Atomistry » Iron » PDB 2e1s-2eus » 2e76
Atomistry »
  Iron »
    PDB 2e1s-2eus »
      2e76 »

Iron in PDB 2e76: Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus

Enzymatic activity of Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus

All present enzymatic activity of Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus:
1.10.99.1;

Protein crystallography data

The structure of Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus, PDB code: 2e76 was solved by W.A.Cramer, E.Yamashita, H.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.27 / 3.41
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 157.227, 157.227, 363.295, 90.00, 90.00, 120.00
R / Rfree (%) 18.5 / 25.6

Other elements in 2e76:

The structure of Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus also contains other interesting chemical elements:

Cadmium (Cd) 1 atom
Magnesium (Mg) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus (pdb code 2e76). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus, PDB code: 2e76:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 1 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:21.3
occ:1.00
 FE A:HEM301 0.0 21.3 1.0
NB A:HEM301 1.7 14.7 1.0
NE2 A:HIS86 1.7 11.5 1.0
NA A:HEM301 1.9 16.5 1.0
NE2 A:HIS187 1.9 7.6 1.0
ND A:HEM301 2.0 14.7 1.0
NC A:HEM301 2.1 18.5 1.0
CE1 A:HIS187 2.6 10.9 1.0
CE1 A:HIS86 2.7 35.4 1.0
C4B A:HEM301 2.8 26.1 1.0
CD2 A:HIS86 2.8 27.1 1.0
C1B A:HEM301 2.9 39.4 1.0
C4A A:HEM301 2.9 27.8 1.0
C1A A:HEM301 2.9 14.7 1.0
C1D A:HEM301 3.0 21.8 1.0
C4D A:HEM301 3.0 17.8 1.0
C4C A:HEM301 3.1 5.5 1.0
C1C A:HEM301 3.1 14.3 1.0
CD2 A:HIS187 3.1 17.5 1.0
CHC A:HEM301 3.3 31.1 1.0
CHA A:HEM301 3.3 25.0 1.0
CHB A:HEM301 3.3 30.6 1.0
CHD A:HEM301 3.4 15.8 1.0
ND1 A:HIS187 3.8 25.5 1.0
ND1 A:HIS86 3.8 16.9 1.0
CG A:HIS86 3.9 35.0 1.0
C3B A:HEM301 4.0 41.5 1.0
CG A:HIS187 4.1 16.2 1.0
C2B A:HEM301 4.1 42.2 1.0
C3A A:HEM301 4.1 16.9 1.0
C2A A:HEM301 4.2 18.6 1.0
C2D A:HEM301 4.2 9.8 1.0
C3C A:HEM301 4.3 20.7 1.0
C3D A:HEM301 4.3 30.6 1.0
C2C A:HEM301 4.4 36.9 1.0
CA A:GLY135 4.9 37.6 1.0

Iron binding site 2 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 2 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe302

b:23.6
occ:1.00
 FE A:HEM302 0.0 23.6 1.0
NC A:HEM302 1.9 10.2 1.0
NA A:HEM302 1.9 18.1 1.0
ND A:HEM302 1.9 32.1 1.0
NE2 A:HIS202 1.9 32.4 1.0
NB A:HEM302 1.9 25.1 1.0
NE2 A:HIS100 2.1 22.5 1.0
CE1 A:HIS202 2.7 54.2 1.0
CE1 A:HIS100 2.7 38.4 1.0
C1A A:HEM302 2.8 18.3 1.0
C1C A:HEM302 2.9 12.2 1.0
C4D A:HEM302 2.9 45.1 1.0
C4B A:HEM302 2.9 28.7 1.0
C4C A:HEM302 2.9 14.2 1.0
C1D A:HEM302 3.0 31.3 1.0
C4A A:HEM302 3.0 27.7 1.0
CD2 A:HIS202 3.1 30.4 1.0
C1B A:HEM302 3.1 35.8 1.0
CHA A:HEM302 3.2 27.5 1.0
CHC A:HEM302 3.2 24.0 1.0
CD2 A:HIS100 3.3 21.1 1.0
CHD A:HEM302 3.4 30.3 1.0
CHB A:HEM302 3.5 27.8 1.0
ND1 A:HIS202 3.9 31.1 1.0
ND1 A:HIS100 4.0 36.4 1.0
CG A:HIS202 4.1 35.2 1.0
C2C A:HEM302 4.1 18.4 1.0
C2A A:HEM302 4.1 41.0 1.0
C3C A:HEM302 4.1 23.6 1.0
C3D A:HEM302 4.2 14.8 1.0
C3B A:HEM302 4.2 25.0 1.0
C3A A:HEM302 4.2 42.1 1.0
C2D A:HEM302 4.2 19.8 1.0
CG A:HIS100 4.3 39.4 1.0
C2B A:HEM302 4.3 26.2 1.0

Iron binding site 3 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 3 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe303

b:49.1
occ:1.00
 FE A:HEM303 0.0 49.1 1.0
OBD B:TDS1202 1.5 64.4 1.0
NA A:HEM303 1.9 64.7 1.0
NB A:HEM303 2.0 48.1 1.0
ND A:HEM303 2.1 48.5 1.0
NC A:HEM303 2.1 44.0 1.0
O A:HOH1106 2.5 14.4 1.0
CAM B:TDS1202 2.8 78.8 1.0
C4A A:HEM303 2.9 50.5 1.0
C1B A:HEM303 3.0 41.1 1.0
C1D A:HEM303 3.0 45.7 1.0
C4C A:HEM303 3.0 36.3 1.0
C1A A:HEM303 3.0 87.7 1.0
C4B A:HEM303 3.1 48.4 1.0
C1C A:HEM303 3.2 55.0 1.0
C4D A:HEM303 3.2 55.0 1.0
CHB A:HEM303 3.2 47.6 1.0
CHD A:HEM303 3.3 53.4 1.0
CAL B:TDS1202 3.3 85.5 1.0
CHA A:HEM303 3.5 67.7 1.0
OAK B:TDS1202 3.6 77.7 1.0
CHC A:HEM303 3.6 54.5 1.0
CZ B:PHE40 3.6 93.7 1.0
CAN B:TDS1202 3.8 81.7 1.0
C3A A:HEM303 4.1 55.0 1.0
CE1 B:PHE40 4.2 66.7 1.0
C2A A:HEM303 4.2 73.2 1.0
OAO B:TDS1202 4.2 90.2 1.0
C2B A:HEM303 4.2 36.2 1.0
C3C A:HEM303 4.2 42.7 1.0
C3B A:HEM303 4.3 30.2 1.0
CAD B:TDS1202 4.3 80.9 1.0
C2D A:HEM303 4.3 38.3 1.0
C2C A:HEM303 4.3 39.0 1.0
C3D A:HEM303 4.4 59.6 1.0
CMA A:HEM302 4.8 16.6 1.0
O2A A:HEM302 4.8 50.2 1.0
O A:TYR34 4.8 38.0 1.0
CE2 B:PHE40 4.9 0.2 1.0
CAF B:TDS1202 4.9 84.1 1.0
CA A:GLY38 5.0 37.2 1.0
CAJ B:TDS1202 5.0 63.2 1.0

Iron binding site 4 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 4 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe301

b:31.9
occ:1.00
 FE C:HEM301 0.0 31.9 1.0
NA C:HEM301 1.9 22.9 1.0
N C:TYR1 2.0 52.8 1.0
NC C:HEM301 2.0 25.8 1.0
ND C:HEM301 2.1 40.7 1.0
NB C:HEM301 2.1 33.2 1.0
NE2 C:HIS26 2.1 46.8 1.0
C4A C:HEM301 2.9 15.5 1.0
C4C C:HEM301 2.9 17.6 1.0
C1A C:HEM301 2.9 40.9 1.0
CA C:TYR1 2.9 59.4 1.0
CE1 C:HIS26 3.0 57.8 1.0
C1B C:HEM301 3.0 27.8 1.0
C1D C:HEM301 3.0 49.3 1.0
C4D C:HEM301 3.1 48.4 1.0
C4B C:HEM301 3.1 39.8 1.0
CD2 C:HIS26 3.1 61.6 1.0
C1C C:HEM301 3.2 20.6 1.0
CHD C:HEM301 3.3 35.2 1.0
CHB C:HEM301 3.3 37.6 1.0
CHA C:HEM301 3.4 27.5 1.0
CHC C:HEM301 3.6 18.3 1.0
C C:TYR1 3.8 55.5 1.0
C2A C:HEM301 4.1 36.9 1.0
ND1 C:HIS26 4.1 80.2 1.0
C3A C:HEM301 4.1 44.6 1.0
C3C C:HEM301 4.2 29.2 1.0
O C:TYR1 4.2 49.0 1.0
CG C:HIS26 4.2 70.4 1.0
CB C:TYR1 4.3 69.9 1.0
C2B C:HEM301 4.3 49.5 1.0
C2C C:HEM301 4.3 11.6 1.0
C3B C:HEM301 4.3 34.8 1.0
C2D C:HEM301 4.3 60.8 1.0
C3D C:HEM301 4.3 41.2 1.0
CE3 C:TRP4 4.5 78.3 1.0
N C:PRO2 4.6 50.9 1.0
CG C:TYR1 4.7 75.0 1.0
CZ3 C:TRP4 4.8 73.9 1.0
CD C:PRO2 5.0 52.3 1.0

Iron binding site 5 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 5 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe200

b:72.3
occ:1.00
 FE1 D:FES200 0.0 72.3 1.0
SG D:CYS126 2.0 77.8 1.0
SG D:CYS108 2.0 56.1 1.0
S2 D:FES200 2.2 59.3 1.0
S1 D:FES200 2.2 70.4 1.0
FE2 D:FES200 2.9 69.8 1.0
CB D:CYS126 3.0 45.4 1.0
OG D:SER131 3.4 0.1 1.0
CB D:HIS110 3.6 55.5 1.0
CB D:CYS108 3.7 36.8 1.0
ND1 D:HIS110 4.0 52.7 1.0
CB D:CYS128 4.0 70.4 1.0
CG D:HIS110 4.2 53.7 1.0
CA D:CYS126 4.3 62.2 1.0
N D:HIS129 4.4 72.5 1.0
ND1 D:HIS129 4.5 51.3 1.0
CB D:SER131 4.6 82.1 1.0
N D:SER131 4.7 68.5 1.0
CA D:HIS110 4.7 62.2 1.0
N D:GLY130 4.7 67.8 1.0
C D:CYS126 4.8 73.8 1.0
CA D:CYS128 4.8 70.9 1.0
N D:HIS110 4.8 66.0 1.0
N D:CYS128 4.8 65.6 1.0
N D:LEU111 4.9 64.4 1.0
N D:CYS113 4.9 46.5 1.0
CA D:CYS108 5.0 58.6 1.0
N D:GLY112 5.0 52.0 1.0

Iron binding site 6 out of 6 in 2e76

Go back to Iron Binding Sites List in 2e76
Iron binding site 6 out of 6 in the Crystal Structure of the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus


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 the Cytochrome B6F Complex with Tridecyl- Stigmatellin (Tds) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe200

b:69.8
occ:1.00
 FE2 D:FES200 0.0 69.8 1.0
ND1 D:HIS129 1.7 51.3 1.0
ND1 D:HIS110 2.1 52.7 1.0
S1 D:FES200 2.2 70.4 1.0
S2 D:FES200 2.2 59.3 1.0
CE1 D:HIS129 2.5 71.7 1.0
CE1 D:HIS110 2.9 64.8 1.0
FE1 D:FES200 2.9 72.3 1.0
CG D:HIS129 3.0 62.8 1.0
CG D:HIS110 3.2 53.7 1.0
CB D:HIS129 3.5 70.6 1.0
N D:HIS129 3.6 72.5 1.0
CB D:HIS110 3.7 55.5 1.0
CB D:CYS128 3.7 70.4 1.0
NE2 D:HIS129 3.7 61.9 1.0
CD2 D:HIS129 3.9 52.9 1.0
NE2 D:HIS110 4.1 60.0 1.0
CA D:HIS129 4.1 67.3 1.0
C D:CYS128 4.2 74.2 1.0
N D:LEU111 4.2 64.4 1.0
CD2 D:HIS110 4.3 46.8 1.0
CA D:CYS128 4.5 70.9 1.0
SG D:CYS108 4.6 56.1 1.0
CD2 D:LEU111 4.6 28.6 1.0
SG D:CYS126 4.7 77.8 1.0
CD1 D:LEU111 4.8 32.7 1.0
C D:HIS129 4.8 66.5 1.0
CA D:HIS110 4.9 62.2 1.0
CB D:LEU111 4.9 53.2 1.0
N D:GLY130 5.0 67.8 1.0

Reference:

E.Yamashita, H.Zhang, W.A.Cramer. Structure of the Cytochrome B(6)F Complex: Quinone Analogue Inhibitors As Ligands of Heme C(N) J.Mol.Biol. V. 370 39 2007.
ISSN: ISSN 0022-2836
PubMed: 17498743
DOI: 10.1016/J.JMB.2007.04.011
Page generated: Sat Aug 3 21:00:42 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