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Iron in PDB 3j2t: An Improved Model of the Human Apoptosome

Iron Binding Sites:

The binding sites of Iron atom in the An Improved Model of the Human Apoptosome (pdb code 3j2t). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 7 binding sites of Iron where determined in the An Improved Model of the Human Apoptosome, PDB code: 3j2t:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7;

Iron binding site 1 out of 7 in 3j2t

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Iron binding site 1 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe500

b:7.4
occ:1.00
FE H:HEM500 0.0 7.4 1.0
NB H:HEM500 2.0 8.5 1.0
NA H:HEM500 2.0 6.9 1.0
ND H:HEM500 2.0 7.3 1.0
NC H:HEM500 2.0 8.7 1.0
NE2 H:HIS18 2.1 8.5 1.0
SD H:MET80 2.3 8.2 1.0
C1D H:HEM500 3.0 9.8 1.0
C1B H:HEM500 3.0 9.6 1.0
C4C H:HEM500 3.0 10.8 1.0
C1C H:HEM500 3.0 8.9 1.0
C4D H:HEM500 3.0 8.6 1.0
C4B H:HEM500 3.0 8.7 1.0
C4A H:HEM500 3.0 7.2 1.0
C1A H:HEM500 3.0 7.4 1.0
CE1 H:HIS18 3.1 6.6 1.0
CD2 H:HIS18 3.1 7.7 1.0
CHB H:HEM500 3.4 9.3 1.0
CHD H:HEM500 3.4 10.8 1.0
CHA H:HEM500 3.4 7.9 1.0
CHC H:HEM500 3.4 9.0 1.0
CG H:MET80 3.5 8.3 1.0
CE H:MET80 3.5 9.9 1.0
ND1 H:HIS18 4.2 6.8 1.0
CG H:HIS18 4.2 7.8 1.0
C3B H:HEM500 4.2 10.5 1.0
C3A H:HEM500 4.2 6.8 1.0
CB H:MET80 4.3 9.0 1.0
C2B H:HEM500 4.3 10.8 1.0
C2A H:HEM500 4.3 7.7 1.0
C3D H:HEM500 4.3 9.6 1.0
C2D H:HEM500 4.3 10.3 1.0
C2C H:HEM500 4.3 10.6 1.0
C3C H:HEM500 4.3 13.1 1.0
OH H:TYR67 4.8 10.8 1.0

Iron binding site 2 out of 7 in 3j2t

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Iron binding site 2 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Fe500

b:7.4
occ:1.00
FE I:HEM500 0.0 7.4 1.0
NB I:HEM500 2.0 8.5 1.0
NA I:HEM500 2.0 6.9 1.0
ND I:HEM500 2.0 7.3 1.0
NC I:HEM500 2.0 8.7 1.0
NE2 I:HIS18 2.1 8.5 1.0
SD I:MET80 2.3 8.2 1.0
C1D I:HEM500 3.0 9.8 1.0
C1B I:HEM500 3.0 9.6 1.0
C4C I:HEM500 3.0 10.8 1.0
C1C I:HEM500 3.0 8.9 1.0
C4D I:HEM500 3.0 8.6 1.0
C4B I:HEM500 3.0 8.7 1.0
C4A I:HEM500 3.0 7.2 1.0
C1A I:HEM500 3.0 7.4 1.0
CE1 I:HIS18 3.1 6.6 1.0
CD2 I:HIS18 3.1 7.7 1.0
CHB I:HEM500 3.4 9.3 1.0
CHD I:HEM500 3.4 10.8 1.0
CHA I:HEM500 3.4 7.9 1.0
CHC I:HEM500 3.4 9.0 1.0
CG I:MET80 3.5 8.3 1.0
CE I:MET80 3.5 9.9 1.0
ND1 I:HIS18 4.2 6.8 1.0
CG I:HIS18 4.2 7.8 1.0
C3B I:HEM500 4.2 10.5 1.0
C3A I:HEM500 4.2 6.8 1.0
CB I:MET80 4.3 9.0 1.0
C2B I:HEM500 4.3 10.8 1.0
C2A I:HEM500 4.3 7.7 1.0
C3D I:HEM500 4.3 9.6 1.0
C2D I:HEM500 4.3 10.3 1.0
C2C I:HEM500 4.3 10.6 1.0
C3C I:HEM500 4.3 13.1 1.0
OH I:TYR67 4.8 10.8 1.0

Iron binding site 3 out of 7 in 3j2t

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Iron binding site 3 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Fe500

b:7.4
occ:1.00
FE J:HEM500 0.0 7.4 1.0
NB J:HEM500 2.0 8.5 1.0
NA J:HEM500 2.0 6.9 1.0
ND J:HEM500 2.0 7.3 1.0
NC J:HEM500 2.0 8.7 1.0
NE2 J:HIS18 2.1 8.5 1.0
SD J:MET80 2.3 8.2 1.0
C1D J:HEM500 3.0 9.8 1.0
C1B J:HEM500 3.0 9.6 1.0
C4C J:HEM500 3.0 10.8 1.0
C1C J:HEM500 3.0 8.9 1.0
C4D J:HEM500 3.0 8.6 1.0
C4B J:HEM500 3.0 8.7 1.0
C4A J:HEM500 3.0 7.2 1.0
C1A J:HEM500 3.0 7.4 1.0
CE1 J:HIS18 3.1 6.6 1.0
CD2 J:HIS18 3.1 7.7 1.0
CHB J:HEM500 3.4 9.3 1.0
CHD J:HEM500 3.4 10.8 1.0
CHA J:HEM500 3.4 7.9 1.0
CHC J:HEM500 3.4 9.0 1.0
CG J:MET80 3.5 8.3 1.0
CE J:MET80 3.5 9.9 1.0
ND1 J:HIS18 4.2 6.8 1.0
CG J:HIS18 4.2 7.8 1.0
C3B J:HEM500 4.2 10.5 1.0
C3A J:HEM500 4.2 6.8 1.0
CB J:MET80 4.3 9.0 1.0
C2B J:HEM500 4.3 10.8 1.0
C2A J:HEM500 4.3 7.7 1.0
C3D J:HEM500 4.3 9.6 1.0
C2D J:HEM500 4.3 10.3 1.0
C2C J:HEM500 4.3 10.6 1.0
C3C J:HEM500 4.3 13.1 1.0
OH J:TYR67 4.8 10.8 1.0

Iron binding site 4 out of 7 in 3j2t

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Iron binding site 4 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Fe500

b:7.4
occ:1.00
FE K:HEM500 0.0 7.4 1.0
NB K:HEM500 2.0 8.5 1.0
NA K:HEM500 2.0 6.9 1.0
ND K:HEM500 2.0 7.3 1.0
NC K:HEM500 2.0 8.7 1.0
NE2 K:HIS18 2.1 8.5 1.0
SD K:MET80 2.3 8.2 1.0
C1D K:HEM500 3.0 9.8 1.0
C1B K:HEM500 3.0 9.6 1.0
C4C K:HEM500 3.0 10.8 1.0
C1C K:HEM500 3.0 8.9 1.0
C4D K:HEM500 3.0 8.6 1.0
C4B K:HEM500 3.0 8.7 1.0
C4A K:HEM500 3.0 7.2 1.0
C1A K:HEM500 3.0 7.4 1.0
CE1 K:HIS18 3.1 6.6 1.0
CD2 K:HIS18 3.1 7.7 1.0
CHB K:HEM500 3.4 9.3 1.0
CHD K:HEM500 3.4 10.8 1.0
CHA K:HEM500 3.4 7.9 1.0
CHC K:HEM500 3.4 9.0 1.0
CG K:MET80 3.5 8.3 1.0
CE K:MET80 3.5 9.9 1.0
ND1 K:HIS18 4.2 6.8 1.0
CG K:HIS18 4.2 7.8 1.0
C3B K:HEM500 4.2 10.5 1.0
C3A K:HEM500 4.2 6.8 1.0
CB K:MET80 4.3 9.0 1.0
C2B K:HEM500 4.3 10.8 1.0
C2A K:HEM500 4.3 7.7 1.0
C3D K:HEM500 4.3 9.6 1.0
C2D K:HEM500 4.3 10.3 1.0
C2C K:HEM500 4.3 10.6 1.0
C3C K:HEM500 4.3 13.1 1.0
OH K:TYR67 4.8 10.8 1.0

Iron binding site 5 out of 7 in 3j2t

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Iron binding site 5 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Fe500

b:7.4
occ:1.00
FE L:HEM500 0.0 7.4 1.0
NB L:HEM500 2.0 8.5 1.0
NA L:HEM500 2.0 6.9 1.0
ND L:HEM500 2.0 7.3 1.0
NC L:HEM500 2.0 8.7 1.0
NE2 L:HIS18 2.1 8.5 1.0
SD L:MET80 2.3 8.2 1.0
C1D L:HEM500 3.0 9.8 1.0
C1B L:HEM500 3.0 9.6 1.0
C4C L:HEM500 3.0 10.8 1.0
C1C L:HEM500 3.0 8.9 1.0
C4D L:HEM500 3.0 8.6 1.0
C4B L:HEM500 3.0 8.7 1.0
C4A L:HEM500 3.0 7.2 1.0
C1A L:HEM500 3.0 7.4 1.0
CE1 L:HIS18 3.1 6.6 1.0
CD2 L:HIS18 3.1 7.7 1.0
CHB L:HEM500 3.4 9.3 1.0
CHD L:HEM500 3.4 10.8 1.0
CHA L:HEM500 3.4 7.9 1.0
CHC L:HEM500 3.4 9.0 1.0
CG L:MET80 3.5 8.3 1.0
CE L:MET80 3.5 9.9 1.0
ND1 L:HIS18 4.2 6.8 1.0
CG L:HIS18 4.2 7.8 1.0
C3B L:HEM500 4.2 10.5 1.0
C3A L:HEM500 4.2 6.8 1.0
CB L:MET80 4.3 9.0 1.0
C2B L:HEM500 4.3 10.8 1.0
C2A L:HEM500 4.3 7.7 1.0
C3D L:HEM500 4.3 9.6 1.0
C2D L:HEM500 4.3 10.3 1.0
C2C L:HEM500 4.3 10.6 1.0
C3C L:HEM500 4.3 13.1 1.0
OH L:TYR67 4.8 10.8 1.0

Iron binding site 6 out of 7 in 3j2t

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Iron binding site 6 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Fe500

b:7.4
occ:1.00
FE M:HEM500 0.0 7.4 1.0
NB M:HEM500 2.0 8.5 1.0
NA M:HEM500 2.0 6.9 1.0
ND M:HEM500 2.0 7.3 1.0
NC M:HEM500 2.0 8.7 1.0
NE2 M:HIS18 2.1 8.5 1.0
SD M:MET80 2.3 8.2 1.0
C1D M:HEM500 3.0 9.8 1.0
C1B M:HEM500 3.0 9.6 1.0
C4C M:HEM500 3.0 10.8 1.0
C1C M:HEM500 3.0 8.9 1.0
C4D M:HEM500 3.0 8.6 1.0
C4B M:HEM500 3.0 8.7 1.0
C4A M:HEM500 3.0 7.2 1.0
C1A M:HEM500 3.0 7.4 1.0
CE1 M:HIS18 3.1 6.6 1.0
CD2 M:HIS18 3.1 7.7 1.0
CHB M:HEM500 3.4 9.3 1.0
CHD M:HEM500 3.4 10.8 1.0
CHA M:HEM500 3.4 7.9 1.0
CHC M:HEM500 3.4 9.0 1.0
CG M:MET80 3.5 8.3 1.0
CE M:MET80 3.5 9.9 1.0
ND1 M:HIS18 4.2 6.8 1.0
CG M:HIS18 4.2 7.8 1.0
C3B M:HEM500 4.2 10.5 1.0
C3A M:HEM500 4.2 6.8 1.0
CB M:MET80 4.3 9.0 1.0
C2B M:HEM500 4.3 10.8 1.0
C2A M:HEM500 4.3 7.7 1.0
C3D M:HEM500 4.3 9.6 1.0
C2D M:HEM500 4.3 10.3 1.0
C2C M:HEM500 4.3 10.6 1.0
C3C M:HEM500 4.3 13.1 1.0
OH M:TYR67 4.8 10.8 1.0

Iron binding site 7 out of 7 in 3j2t

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Iron binding site 7 out of 7 in the An Improved Model of the Human Apoptosome


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of An Improved Model of the Human Apoptosome within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe500

b:7.4
occ:1.00
FE N:HEM500 0.0 7.4 1.0
NB N:HEM500 2.0 8.5 1.0
NA N:HEM500 2.0 6.9 1.0
ND N:HEM500 2.0 7.3 1.0
NC N:HEM500 2.0 8.7 1.0
NE2 N:HIS18 2.1 8.5 1.0
SD N:MET80 2.3 8.2 1.0
C1D N:HEM500 3.0 9.8 1.0
C1B N:HEM500 3.0 9.6 1.0
C4C N:HEM500 3.0 10.8 1.0
C1C N:HEM500 3.0 8.9 1.0
C4D N:HEM500 3.0 8.6 1.0
C4B N:HEM500 3.0 8.7 1.0
C4A N:HEM500 3.0 7.2 1.0
C1A N:HEM500 3.0 7.4 1.0
CE1 N:HIS18 3.1 6.6 1.0
CD2 N:HIS18 3.1 7.7 1.0
CHB N:HEM500 3.4 9.3 1.0
CHD N:HEM500 3.4 10.8 1.0
CHA N:HEM500 3.4 7.9 1.0
CHC N:HEM500 3.4 9.0 1.0
CG N:MET80 3.5 8.3 1.0
CE N:MET80 3.5 9.9 1.0
ND1 N:HIS18 4.2 6.8 1.0
CG N:HIS18 4.2 7.8 1.0
C3B N:HEM500 4.2 10.5 1.0
C3A N:HEM500 4.2 6.8 1.0
CB N:MET80 4.3 9.0 1.0
C2B N:HEM500 4.3 10.8 1.0
C2A N:HEM500 4.3 7.7 1.0
C3D N:HEM500 4.3 9.6 1.0
C2D N:HEM500 4.3 10.3 1.0
C2C N:HEM500 4.3 10.6 1.0
C3C N:HEM500 4.3 13.1 1.0
OH N:TYR67 4.8 10.8 1.0

Reference:

S.Yuan, M.Topf, T.F.Reubold, S.Eschenburg, C.W.Akey. Changes in Apaf-1 Conformation That Drive Apoptosome Assembly. Biochemistry V. 52 2319 2013.
ISSN: ISSN 0006-2960
PubMed: 23521171
DOI: 10.1021/BI301721G
Page generated: Sun Aug 4 12:43:15 2024

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