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Cadmium in PDB 2ffx: Structure of Human Ferritin L. Chain

Protein crystallography data

The structure of Structure of Human Ferritin L. Chain, PDB code: 2ffx was solved by Z.M.Wang, C.Li, M.P.Ellenburg, E.M.Soitsman, J.R.Ruble, B.S.Wright, J.X.Ho, D.C.Carter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.76 / 1.90
Space group I 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 151.601, 151.601, 151.601, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Cadmium atom in the Structure of Human Ferritin L. Chain (pdb code 2ffx). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 14 binding sites of Cadmium where determined in the Structure of Human Ferritin L. Chain, PDB code: 2ffx:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 14 in 2ffx

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Cadmium binding site 1 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd191

b:32.3
occ:0.33
 O J:HOH406 2.5 30.5 1.0
OD1 J:ASP131 3.8 27.6 1.0
OE1 J:GLU134 4.5 34.7 1.0
OG1 J:THR135 4.5 27.8 1.0
CG J:ASP131 5.0 27.8 1.0

Cadmium binding site 2 out of 14 in 2ffx

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Cadmium binding site 2 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd192

b:38.6
occ:0.50
 OD1 J:ASP15 2.1 13.1 1.0
OD2 J:ASP15 2.7 12.4 1.0
CG J:ASP15 2.7 13.5 1.0
O2 J:SO4189 3.9 41.0 1.0
NH1 J:ARG124 3.9 16.8 0.5
CB J:ASP15 4.1 15.1 1.0
NH1 J:ARG124 4.3 30.1 0.5
NE J:ARG124 4.4 18.1 0.5
NH2 J:ARG124 4.4 31.2 0.5
CZ J:ARG124 4.4 30.2 0.5
CZ J:ARG124 4.6 18.4 0.5
O J:HOH452 4.8 36.1 1.0
OG1 J:THR14 4.9 23.6 1.0
OG J:SER13 5.0 24.1 1.0

Cadmium binding site 3 out of 14 in 2ffx

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Cadmium binding site 3 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd193

b:36.1
occ:1.00
 NE2 J:HIS118 2.4 26.1 1.0
O J:HOH455 2.4 25.4 1.0
SG J:CYS130 2.6 14.7 0.5
CE1 J:HIS118 2.7 25.1 1.0
CD J:CD201 3.2 92.1 0.3
SG J:CYS130 3.4 26.6 0.5
CB J:CYS130 3.4 22.5 0.5
CB J:CYS130 3.5 17.9 0.5
CD2 J:HIS118 3.6 24.8 1.0
O J:HOH456 3.8 41.5 1.0
O J:HOH398 3.8 57.9 1.0
ND1 J:HIS118 3.9 25.6 1.0
CD J:CD202 4.2 48.8 1.0
CG J:HIS118 4.4 24.4 1.0
OE2 J:GLU134 4.6 35.5 1.0
CA J:CYS130 4.7 21.9 0.5
CA J:CYS130 4.7 19.4 0.5
OG J:SER122 4.8 30.3 1.0
CB J:SER122 4.8 25.3 1.0
CD J:GLU134 5.0 32.7 1.0

Cadmium binding site 4 out of 14 in 2ffx

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Cadmium binding site 4 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd194

b:48.1
occ:1.00
 NE2 J:HIS136 2.3 27.1 1.0
CE1 J:HIS136 3.2 28.1 1.0
CD2 J:HIS136 3.3 27.3 1.0
ND1 J:HIS136 4.4 26.6 1.0
CG J:HIS136 4.4 26.2 1.0
O J:HOH338 4.8 38.5 1.0
O J:HOH368 4.8 52.6 1.0
O J:HOH394 4.8 42.2 1.0

Cadmium binding site 5 out of 14 in 2ffx

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Cadmium binding site 5 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd201

b:92.1
occ:0.33
 O J:HOH456 3.0 41.5 1.0
CD J:CD193 3.2 36.1 1.0
CD J:CD202 3.6 48.8 1.0
O J:HOH455 3.8 25.4 1.0
SG J:CYS130 4.2 14.7 0.5
O J:HOH398 4.5 57.9 1.0
OE2 J:GLU134 5.0 35.5 1.0

Cadmium binding site 6 out of 14 in 2ffx

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Cadmium binding site 6 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd202

b:48.8
occ:1.00
 OE1 J:GLU134 2.3 34.7 1.0
SG J:CYS130 2.6 14.7 0.5
O J:HOH456 2.6 41.5 1.0
CD J:GLU134 3.2 32.7 1.0
OE2 J:GLU134 3.6 35.5 1.0
CD J:CD201 3.6 92.1 0.3
O J:HOH406 3.7 30.5 1.0
CB J:CYS130 3.8 17.9 0.5
CB J:CYS130 3.9 22.5 0.5
N J:ASP131 4.0 21.1 1.0
C J:CYS130 4.1 21.4 0.5
C J:CYS130 4.2 20.0 0.5
CD J:CD193 4.2 36.1 1.0
CA J:ASP131 4.3 21.7 1.0
O J:CYS130 4.3 21.4 0.5
CG J:GLU134 4.4 30.9 1.0
O J:CYS130 4.5 20.0 0.5
CA J:CYS130 4.7 19.4 0.5
CA J:CYS130 4.7 21.9 0.5
CB J:ASP131 4.8 23.8 1.0
O J:PRO127 4.8 17.9 1.0

Cadmium binding site 7 out of 14 in 2ffx

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Cadmium binding site 7 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd203

b:0.1
occ:1.00
 OE1 J:GLU92 2.4 31.9 1.0
OE2 J:GLU92 2.7 32.1 1.0
CD J:GLU92 2.9 30.4 1.0
CG J:GLU92 4.4 28.4 1.0
NH2 J:ARG43 4.7 25.6 1.0

Cadmium binding site 8 out of 14 in 2ffx

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Cadmium binding site 8 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd204

b:86.3
occ:1.00
 OE1 J:GLU49 2.4 34.4 1.0
OE2 J:GLU49 2.7 31.5 1.0
CD J:GLU49 2.9 31.1 1.0
CG J:GLU49 4.4 27.9 1.0
O J:HOH345 4.4 33.1 1.0
OXT J:HIS177 5.0 48.9 1.0

Cadmium binding site 9 out of 14 in 2ffx

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Cadmium binding site 9 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd205

b:68.5
occ:1.00
 OE2 J:GLU60 2.5 35.6 1.0
OE1 J:GLU57 2.6 32.2 1.0
O J:HOH421 2.7 46.3 1.0
OE2 J:GLU57 2.8 31.1 1.0
CD J:GLU57 3.1 29.8 1.0
CD J:GLU60 3.4 33.9 1.0
OE1 J:GLU60 3.7 38.2 1.0
CG J:GLU57 4.6 27.6 1.0
CG J:GLU60 4.7 30.1 1.0
CB J:GLU60 5.0 23.7 1.0

Cadmium binding site 10 out of 14 in 2ffx

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Cadmium binding site 10 out of 14 in the Structure of Human Ferritin L. Chain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Structure of Human Ferritin L. Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Cd206

b:71.4
occ:1.00
 OE1 J:GLU61 2.5 32.2 1.0
OE1 J:GLU64 2.5 31.8 1.0
OE2 J:GLU64 2.5 28.9 1.0
CD J:GLU64 2.9 28.2 1.0
CD J:GLU61 3.4 30.0 1.0
OE2 J:GLU61 3.6 31.1 1.0
CD J:CD207 4.0 0.4 1.0
OE1 J:GLU60 4.1 38.2 1.0
CG J:GLU64 4.4 26.1 1.0
CD J:GLU60 4.7 33.9 1.0
CG J:GLU60 4.8 30.1 1.0
CG J:GLU61 4.8 26.8 1.0
O J:HOH454 4.9 49.1 1.0

Reference:

Z.M.Wang, C.Li, M.P.Ellenburg, E.M.Soistman, J.R.Ruble, B.S.Wright, J.X.Ho, D.C.Carter. Structure of Human Ferritin L Chain Acta Crystallogr.,Sect.D V. 62 800 2006.
ISSN: ISSN 0907-4449
PubMed: 16790936
DOI: 10.1107/S0907444906018294
Page generated: Sat Dec 12 08:17:05 2020

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