Iron in PDB 4wzb: Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex

Enzymatic activity of Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex

All present enzymatic activity of Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex:
1.18.6.1;

Protein crystallography data

The structure of Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex, PDB code: 4wzb was solved by F.A.Tezcan, J.T.Kaiser, D.Mustafi, M.Y.Walton, J.B.Howard, D.C.Rees, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.38 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 110.533, 120.894, 264.834, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 25.5

Other elements in 4wzb:

The structure of Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex also contains other interesting chemical elements:

Molybdenum (Mo) 2 atoms
Magnesium (Mg) 4 atoms

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40;

Binding sites:

The binding sites of Iron atom in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex (pdb code 4wzb). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 40 binding sites of Iron where determined in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex, PDB code: 4wzb:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 40 in 4wzb

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Iron binding site 1 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:25.7
occ:1.00
 FE1 A:ICS1496 0.0 25.7 1.0
S2A A:ICS1496 2.3 29.6 1.0
S4A A:ICS1496 2.3 25.2 1.0
S1A A:ICS1496 2.3 25.6 1.0
SG A:CYS275 2.4 24.8 1.0
FE4 A:ICS1496 2.7 23.5 1.0
FE3 A:ICS1496 2.7 25.0 1.0
FE2 A:ICS1496 2.7 22.6 1.0
CB A:CYS275 3.3 26.4 1.0
CX A:ICS1496 3.4 22.0 1.0
CB A:LEU358 4.0 27.0 1.0
OG A:SER278 4.1 26.9 1.0
CB A:SER278 4.3 27.6 1.0
CD2 A:LEU358 4.5 26.1 1.0
CE2 A:TYR229 4.5 25.9 1.0
CA A:CYS275 4.6 28.3 1.0
S2B A:ICS1496 4.8 20.9 1.0
S5A A:ICS1496 4.8 25.6 1.0
S3A A:ICS1496 4.9 24.1 1.0
CG A:LEU358 4.9 28.0 1.0
N A:SER278 4.9 27.8 1.0
N A:LEU358 4.9 28.5 1.0
CD2 A:TYR229 5.0 25.6 1.0

Iron binding site 2 out of 40 in 4wzb

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Iron binding site 2 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:22.6
occ:1.00
 FE2 A:ICS1496 0.0 22.6 1.0
CX A:ICS1496 2.0 22.0 1.0
S2B A:ICS1496 2.2 20.9 1.0
S2A A:ICS1496 2.2 29.6 1.0
S1A A:ICS1496 2.2 25.6 1.0
FE6 A:ICS1496 2.6 24.1 1.0
FE4 A:ICS1496 2.6 23.5 1.0
FE1 A:ICS1496 2.7 25.7 1.0
FE3 A:ICS1496 2.7 25.0 1.0
FE5 A:ICS1496 3.7 23.7 1.0
FE7 A:ICS1496 3.7 22.4 1.0
S4A A:ICS1496 3.9 25.2 1.0
CE1 A:HIS195 4.0 27.0 1.0
NE2 A:HIS195 4.1 26.3 1.0
S1B A:ICS1496 4.2 24.9 1.0
S3B A:ICS1496 4.3 24.4 1.0
CZ A:PHE381 4.3 28.5 1.0
S5A A:ICS1496 4.5 25.6 1.0
S3A A:ICS1496 4.5 24.1 1.0
CG1 A:VAL70 4.7 25.4 1.0
SG A:CYS275 4.8 24.8 1.0
CE1 A:PHE381 4.8 26.2 1.0
CB A:SER278 4.9 27.6 1.0

Iron binding site 3 out of 40 in 4wzb

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Iron binding site 3 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:25.0
occ:1.00
 FE3 A:ICS1496 0.0 25.0 1.0
CX A:ICS1496 2.0 22.0 1.0
S5A A:ICS1496 2.2 25.6 1.0
S2A A:ICS1496 2.3 29.6 1.0
S4A A:ICS1496 2.3 25.2 1.0
FE7 A:ICS1496 2.6 22.4 1.0
FE4 A:ICS1496 2.6 23.5 1.0
FE1 A:ICS1496 2.7 25.7 1.0
FE2 A:ICS1496 2.7 22.6 1.0
FE5 A:ICS1496 3.7 23.7 1.0
FE6 A:ICS1496 3.7 24.1 1.0
S1A A:ICS1496 3.8 25.6 1.0
NH2 A:ARG96 4.0 23.0 1.0
CD2 A:TYR229 4.2 25.6 1.0
S4B A:ICS1496 4.2 23.3 1.0
O A:HOH1631 4.3 24.1 1.0
S3B A:ICS1496 4.3 24.4 1.0
S2B A:ICS1496 4.4 20.9 1.0
CE2 A:TYR229 4.4 25.9 1.0
S3A A:ICS1496 4.5 24.1 1.0
NE A:ARG359 4.9 27.1 1.0
SG A:CYS275 5.0 24.8 1.0

Iron binding site 4 out of 40 in 4wzb

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Iron binding site 4 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:23.5
occ:1.00
 FE4 A:ICS1496 0.0 23.5 1.0
CX A:ICS1496 1.9 22.0 1.0
S3A A:ICS1496 2.3 24.1 1.0
S1A A:ICS1496 2.3 25.6 1.0
S4A A:ICS1496 2.3 25.2 1.0
FE5 A:ICS1496 2.6 23.7 1.0
FE3 A:ICS1496 2.6 25.0 1.0
FE2 A:ICS1496 2.6 22.6 1.0
FE1 A:ICS1496 2.7 25.7 1.0
FE6 A:ICS1496 3.7 24.1 1.0
FE7 A:ICS1496 3.7 22.4 1.0
S2A A:ICS1496 3.8 29.6 1.0
N A:LEU358 4.0 28.5 1.0
CB A:LEU358 4.0 27.0 1.0
N A:GLY357 4.1 30.4 1.0
S1B A:ICS1496 4.3 24.9 1.0
S4B A:ICS1496 4.3 23.3 1.0
S2B A:ICS1496 4.5 20.9 1.0
S5A A:ICS1496 4.5 25.6 1.0
CA A:LEU358 4.6 28.6 1.0
N A:ARG359 4.6 25.2 1.0
C A:GLY357 4.7 29.4 1.0
CD A:ARG359 4.7 23.9 1.0
CG A:ARG359 4.7 24.9 1.0
CA A:GLY357 4.8 26.0 1.0
SG A:CYS275 4.8 24.8 1.0
CA A:GLY356 4.8 27.1 1.0
NE A:ARG359 4.8 27.1 1.0
C A:GLY356 4.9 28.5 1.0

Iron binding site 5 out of 40 in 4wzb

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Iron binding site 5 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:23.7
occ:1.00
 FE5 A:ICS1496 0.0 23.7 1.0
CX A:ICS1496 2.0 22.0 1.0
S3A A:ICS1496 2.2 24.1 1.0
S4B A:ICS1496 2.2 23.3 1.0
S1B A:ICS1496 2.3 24.9 1.0
FE7 A:ICS1496 2.6 22.4 1.0
FE4 A:ICS1496 2.6 23.5 1.0
FE6 A:ICS1496 2.6 24.1 1.0
MO1 A:ICS1496 2.7 26.3 1.0
FE3 A:ICS1496 3.7 25.0 1.0
FE2 A:ICS1496 3.7 22.6 1.0
S3B A:ICS1496 3.9 24.4 1.0
ND1 A:HIS442 3.9 25.3 1.0
N A:GLY356 4.1 28.6 1.0
CG2 A:ILE355 4.1 23.9 1.0
CA A:GLY356 4.2 27.1 1.0
CE1 A:HIS442 4.3 25.5 1.0
S1A A:ICS1496 4.3 25.6 1.0
S4A A:ICS1496 4.3 25.2 1.0
O5 A:HCA1494 4.4 21.7 1.0
S5A A:ICS1496 4.4 25.6 1.0
CD A:ARG359 4.4 23.9 1.0
S2B A:ICS1496 4.5 20.9 1.0
NE A:ARG359 4.8 27.1 1.0
CG A:HIS442 4.8 25.1 1.0
N A:GLY357 4.8 30.4 1.0
O7 A:HCA1494 5.0 20.6 1.0

Iron binding site 6 out of 40 in 4wzb

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Iron binding site 6 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:24.1
occ:1.00
 FE6 A:ICS1496 0.0 24.1 1.0
CX A:ICS1496 2.0 22.0 1.0
S2B A:ICS1496 2.2 20.9 1.0
S3B A:ICS1496 2.2 24.4 1.0
S1B A:ICS1496 2.2 24.9 1.0
FE2 A:ICS1496 2.6 22.6 1.0
FE7 A:ICS1496 2.6 22.4 1.0
FE5 A:ICS1496 2.6 23.7 1.0
MO1 A:ICS1496 2.7 26.3 1.0
FE3 A:ICS1496 3.7 25.0 1.0
FE4 A:ICS1496 3.7 23.5 1.0
S4B A:ICS1496 3.8 23.3 1.0
O7 A:HCA1494 4.0 20.6 1.0
O5 A:HCA1494 4.2 21.7 1.0
S2A A:ICS1496 4.2 29.6 1.0
S1A A:ICS1496 4.3 25.6 1.0
S5A A:ICS1496 4.4 25.6 1.0
CZ A:PHE381 4.4 28.5 1.0
S3A A:ICS1496 4.5 24.1 1.0
CG2 A:VAL70 4.7 26.4 1.0
O2 A:HCA1494 4.8 20.9 1.0
ND1 A:HIS442 4.8 25.3 1.0
C3 A:HCA1494 4.9 21.0 1.0
C7 A:HCA1494 4.9 22.9 1.0
CE2 A:PHE381 4.9 27.5 1.0

Iron binding site 7 out of 40 in 4wzb

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Iron binding site 7 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1496

b:22.4
occ:1.00
 FE7 A:ICS1496 0.0 22.4 1.0
CX A:ICS1496 2.0 22.0 1.0
S5A A:ICS1496 2.2 25.6 1.0
S4B A:ICS1496 2.2 23.3 1.0
S3B A:ICS1496 2.3 24.4 1.0
FE6 A:ICS1496 2.6 24.1 1.0
FE5 A:ICS1496 2.6 23.7 1.0
FE3 A:ICS1496 2.6 25.0 1.0
MO1 A:ICS1496 2.7 26.3 1.0
O5 A:HCA1494 3.4 21.7 1.0
FE4 A:ICS1496 3.7 23.5 1.0
FE2 A:ICS1496 3.7 22.6 1.0
S1B A:ICS1496 3.8 24.9 1.0
NH2 A:ARG96 4.2 23.0 1.0
S2A A:ICS1496 4.3 29.6 1.0
NE A:ARG96 4.3 24.5 1.0
S4A A:ICS1496 4.4 25.2 1.0
S2B A:ICS1496 4.4 20.9 1.0
S3A A:ICS1496 4.5 24.1 1.0
C7 A:HCA1494 4.5 22.9 1.0
CZ A:ARG96 4.7 23.3 1.0
CZ A:ARG359 4.8 25.6 1.0
ND1 A:HIS442 4.8 25.3 1.0
NE A:ARG359 4.9 27.1 1.0
O7 A:HCA1494 4.9 20.6 1.0
NH2 A:ARG359 4.9 25.5 1.0

Iron binding site 8 out of 40 in 4wzb

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Iron binding site 8 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1498

b:19.4
occ:1.00
 FE1 A:CLF1498 0.0 19.4 1.0
S3A A:CLF1498 2.3 17.8 1.0
S2A A:CLF1498 2.3 23.4 1.0
FE2 A:CLF1498 2.4 19.7 1.0
SG B:CYS95 2.5 17.1 1.0
S1 A:CLF1498 2.5 29.6 1.0
FE3 A:CLF1498 2.6 19.3 1.0
FE4 A:CLF1498 2.6 20.0 1.0
FE8 A:CLF1498 3.1 20.7 1.0
N B:CYS95 3.2 18.0 1.0
CA B:CYS95 3.6 15.3 1.0
CB B:CYS95 3.6 18.5 1.0
S4A A:CLF1498 3.7 19.6 1.0
C B:GLY94 3.8 22.1 1.0
FE5 A:CLF1498 3.9 0.5 1.0
S4B A:CLF1498 4.1 21.2 1.0
CA B:GLY94 4.2 19.3 1.0
O B:HOH1610 4.3 23.1 1.0
SG A:CYS154 4.5 24.0 1.0
CB B:SER92 4.5 21.4 1.0
O B:GLY94 4.6 20.9 1.0
N B:GLY94 4.7 21.3 1.0
FE6 A:CLF1498 4.7 0.1 1.0
SG A:CYS62 4.8 22.3 1.0
O B:SER92 4.9 20.7 1.0
SG A:CYS88 4.9 29.7 1.0

Iron binding site 9 out of 40 in 4wzb

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Iron binding site 9 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1498

b:19.7
occ:1.00
 FE2 A:CLF1498 0.0 19.7 1.0
S4A A:CLF1498 2.3 19.6 1.0
S2A A:CLF1498 2.3 23.4 1.0
FE1 A:CLF1498 2.4 19.4 1.0
S1 A:CLF1498 2.5 29.6 1.0
SG A:CYS154 2.5 24.0 1.0
FE4 A:CLF1498 2.5 20.0 1.0
FE3 A:CLF1498 2.7 19.3 1.0
CB A:CYS154 3.4 20.7 1.0
O B:HOH1610 3.5 23.1 1.0
S3A A:CLF1498 3.7 17.8 1.0
N A:CYS154 3.8 19.3 1.0
CA A:GLY185 3.9 20.9 1.0
CA A:CYS154 4.1 23.2 1.0
SG B:CYS95 4.1 17.1 1.0
N A:GLY185 4.3 22.0 1.0
FE8 A:CLF1498 4.5 20.7 1.0
FE5 A:CLF1498 4.5 0.5 1.0
C A:GLY185 4.6 24.6 1.0
CB B:SER92 4.6 21.4 1.0
SG A:CYS88 4.6 29.7 1.0
FE6 A:CLF1498 4.8 0.1 1.0
SG B:CYS153 4.8 21.1 1.0
OG B:SER92 4.9 25.9 1.0
C A:GLU153 5.0 23.3 1.0
SG A:CYS62 5.0 22.3 1.0

Iron binding site 10 out of 40 in 4wzb

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Iron binding site 10 out of 40 in the Crystal Structure of Mgamppcp-Bound AV2-AV1 Complex


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 Mgamppcp-Bound AV2-AV1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1498

b:19.3
occ:1.00
 FE3 A:CLF1498 0.0 19.3 1.0
S4A A:CLF1498 2.3 19.6 1.0
S3A A:CLF1498 2.3 17.8 1.0
S2A A:CLF1498 2.3 23.4 1.0
SG A:CYS62 2.5 22.3 1.0
FE4 A:CLF1498 2.6 20.0 1.0
FE1 A:CLF1498 2.6 19.4 1.0
FE2 A:CLF1498 2.7 19.7 1.0
CB A:CYS62 3.6 21.8 1.0
CA A:GLY185 3.9 20.9 1.0
CB A:TYR64 4.0 19.1 1.0
S1 A:CLF1498 4.1 29.6 1.0
CA B:GLY94 4.3 19.3 1.0
CD2 A:TYR64 4.4 21.1 1.0
C B:GLY94 4.5 22.1 1.0
CG A:TYR64 4.5 20.8 1.0
N B:CYS95 4.7 18.0 1.0
N A:GLY185 4.8 22.0 1.0
SG A:CYS88 4.8 29.7 1.0
CE2 B:TYR98 4.9 18.8 1.0
C A:GLY185 4.9 24.6 1.0
SG A:CYS154 4.9 24.0 1.0
O A:HOH1531 4.9 19.6 1.0
CA A:CYS62 5.0 23.7 1.0
O B:GLY94 5.0 20.9 1.0
N A:TYR64 5.0 23.6 1.0

Reference:

F.A.Tezcan, J.T.Kaiser, D.Mustafi, M.Y.Walton, J.B.Howard, D.C.Rees. Nitrogenase Complexes: Multiple Docking Sites For A Nucleotide Switch Protein. Science V. 309 1377 2005.
ISSN: ESSN 1095-9203
PubMed: 16123301
DOI: 10.1126/SCIENCE.1115653
Page generated: Sun Dec 13 15:51:31 2020

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