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Iron in PDB 2pa8: X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase

Enzymatic activity of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase

All present enzymatic activity of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase:
2.7.7.6;

Protein crystallography data

The structure of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase, PDB code: 2pa8 was solved by A.Hirata, K.S.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 1.76
Space group I 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 69.703, 93.346, 128.277, 90.00, 90.00, 90.00
R / Rfree (%) 21 / 24.7

Iron Binding Sites:

The binding sites of Iron atom in the X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase (pdb code 2pa8). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 3 binding sites of Iron where determined in the X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase, PDB code: 2pa8:
Jump to Iron binding site number: 1; 2; 3;

Iron binding site 1 out of 3 in 2pa8

Go back to Iron Binding Sites List in 2pa8
Iron binding site 1 out of 3 in the X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe3076

b:20.1
occ:1.00
FE1 D:F3S3076 0.0 20.1 1.0
S1 D:F3S3076 2.2 24.3 1.0
S2 D:F3S3076 2.3 24.6 1.0
S3 D:F3S3076 2.3 22.5 1.0
SG D:CYS209 2.4 23.9 1.0
FE4 D:F3S3076 2.7 23.9 1.0
FE3 D:F3S3076 2.7 21.1 1.0
CB D:CYS209 3.3 26.4 1.0
CD1 D:ILE219 3.5 24.0 1.0
S4 D:F3S3076 3.9 21.9 1.0
N D:CYS209 4.0 26.7 1.0
N D:GLU207 4.2 23.2 1.0
CA D:CYS209 4.2 26.1 1.0
CE1 D:PHE188 4.3 23.2 1.0
CA D:GLU207 4.4 24.4 1.0
N D:GLU208 4.5 26.1 1.0
CZ D:PHE188 4.6 22.4 1.0
C D:GLU207 4.8 26.0 1.0
SG D:CYS183 4.8 26.3 1.0
SG D:CYS203 4.9 19.0 1.0
N D:LEU210 4.9 28.6 1.0
CB D:CYS183 4.9 26.9 1.0
N D:CYS206 5.0 22.1 1.0
CG1 D:ILE219 5.0 22.3 1.0

Iron binding site 2 out of 3 in 2pa8

Go back to Iron Binding Sites List in 2pa8
Iron binding site 2 out of 3 in the X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe3076

b:21.1
occ:1.00
FE3 D:F3S3076 0.0 21.1 1.0
S3 D:F3S3076 2.1 22.5 1.0
S1 D:F3S3076 2.2 24.3 1.0
S4 D:F3S3076 2.3 21.9 1.0
SG D:CYS203 2.4 19.0 1.0
FE4 D:F3S3076 2.7 23.9 1.0
FE1 D:F3S3076 2.7 20.1 1.0
CB D:CYS203 3.3 18.0 1.0
CA D:CYS203 3.7 18.7 1.0
CD1 D:ILE219 3.8 24.0 1.0
N D:LEU205 3.8 17.1 1.0
S2 D:F3S3076 3.9 24.6 1.0
N D:THR204 4.0 18.3 1.0
CA D:LEU205 4.1 18.6 1.0
N D:CYS206 4.1 22.1 1.0
C D:CYS203 4.3 18.7 1.0
CG2 D:VAL187 4.5 21.3 1.0
C D:LEU205 4.7 20.0 1.0
N D:GLU207 4.8 23.2 1.0
C D:THR204 4.9 18.1 1.0
SG D:CYS209 4.9 23.9 1.0
SG D:CYS183 4.9 26.3 1.0

Iron binding site 3 out of 3 in 2pa8

Go back to Iron Binding Sites List in 2pa8
Iron binding site 3 out of 3 in the X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe3076

b:23.9
occ:1.00
FE4 D:F3S3076 0.0 23.9 1.0
S4 D:F3S3076 2.3 21.9 1.0
S2 D:F3S3076 2.3 24.6 1.0
S3 D:F3S3076 2.3 22.5 1.0
SG D:CYS183 2.4 26.3 1.0
FE1 D:F3S3076 2.7 20.1 1.0
FE3 D:F3S3076 2.7 21.1 1.0
CB D:CYS183 3.3 26.9 1.0
S1 D:F3S3076 3.8 24.3 1.0
CA D:CYS183 3.9 28.5 1.0
CG2 D:VAL187 4.0 21.3 1.0
CB D:VAL187 4.3 22.7 1.0
CD D:PRO184 4.4 30.5 1.0
CE1 D:PHE188 4.5 23.2 1.0
CB D:CYS206 4.5 28.0 1.0
C D:CYS183 4.6 29.0 1.0
N D:PRO184 4.7 29.6 1.0
SG D:CYS209 4.8 23.9 1.0
CB D:GLU185 4.8 31.6 1.0
N D:GLU185 4.8 29.9 1.0
SG D:CYS203 5.0 19.0 1.0

Reference:

A.Hirata, B.J.Klein, K.S.Murakami. The X-Ray Crystal Structure of Rna Polymerase From Archaea. Nature V. 451 851 2008.
ISSN: ISSN 0028-0836
PubMed: 18235446
DOI: 10.1038/NATURE06530
Page generated: Sun Dec 13 14:50:55 2020

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