site 1 out of 5 in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1101

b:33.7
occ:1.00
 ND1 A:HIS886 2.4 21.5 1.0
SG A:CYS823 2.6 24.4 1.0
SE A:MSE889 2.8 27.3 1.0
CE1 A:HIS886 3.0 20.1 1.0
CG A:HIS886 3.5 18.2 1.0
CB A:CYS823 3.7 20.1 1.0
CA A:HIS886 3.9 15.8 1.0
CG A:MSE889 4.0 21.9 1.0
CE A:MSE889 4.1 25.4 1.0
CB A:HIS886 4.1 17.1 1.0
CB A:MSE889 4.1 19.1 1.0
NE2 A:HIS886 4.2 19.3 1.0
CD2 A:HIS886 4.4 18.4 1.0
CA A:CYS823 4.5 19.3 1.0
O A:HIS886 4.7 14.7 1.0
N A:HIS886 4.7 14.4 1.0
CD A:PRO824 4.7 17.2 1.0
O A:ASP885 4.8 15.2 1.0
C A:HIS886 4.8 14.8 1.0
OD1 A:ASN890 4.9 26.2 0.8

Cadmium binding site 2 out of 5 in 6fj4

Go back to Cadmium Binding Sites List in 6fj4
Cadmium binding site 2 out of 5 in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1102

b:27.9
occ:1.00
 OE1 A:GLU1079 2.2 25.9 1.0
OE2 A:GLU894 2.3 26.0 1.0
NE2 A:HIS1085 2.3 25.0 1.0
OE2 A:GLU1079 2.3 25.3 1.0
ND1 A:HIS1083 2.4 21.7 1.0
ND1 A:HIS1076 2.4 19.6 1.0
OE1 A:GLU894 2.4 28.9 1.0
CD A:GLU1079 2.6 24.9 1.0
CD A:GLU894 2.8 22.5 1.0
CE1 A:HIS1076 3.2 20.5 1.0
CD2 A:HIS1085 3.2 23.4 1.0
CE1 A:HIS1085 3.3 24.2 1.0
CE1 A:HIS1083 3.3 21.2 1.0
CG A:HIS1083 3.4 20.4 1.0
CG A:HIS1076 3.4 18.3 1.0
CB A:HIS1083 3.7 20.0 1.0
CB A:HIS1076 3.9 18.3 1.0
O A:HOH1282 4.0 45.5 1.0
CG A:GLU1079 4.2 25.0 1.0
NE2 A:HIS1076 4.4 19.4 1.0
CA A:HIS1076 4.4 18.2 1.0
ND1 A:HIS1085 4.4 23.1 1.0
CG A:HIS1085 4.4 23.6 1.0
CG A:GLU894 4.4 21.8 1.0
NE2 A:HIS1083 4.4 21.3 1.0
O A:HOH1203 4.5 43.9 1.0
CD2 A:HIS1076 4.5 18.8 1.0
CD2 A:HIS1083 4.5 19.8 1.0
O A:HOH1274 4.8 40.8 1.0
CB A:GLU1079 5.0 24.9 1.0

Cadmium binding site 3 out of 5 in 6fj4

Go back to Cadmium Binding Sites List in 6fj4
Cadmium binding site 3 out of 5 in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1103

b:32.9
occ:1.00
 O A:HOH1374 2.2 36.6 1.0
OE2 A:GLU1007 2.3 22.4 1.0
OE1 A:GLU1007 2.3 18.7 1.0
CD A:GLU1007 2.7 17.5 1.0
CG A:GLU1007 4.2 18.1 1.0
N A:SER1004 4.6 16.5 1.0
CD2 A:LEU1003 4.7 18.0 1.0
CA A:LEU1003 4.9 17.4 1.0

Cadmium binding site 4 out of 5 in 6fj4

Go back to Cadmium Binding Sites List in 6fj4
Cadmium binding site 4 out of 5 in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1104

b:36.5
occ:1.00
 O A:HOH1375 2.1 41.4 1.0
O A:HOH1214 2.2 38.2 1.0
O A:HOH1372 2.2 46.2 1.0
NE2 A:HIS1080 2.2 35.5 1.0
NE2 A:HIS947 2.3 18.9 1.0
O A:HOH1377 2.5 36.4 1.0
CE1 A:HIS1080 3.1 37.5 1.0
CD2 A:HIS947 3.2 19.9 1.0
CD2 A:HIS1080 3.3 36.0 1.0
CE1 A:HIS947 3.3 22.1 1.0
O A:HOH1350 4.1 35.7 1.0
ND1 A:HIS1080 4.2 37.3 1.0
CG A:HIS1080 4.4 34.2 1.0
CG A:HIS947 4.4 19.2 1.0
ND1 A:HIS947 4.4 19.5 1.0
O A:LEU1078 4.5 30.5 1.0
CD2 A:TYR932 4.8 20.1 1.0

Cadmium binding site 5 out of 5 in 6fj4

Go back to Cadmium Binding Sites List in 6fj4
Cadmium binding site 5 out of 5 in the Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Structure of Fae Solved By Sad From Data Collected at the Peak of the Selenium Absorption Edge on ID30B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1105

b:57.9
occ:0.30
 ND1 A:HIS1081 2.3 48.7 1.0
O1 A:SO41108 2.8 75.2 1.0
O A:HOH1279 2.8 56.0 1.0
CG A:HIS1081 3.0 43.7 1.0
CB A:HIS1081 3.1 37.6 1.0
CE1 A:HIS1081 3.4 49.0 1.0
CA A:HIS1081 3.6 31.8 1.0
O2 A:SO41108 3.7 74.5 1.0
S A:SO41108 3.9 63.9 1.0
CD2 A:HIS1081 4.3 47.1 1.0
NE2 A:HIS1081 4.4 51.3 1.0
N A:HIS1081 4.6 30.5 1.0
C A:HIS1081 4.7 27.7 1.0
N A:HIS1082 4.7 23.2 1.0
O3 A:SO41108 4.8 77.3 1.0
O4 A:SO41108 4.9 80.3 1.0
NE2 A:HIS1083 5.0 21.3 1.0
O A:HIS1080 5.0 32.5 1.0

Reference:

A.A.Mccarthy, R.Barrett, A.Beteva, H.Caserotto, F.Dobias, F.Felisaz, T.Giraud, M.Guijarro, R.Janocha, A.Khadrouche, M.Lentini, G.A.Leonard, M.Lopez Marrero, S.Malbet-Monaco, S.Mcsweeney, D.Nurizzo, G.Papp, C.Rossi, J.Sinoir, C.Sorez, J.Surr, O.Svensson, U.Zander, F.Cipriani, P.Theveneau, C.Mueller-Dieckmann. ID30B - A Versatile Beamline For Macromolecular Crystallography Experiments at the Esrf. J Synchrotron Radiat V. 25 1249 2018.
ISSN: ESSN 1600-5775
PubMed: 29979188
DOI: 10.1107/S1600577518007166
Page generated: Thu Jul 10 14:54:43 2025

Last articles

Na in 3I3C
Na in 3I31
Na in 3I2W
Na in 3I1J
Na in 3I04
Na in 3I01
Na in 3I0X
Na in 3I0W
Na in 3HWX
Na in 3HZN
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy