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Zinc in PDB 1un6: The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition

Protein crystallography data

The structure of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition, PDB code: 1un6 was solved by D.Lu, M.A.Searles, A.Klug, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.19 / 3.10
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 58.598, 191.593, 79.770, 90.00, 101.51, 90.00
R / Rfree (%) 21.6 / 25.9

Other elements in 1un6:

The structure of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition also contains other interesting chemical elements:

Magnesium (Mg) 13 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition (pdb code 1un6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition, PDB code: 1un6:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 1un6

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Zinc binding site 1 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn204

b:51.6
occ:1.00
NE2 B:HIS129 2.0 44.1 1.0
NE2 B:HIS125 2.2 49.8 1.0
SG B:CYS112 2.4 52.4 1.0
SG B:CYS107 2.4 40.5 1.0
CE1 B:HIS129 2.9 45.3 1.0
CB B:CYS112 2.9 51.2 1.0
CD2 B:HIS129 3.0 47.9 1.0
CE1 B:HIS125 3.1 50.2 1.0
CD2 B:HIS125 3.2 50.0 1.0
CB B:CYS107 3.5 44.4 1.0
ND1 B:HIS129 4.1 46.7 1.0
CG B:HIS129 4.1 48.2 1.0
CB B:PHE109 4.2 51.3 1.0
ND1 B:HIS125 4.2 50.1 1.0
CG B:HIS125 4.3 48.7 1.0
CA B:CYS112 4.4 52.8 1.0
O B:CYS107 4.6 44.5 1.0
CA B:CYS107 4.8 44.6 1.0
OG B:SER128 4.8 52.4 1.0
C B:CYS107 5.0 45.1 1.0
N B:GLY113 5.0 52.9 1.0

Zinc binding site 2 out of 8 in 1un6

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Zinc binding site 2 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn205

b:47.5
occ:1.00
NE2 B:HIS159 2.0 39.6 1.0
SG B:CYS142 2.2 72.3 1.0
NE2 B:HIS155 2.4 44.8 1.0
SG B:CYS137 2.4 52.4 1.0
CE1 B:HIS159 2.8 39.7 1.0
CB B:CYS142 2.8 76.2 1.0
CB B:CYS137 3.1 56.8 1.0
CD2 B:HIS159 3.2 42.1 1.0
CE1 B:HIS155 3.3 45.1 1.0
CD2 B:HIS155 3.4 43.7 1.0
ND1 B:HIS159 4.0 42.9 1.0
CG B:HIS159 4.2 42.8 1.0
CB B:HIS139 4.2 71.6 1.0
CA B:CYS142 4.3 77.5 1.0
ND1 B:HIS155 4.4 45.2 1.0
CG B:HIS155 4.5 43.7 1.0
CA B:CYS137 4.5 60.0 1.0
C B:CYS142 4.8 77.5 1.0
O B:CYS142 4.8 77.3 1.0
CG B:HIS139 4.9 74.2 1.0

Zinc binding site 3 out of 8 in 1un6

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Zinc binding site 3 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn206

b:61.4
occ:1.00
SG B:CYS164 2.2 59.5 1.0
SG B:CYS170 2.3 60.8 1.0
NE2 B:HIS188 2.3 67.4 1.0
NE2 B:HIS183 2.3 44.8 1.0
CE1 B:HIS183 3.1 46.3 1.0
CE1 B:HIS188 3.2 67.2 1.0
CB B:CYS170 3.3 64.5 1.0
CD2 B:HIS188 3.3 68.5 1.0
CB B:CYS164 3.3 57.5 1.0
CD2 B:HIS183 3.4 45.5 1.0
CB B:PHE172 4.1 50.7 1.0
ND1 B:HIS183 4.3 45.0 1.0
ND1 B:HIS188 4.4 67.1 1.0
CG B:HIS188 4.4 69.5 1.0
CG B:HIS183 4.5 45.9 1.0
CB B:LYS166 4.5 67.4 1.0
CA B:CYS170 4.7 65.1 1.0
CA B:CYS164 4.7 57.8 1.0
CG B:PHE172 4.9 50.1 1.0
O B:CYS164 4.9 60.2 1.0

Zinc binding site 4 out of 8 in 1un6

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Zinc binding site 4 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn204

b:0.7
occ:1.00
SG C:CYS107 2.4 0.8 1.0
NE2 C:HIS129 2.6 0.6 1.0
SG C:CYS112 2.7 0.8 1.0
CD2 C:HIS129 2.9 0.8 1.0
CB C:CYS112 3.0 0.3 1.0
CB C:CYS107 3.3 0.1 1.0
NE2 C:HIS125 3.3 0.2 1.0
CD2 C:HIS125 3.4 0.8 1.0
CE1 C:HIS129 3.7 0.8 1.0
CB C:PHE109 3.8 0.5 1.0
OE1 C:GLN126 3.9 99.3 1.0
CG C:HIS129 4.0 0.9 1.0
ND1 C:HIS129 4.4 0.3 1.0
CA C:CYS112 4.5 0.4 1.0
CE1 C:HIS125 4.5 0.9 1.0
N C:PHE109 4.6 0.3 1.0
CG C:HIS125 4.6 0.0 1.0
CA C:CYS107 4.6 0.4 1.0
C C:CYS107 4.8 1.0 1.0
CG C:PHE109 4.8 0.6 1.0
CA C:PHE109 4.9 0.0 1.0
CD C:GLN126 4.9 99.9 1.0

Zinc binding site 5 out of 8 in 1un6

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Zinc binding site 5 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn205

b:75.7
occ:1.00
NE2 C:HIS159 2.1 71.8 1.0
NE2 C:HIS155 2.2 85.7 1.0
SG C:CYS142 2.4 84.6 1.0
SG C:CYS137 2.5 82.6 1.0
CE1 C:HIS159 3.0 71.2 1.0
CD2 C:HIS159 3.1 72.1 1.0
CE1 C:HIS155 3.2 86.9 1.0
CD2 C:HIS155 3.2 86.1 1.0
CB C:CYS142 3.4 91.2 1.0
CB C:CYS137 3.5 85.6 1.0
ND1 C:HIS159 4.1 71.9 1.0
CG C:HIS159 4.2 71.5 1.0
ND1 C:HIS155 4.3 86.3 1.0
CB C:HIS139 4.3 88.6 1.0
CG C:HIS155 4.3 85.2 1.0
O C:CYS142 4.7 96.2 1.0
CB C:LYS144 4.7 93.9 1.0
CA C:CYS142 4.8 93.7 1.0
CA C:CYS137 4.9 86.0 1.0

Zinc binding site 6 out of 8 in 1un6

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Zinc binding site 6 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn206

b:68.3
occ:1.00
NE2 C:HIS188 2.2 73.3 1.0
NE2 C:HIS183 2.3 52.2 1.0
SG C:CYS170 2.3 67.1 1.0
SG C:CYS164 2.4 82.5 1.0
CD2 C:HIS183 3.1 54.1 1.0
CE1 C:HIS188 3.1 72.8 1.0
CB C:CYS170 3.1 68.2 1.0
CD2 C:HIS188 3.2 75.4 1.0
CE1 C:HIS183 3.4 53.0 1.0
CB C:CYS164 3.5 79.8 1.0
ND1 C:HIS188 4.3 75.3 1.0
CG C:HIS183 4.3 55.0 1.0
CG C:HIS188 4.4 77.0 1.0
CB C:PHE172 4.4 53.8 1.0
ND1 C:HIS183 4.4 53.2 1.0
CA C:CYS170 4.6 69.7 1.0
CB C:LYS166 4.6 74.4 1.0
CA C:CYS164 4.8 78.7 1.0
CB C:CYS187 4.9 72.5 1.0
C C:CYS170 5.0 68.8 1.0

Zinc binding site 7 out of 8 in 1un6

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Zinc binding site 7 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn205

b:70.0
occ:1.00
NE2 D:HIS159 2.3 84.2 1.0
NE2 D:HIS155 2.4 1.0 1.0
SG D:CYS142 2.4 72.7 1.0
SG D:CYS137 2.4 71.1 1.0
CE1 D:HIS159 2.9 85.2 1.0
CD2 D:HIS155 3.2 100.0 1.0
CB D:CYS137 3.2 70.2 1.0
CB D:CYS142 3.3 75.6 1.0
CE1 D:HIS155 3.4 0.8 1.0
CD2 D:HIS159 3.5 84.6 1.0
ND1 D:HIS159 4.1 86.0 1.0
CG D:HIS155 4.3 98.7 1.0
ND1 D:HIS155 4.4 100.0 1.0
CG D:HIS159 4.4 85.7 1.0
CG D:LYS144 4.6 94.0 1.0
CB D:HIS139 4.6 64.9 1.0
CA D:CYS137 4.7 70.1 1.0
CE D:LYS144 4.7 97.1 1.0
CA D:CYS142 4.8 77.2 1.0
CD D:LYS144 4.8 95.8 1.0

Zinc binding site 8 out of 8 in 1un6

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Zinc binding site 8 out of 8 in the The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of The Crystal Structure of A Zinc Finger - Rna Complex Reveals Two Modes of Molecular Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn206

b:0.1
occ:1.00
NE2 D:HIS188 2.3 0.2 1.0
CE1 D:HIS183 2.5 88.6 1.0
NE2 D:HIS183 2.6 88.9 1.0
SG D:CYS164 2.7 0.9 1.0
CD2 D:HIS188 2.9 0.2 1.0
SG D:CYS170 3.0 0.9 1.0
CB D:CYS170 3.4 0.4 1.0
CE1 D:HIS188 3.4 0.3 1.0
ND1 D:HIS183 3.5 88.9 1.0
CD2 D:HIS183 3.7 87.9 1.0
CB D:CYS164 3.7 0.8 1.0
CG D:HIS188 4.1 0.9 1.0
CG D:HIS183 4.1 88.0 1.0
ND1 D:HIS188 4.4 0.8 1.0
CB D:LYS166 4.4 0.2 1.0
CA D:CYS170 4.9 0.1 1.0

Reference:

D.Lu, M.A.Searles, A.Klug. Crystal Structure of A Zinc-Finger-Rna Complex Reveals Two Modes of Molecular Recognition Nature V. 426 96 2003.
ISSN: ISSN 0028-0836
PubMed: 14603324
DOI: 10.1038/NATURE02088
Page generated: Mon Jan 25 16:14:42 2021

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