Atomistry » Iron » PDB 3ae6-3arj » 3aec
Atomistry »
  Iron »
    PDB 3ae6-3arj »
      3aec »

Iron in PDB 3aec: Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid

Enzymatic activity of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid

All present enzymatic activity of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid:
1.3.5.1;

Protein crystallography data

The structure of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid, PDB code: 3aec was solved by S.Harada, T.Sasaki, M.Shindo, Y.Kido, D.K.Inaoka, J.Omori, A.Osanai, K.Sakamoto, J.Mao, S.Matsuoka, M.Inoue, T.Honma, A.Tanaka, K.Kita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.46 / 3.61
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 70.966, 83.994, 295.254, 90.00, 90.00, 90.00
R / Rfree (%) 24.5 / 29.4

Other elements in 3aec:

The structure of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid also contains other interesting chemical elements:

Iodine (I) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid (pdb code 3aec). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid, PDB code: 3aec:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 1 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:67.1
occ:1.00
 FE1 B:FES302 0.0 67.1 1.0
SG B:CYS70 2.1 73.4 1.0
SG B:CYS65 2.2 78.0 1.0
S2 B:FES302 2.2 66.8 1.0
S1 B:FES302 2.2 66.9 1.0
FE2 B:FES302 3.0 67.0 1.0
CB B:CYS70 3.3 72.9 1.0
CB B:CYS65 3.3 77.7 1.0
N B:CYS65 3.5 77.5 1.0
N B:CYS70 3.6 74.3 1.0
N B:GLY71 3.7 73.2 1.0
CA B:CYS70 3.8 73.0 1.0
CA B:CYS65 3.8 78.4 1.0
N B:ARG66 3.9 80.0 1.0
C B:CYS70 4.1 72.4 1.0
N B:SER72 4.2 72.7 1.0
C B:CYS65 4.2 79.9 1.0
N B:GLY68 4.3 79.6 1.0
N B:ILE69 4.3 77.4 1.0
SG B:CYS85 4.5 79.8 1.0
C B:SER64 4.6 78.0 1.0
N B:GLU67 4.6 81.0 1.0
CA B:GLY71 4.7 73.1 1.0
CA B:GLY68 4.7 79.3 1.0
C B:ILE69 4.8 75.0 1.0
CA B:ARG66 4.8 81.5 1.0
SG B:CYS73 4.8 78.0 1.0
CB B:SER72 4.8 72.8 1.0
N B:SER64 4.8 77.4 1.0
CB B:SER64 4.8 75.4 1.0
CA B:SER64 4.9 77.0 1.0
C B:GLY71 5.0 72.7 1.0
C B:GLY68 5.0 78.6 1.0

Iron binding site 2 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 2 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:67.0
occ:1.00
 FE2 B:FES302 0.0 67.0 1.0
SG B:CYS73 1.9 78.0 1.0
S2 B:FES302 2.2 66.8 1.0
S1 B:FES302 2.2 66.9 1.0
SG B:CYS85 2.8 79.8 1.0
FE1 B:FES302 3.0 67.1 1.0
CB B:CYS73 3.3 77.5 1.0
CB B:CYS85 3.7 81.5 1.0
N B:CYS73 3.8 74.9 1.0
CA B:CYS73 4.1 76.3 1.0
N B:CYS85 4.2 81.9 1.0
CD2 B:LEU83 4.3 76.6 1.0
CB B:LEU83 4.4 78.9 1.0
CA B:CYS85 4.6 82.7 1.0
CD2 B:LEU45 4.6 82.2 1.0
SG B:CYS65 4.6 78.0 1.0
N B:SER72 4.6 72.7 1.0
SG B:CYS70 4.7 73.4 1.0
N B:ARG66 4.7 80.0 1.0
C B:CYS73 4.7 76.6 1.0
CG B:LEU83 4.7 77.8 1.0
N B:GLY68 4.8 79.6 1.0
CA B:ARG66 4.8 81.5 1.0
CD1 B:LEU83 4.8 78.0 1.0
N B:ALA84 4.8 80.7 1.0
CA B:GLY68 4.9 79.3 1.0
O B:CYS73 4.9 77.8 1.0
C B:SER72 4.9 73.8 1.0

Iron binding site 3 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 3 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:71.4
occ:1.00
 FE1 B:SF4303 0.0 71.4 1.0
S2 B:SF4303 2.3 71.3 1.0
S3 B:SF4303 2.3 71.3 1.0
S4 B:SF4303 2.3 71.7 1.0
SG B:CYS158 2.4 67.9 1.0
FE4 B:SF4303 2.7 71.0 1.0
FE2 B:SF4303 2.7 71.8 1.0
FE3 B:SF4303 2.7 71.5 1.0
CB B:CYS158 3.4 68.7 1.0
CA B:CYS158 3.6 69.2 1.0
N B:ILE159 3.7 68.5 1.0
N B:LEU160 3.8 66.6 1.0
S1 B:SF4303 3.9 71.7 1.0
C B:CYS158 4.0 68.6 1.0
CA B:LEU160 4.4 66.0 1.0
CD1 B:LEU229 4.4 70.0 1.0
SG B:CYS161 4.6 67.7 1.0
N B:CYS161 4.6 66.5 1.0
CA B:ILE159 4.8 68.1 1.0
C B:ILE159 4.8 67.1 1.0
N B:CYS158 4.9 70.3 1.0

Iron binding site 4 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 4 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:71.8
occ:1.00
 FE2 B:SF4303 0.0 71.8 1.0
SG B:CYS161 2.3 67.7 1.0
S1 B:SF4303 2.3 71.7 1.0
S3 B:SF4303 2.3 71.3 1.0
S4 B:SF4303 2.3 71.7 1.0
FE4 B:SF4303 2.7 71.0 1.0
FE1 B:SF4303 2.7 71.4 1.0
FE3 B:SF4303 2.7 71.5 1.0
CB B:CYS161 3.8 67.9 1.0
S2 B:SF4303 3.9 71.3 1.0
CD B:PRO226 3.9 70.6 1.0
N B:CYS161 4.0 66.5 1.0
N B:CYS164 4.3 66.5 1.0
N B:ALA162 4.3 66.0 1.0
N B:CYS163 4.3 67.0 1.0
CB B:CYS164 4.4 66.0 1.0
CA B:CYS161 4.4 66.9 1.0
CB B:CYS163 4.5 68.8 1.0
CG B:PRO226 4.6 71.3 1.0
C B:CYS161 4.7 66.5 1.0
SG B:CYS225 4.8 70.7 1.0
CA B:CYS163 4.8 67.7 1.0
CA B:CYS164 4.9 66.3 1.0
N B:LEU160 4.9 66.6 1.0
C B:CYS163 5.0 67.3 1.0
SG B:CYS158 5.0 67.9 1.0

Iron binding site 5 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 5 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:71.5
occ:1.00
 FE3 B:SF4303 0.0 71.5 1.0
S1 B:SF4303 2.3 71.7 1.0
S4 B:SF4303 2.3 71.7 1.0
S2 B:SF4303 2.3 71.3 1.0
SG B:CYS225 2.6 70.7 1.0
FE4 B:SF4303 2.7 71.0 1.0
FE1 B:SF4303 2.7 71.4 1.0
FE2 B:SF4303 2.7 71.8 1.0
CB B:CYS225 3.6 70.8 1.0
CD1 B:LEU229 3.8 70.0 1.0
S3 B:SF4303 3.9 71.3 1.0
CD B:PRO226 4.2 70.6 1.0
CA B:CYS225 4.3 71.1 1.0
CB B:LEU229 4.4 71.2 1.0
CG B:LEU229 4.4 71.4 1.0
SG B:CYS164 4.6 67.3 1.0
SG B:CYS161 4.8 67.7 1.0
N B:PRO226 4.8 72.3 1.0
CG B:PRO231 4.8 67.8 1.0
CB B:LYS227 4.9 72.5 1.0
SG B:CYS158 4.9 67.9 1.0
N B:LYS227 5.0 73.3 1.0
C B:CYS225 5.0 72.6 1.0
CB B:CYS164 5.0 66.0 1.0

Iron binding site 6 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 6 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:71.0
occ:1.00
 FE4 B:SF4303 0.0 71.0 1.0
S2 B:SF4303 2.3 71.3 1.0
S3 B:SF4303 2.3 71.3 1.0
S1 B:SF4303 2.3 71.7 1.0
CB B:CYS164 2.6 66.0 1.0
SG B:CYS164 2.6 67.3 1.0
FE1 B:SF4303 2.7 71.4 1.0
FE2 B:SF4303 2.7 71.8 1.0
FE3 B:SF4303 2.7 71.5 1.0
CA B:CYS164 3.7 66.3 1.0
S4 B:SF4303 3.9 71.7 1.0
N B:CYS164 4.0 66.5 1.0
CB B:ALA182 4.1 58.2 1.0
CA B:ALA182 4.3 58.6 1.0
SG B:CYS158 4.5 67.9 1.0
CG B:PRO231 4.5 67.8 1.0
N B:ALA182 4.8 58.7 1.0
SG B:CYS161 4.8 67.7 1.0
C B:CYS164 5.0 65.8 1.0

Iron binding site 7 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 7 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:68.5
occ:1.00
 FE1 B:F3S304 0.0 68.5 1.0
S3 B:F3S304 2.2 68.3 1.0
S2 B:F3S304 2.2 68.7 1.0
S1 B:F3S304 2.2 68.3 1.0
FE4 B:F3S304 2.3 68.2 1.0
SG B:CYS215 2.4 66.7 1.0
FE3 B:F3S304 2.7 68.3 1.0
CB B:CYS215 3.4 66.7 1.0
OH B:TYR178 3.9 61.7 1.0
CA B:CYS215 4.0 66.7 1.0
N B:THR217 4.1 67.6 1.0
S4 B:F3S304 4.1 68.1 1.0
SG B:CYS168 4.3 63.2 1.0
CA B:THR217 4.3 67.9 1.0
N B:HIS216 4.3 67.1 1.0
N B:ILE218 4.5 67.4 1.0
C B:CYS215 4.5 67.3 1.0
SG B:CYS221 4.9 67.0 1.0
C B:THR217 5.0 68.0 1.0

Iron binding site 8 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 8 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:68.3
occ:1.00
 FE3 B:F3S304 0.0 68.3 1.0
S4 B:F3S304 2.2 68.1 1.0
S3 B:F3S304 2.2 68.3 1.0
S1 B:F3S304 2.2 68.3 1.0
FE4 B:F3S304 2.3 68.2 1.0
SG B:CYS221 2.5 67.0 1.0
FE1 B:F3S304 2.7 68.5 1.0
CB B:CYS221 3.3 66.3 1.0
N B:CYS221 3.9 67.4 1.0
N B:MET219 4.0 67.8 1.0
S2 B:F3S304 4.1 68.7 1.0
CA B:CYS221 4.2 67.0 1.0
CA B:MET219 4.3 68.5 1.0
N B:ASN220 4.5 68.1 1.0
SG B:CYS168 4.5 63.2 1.0
CB B:PRO181 4.5 59.4 1.0
CG B:PRO181 4.6 59.0 1.0
C B:MET219 4.6 68.7 1.0
CE B:MET219 4.7 68.6 1.0
CB B:CYS168 4.7 63.6 1.0
SG B:CYS215 5.0 66.7 1.0
N B:ILE218 5.0 67.4 1.0
CA B:GLY232 5.0 68.8 1.0

Iron binding site 9 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 9 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:68.2
occ:1.00
 FE4 B:F3S304 0.0 68.2 1.0
S2 B:F3S304 2.2 68.7 1.0
S4 B:F3S304 2.2 68.1 1.0
S3 B:F3S304 2.2 68.3 1.0
FE3 B:F3S304 2.3 68.3 1.0
FE1 B:F3S304 2.3 68.5 1.0
SG B:CYS168 2.7 63.2 1.0
S1 B:F3S304 3.1 68.3 1.0
CB B:CYS168 3.5 63.6 1.0
CA B:CYS168 4.2 64.1 1.0
CB B:ILE218 4.3 67.1 1.0
N B:ILE218 4.3 67.4 1.0
N B:MET219 4.4 67.8 1.0
CD1 B:ILE218 4.6 66.4 1.0
CD B:PRO169 4.6 65.1 1.0
SG B:CYS215 4.7 66.7 1.0
SG B:CYS221 4.7 67.0 1.0
CA B:ILE218 4.8 67.7 1.0
OH B:TYR178 4.8 61.7 1.0

Iron binding site 10 out of 10 in 3aec

Go back to Iron Binding Sites List in 3aec
Iron binding site 10 out of 10 in the Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe1305

b:83.0
occ:1.00
 FE C:HEM1305 0.0 83.0 1.0
NC C:HEM1305 2.0 83.1 1.0
NA C:HEM1305 2.1 83.2 1.0
NB C:HEM1305 2.1 83.2 1.0
NE2 C:HIS101 2.1 76.2 1.0
ND C:HEM1305 2.1 83.0 1.0
NE2 D:HIS79 2.3 69.6 1.0
C1A C:HEM1305 3.1 83.3 1.0
CD2 C:HIS101 3.1 76.1 1.0
C4C C:HEM1305 3.1 83.1 1.0
CE1 C:HIS101 3.1 76.9 1.0
C1C C:HEM1305 3.1 83.2 1.0
C4A C:HEM1305 3.1 83.3 1.0
C4B C:HEM1305 3.1 83.2 1.0
C4D C:HEM1305 3.1 83.1 1.0
C1D C:HEM1305 3.1 82.9 1.0
C1B C:HEM1305 3.1 83.3 1.0
CD2 D:HIS79 3.2 69.9 1.0
CE1 D:HIS79 3.3 69.7 1.0
CHA C:HEM1305 3.4 83.2 1.0
CHD C:HEM1305 3.4 83.1 1.0
CHC C:HEM1305 3.4 83.2 1.0
CHB C:HEM1305 3.5 83.3 1.0
ND1 C:HIS101 4.2 77.2 1.0
CG C:HIS101 4.2 76.8 1.0
C2A C:HEM1305 4.3 83.5 1.0
C3A C:HEM1305 4.3 83.4 1.0
C3C C:HEM1305 4.3 83.1 1.0
C2C C:HEM1305 4.3 83.1 1.0
C3B C:HEM1305 4.3 83.3 1.0
C2B C:HEM1305 4.3 83.4 1.0
C2D C:HEM1305 4.3 82.9 1.0
C3D C:HEM1305 4.3 83.0 1.0
CG D:HIS79 4.4 70.2 1.0
ND1 D:HIS79 4.4 70.0 1.0
NE2 C:HIS45 4.8 89.0 1.0

Reference:

S.Harada, T.Sasaki, M.Shindo, Y.Kido, D.K.Inaoka, J.Omori, A.Osanai, K.Sakamoto, J.Mao, S.Matsuoka, M.Inoue, T.Honma, A.Tanaka, K.Kita. Crystal Structure of Porcine Heart Mitochondrial Complex II Bound with 2-Iodo-N-(1-Methylethyl)-Benzamid To Be Published.
Page generated: Sun Aug 4 06:55:49 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy