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Zinc in PDB 1t5l: Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2

Protein crystallography data

The structure of Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2, PDB code: 1t5l was solved by J.J.Truglio, D.L.Croteau, M.Skorvaga, M.J.Dellavecchia, K.Theis, B.S.Mandavilli, B.Van Houten, C.Kisker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.60
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 150.815, 150.815, 159.832, 90.00, 90.00, 120.00
R / Rfree (%) 23 / 28.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2 (pdb code 1t5l). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2, PDB code: 1t5l:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 1t5l

Go back to Zinc Binding Sites List in 1t5l
Zinc binding site 1 out of 4 in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn659

b:87.0
occ:1.00
NE2 A:HIS403 2.1 58.4 1.0
O A:HOH726 2.7 56.0 1.0
O A:HOH708 2.7 57.9 1.0
CD2 A:HIS403 3.0 57.6 1.0
CE1 A:HIS403 3.2 55.7 1.0
OE1 A:GLU383 3.7 56.3 1.0
CG A:HIS403 4.2 58.0 1.0
ND1 A:HIS403 4.3 56.0 1.0
CE1 A:TYR399 4.8 45.6 1.0
CD A:GLU383 4.9 54.6 1.0
OH A:TYR399 4.9 49.3 1.0

Zinc binding site 2 out of 4 in 1t5l

Go back to Zinc Binding Sites List in 1t5l
Zinc binding site 2 out of 4 in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn660

b:89.9
occ:0.25
NE2 A:HIS581 2.2 61.1 1.0
CE1 A:HIS581 3.0 57.5 1.0
CD2 A:HIS581 3.3 60.0 1.0
OH A:TYR577 3.9 51.8 1.0
CE1 A:TYR577 3.9 47.6 1.0
ND1 A:HIS581 4.1 54.3 1.0
CZ A:TYR577 4.2 47.2 1.0
CG A:HIS581 4.3 55.8 1.0
NZ A:LYS580 4.6 68.5 1.0
O A:GLY15 4.9 61.5 1.0
CD1 A:TYR577 5.0 46.2 1.0

Zinc binding site 3 out of 4 in 1t5l

Go back to Zinc Binding Sites List in 1t5l
Zinc binding site 3 out of 4 in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn659

b:83.8
occ:1.00
NE2 B:HIS403 2.2 47.5 1.0
CE1 B:HIS403 3.1 43.5 1.0
CD2 B:HIS403 3.2 43.1 1.0
OE1 B:GLU383 4.1 50.4 1.0
ND1 B:HIS403 4.2 42.0 1.0
CG B:HIS403 4.3 43.3 1.0
OE2 B:GLU402 4.5 60.1 1.0
O B:HOH751 4.8 70.2 1.0
OE1 B:GLU402 5.0 61.2 1.0
CD B:GLU402 5.0 58.7 1.0

Zinc binding site 4 out of 4 in 1t5l

Go back to Zinc Binding Sites List in 1t5l
Zinc binding site 4 out of 4 in the Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Dna Repair Protein Uvrb Point Mutant Y96A Revealing A Novel Fold For Domain 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn660

b:72.5
occ:0.50
NE2 B:HIS581 2.2 47.5 1.0
CE1 B:HIS581 2.9 44.5 1.0
CD2 B:HIS581 3.4 44.8 1.0
ND1 B:HIS581 4.1 41.6 1.0
NZ B:LYS580 4.2 49.2 1.0
CE1 B:TYR577 4.2 29.9 1.0
CG B:HIS581 4.4 41.5 1.0
OH B:TYR577 4.5 37.6 1.0
CZ B:TYR577 4.7 32.5 1.0
O B:HOH729 5.0 55.9 1.0

Reference:

J.J.Truglio, D.L.Croteau, M.Skorvaga, M.J.Dellavecchia, K.Theis, B.S.Mandavilli, B.Van Houten, C.Kisker. Interactions Between Uvra and Uvrb: the Role of Uvrb'S Domain 2 in Nucleotide Excision Repair Embo J. V. 23 2498 2004.
ISSN: ISSN 0261-4189
PubMed: 15192705
DOI: 10.1038/SJ.EMBOJ.7600263
Page generated: Mon Jan 25 16:13:39 2021

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