Atomistry » Zinc » PDB 3gjn-3gtp » 3glg
Atomistry »
  Zinc »
    PDB 3gjn-3gtp »
      3glg »

Zinc in PDB 3glg: Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna

Enzymatic activity of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna

All present enzymatic activity of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna, PDB code: 3glg was solved by K.R.Simonetta, S.N.Seyedin, J.Kuriyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.24 / 3.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 100.102, 219.104, 274.664, 90.00, 90.00, 90.00
R / Rfree (%) 22.4 / 26.3

Other elements in 3glg:

The structure of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna also contains other interesting chemical elements:

Fluorine (F) 18 atoms
Magnesium (Mg) 6 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna (pdb code 3glg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna, PDB code: 3glg:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 1 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


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 A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn418

b:0.5
occ:1.00
 SG B:CYS79 2.3 0.3 1.0
SG B:CYS76 2.3 0.1 1.0
SG B:CYS73 2.3 0.9 1.0
SG B:CYS64 2.4 0.9 1.0
CB B:CYS79 3.2 0.9 1.0
CB B:CYS64 3.5 0.5 1.0
N B:CYS73 3.5 0.9 1.0
CB B:CYS76 3.6 1.0 1.0
CB B:CYS73 3.7 0.6 1.0
N B:GLY74 3.9 0.8 1.0
CA B:CYS64 4.0 0.8 1.0
CA B:CYS73 4.0 0.6 1.0
N B:GLU65 4.1 0.8 1.0
N B:CYS76 4.1 0.6 1.0
C B:CYS73 4.3 0.6 1.0
CA B:CYS79 4.4 0.9 1.0
N B:CYS79 4.4 0.3 1.0
CA B:CYS76 4.4 0.3 1.0
CG2 B:THR66 4.4 0.1 1.0
C B:CYS64 4.6 0.1 1.0
N B:VAL75 4.7 0.6 1.0
C B:PRO72 4.7 0.6 1.0
CA B:GLY74 4.9 0.7 1.0
N B:THR66 5.0 0.5 1.0

Zinc binding site 2 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 2 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


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 A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn419

b:0.8
occ:1.00
 SG C:CYS79 2.3 0.3 1.0
SG C:CYS76 2.3 1.0 1.0
SG C:CYS73 2.3 0.6 1.0
SG C:CYS64 2.4 0.2 1.0
CB C:CYS79 3.2 0.3 1.0
CB C:CYS64 3.4 0.1 1.0
CB C:CYS76 3.5 0.3 1.0
N C:CYS73 3.6 0.2 1.0
CB C:CYS73 3.7 0.1 1.0
CA C:CYS64 3.7 0.1 1.0
N C:GLU65 3.9 0.3 1.0
CA C:CYS73 4.0 0.2 1.0
N C:CYS76 4.1 0.5 1.0
N C:GLY74 4.1 0.1 1.0
C C:CYS64 4.2 0.2 1.0
CA C:CYS79 4.2 0.7 1.0
N C:CYS79 4.2 0.7 1.0
CA C:CYS76 4.3 0.5 1.0
C C:CYS73 4.4 0.2 1.0
CG2 C:THR66 4.5 0.8 1.0
N C:VAL75 4.6 0.3 1.0
C C:PRO72 4.7 0.9 1.0
O C:CYS76 4.7 0.8 1.0
C C:CYS76 4.9 0.5 1.0
CA C:PRO72 4.9 0.4 1.0

Zinc binding site 3 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 3 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


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 A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn420

b:0.2
occ:1.00
 SG D:CYS79 2.3 0.0 1.0
SG D:CYS76 2.3 0.8 1.0
SG D:CYS64 2.3 0.7 1.0
SG D:CYS73 2.4 0.4 1.0
CB D:CYS64 3.4 0.7 1.0
CB D:CYS73 3.5 0.8 1.0
N D:CYS73 3.6 0.3 1.0
N D:GLY74 3.6 0.8 1.0
CB D:CYS79 3.7 0.6 1.0
CB D:CYS76 3.9 0.3 1.0
CA D:CYS73 3.9 0.3 1.0
CA D:CYS64 4.0 0.7 1.0
N D:CYS76 4.1 0.3 1.0
N D:GLU65 4.2 0.3 1.0
CG2 D:THR66 4.2 0.6 1.0
C D:CYS73 4.2 0.4 1.0
N D:VAL75 4.3 0.6 1.0
C D:CYS64 4.5 0.4 1.0
C D:PRO72 4.5 1.0 1.0
CA D:GLY74 4.6 0.6 1.0
CA D:CYS76 4.6 0.9 1.0
N D:CYS79 4.6 0.3 1.0
CA D:CYS79 4.8 0.4 1.0
N D:THR66 4.9 0.8 1.0
CA D:PRO72 4.9 0.8 1.0
C D:GLY74 5.0 0.7 1.0

Zinc binding site 4 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 4 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


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 A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn421

b:0.8
occ:1.00
 SG E:CYS59 2.3 1.0 1.0
SG E:CYS62 2.3 0.3 1.0
SG E:CYS65 2.3 0.6 1.0
SG E:CYS50 2.3 0.2 1.0
CB E:CYS50 2.9 0.7 1.0
CB E:CYS65 3.3 0.3 1.0
N E:CYS59 3.6 0.4 1.0
CB E:CYS62 3.6 0.4 1.0
CA E:CYS50 3.7 0.1 1.0
CB E:CYS59 3.8 0.2 1.0
N E:GLY60 3.8 0.3 1.0
CA E:CYS59 4.1 0.2 1.0
N E:GLN51 4.1 0.8 1.0
N E:CYS62 4.1 0.7 1.0
C E:CYS50 4.3 0.5 1.0
N E:CYS65 4.3 0.2 1.0
CA E:CYS65 4.3 0.3 1.0
N E:GLN52 4.4 0.2 1.0
CA E:CYS62 4.4 0.4 1.0
C E:CYS59 4.5 0.5 1.0
C E:SER58 4.5 0.3 1.0
N E:HIS61 4.7 0.6 1.0
CA E:SER58 4.7 0.2 1.0
CA E:GLY60 4.7 0.6 1.0
O E:GLN52 4.8 0.0 1.0
C E:GLN52 4.8 0.6 1.0
CB E:SER58 4.9 0.2 1.0
N E:CYS50 4.9 0.6 1.0
C E:GLY60 5.0 0.6 1.0
CA E:GLN52 5.0 0.3 1.0

Zinc binding site 5 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 5 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn422

b:0.3
occ:1.00
 SG G:CYS79 2.3 0.3 1.0
SG G:CYS76 2.3 0.1 1.0
SG G:CYS73 2.3 0.3 1.0
SG G:CYS64 2.4 0.2 1.0
CB G:CYS79 3.3 0.8 1.0
CB G:CYS76 3.5 0.3 1.0
CB G:CYS64 3.5 0.2 1.0
N G:CYS73 3.6 0.5 1.0
CB G:CYS73 3.7 0.8 1.0
CA G:CYS64 3.9 0.4 1.0
N G:GLY74 4.0 0.5 1.0
N G:GLU65 4.0 0.9 1.0
CA G:CYS73 4.0 0.2 1.0
N G:CYS76 4.1 0.0 1.0
CA G:CYS76 4.4 0.8 1.0
C G:CYS73 4.4 0.0 1.0
CG2 G:THR66 4.4 0.6 1.0
N G:CYS79 4.4 0.3 1.0
CA G:CYS79 4.5 0.6 1.0
C G:CYS64 4.5 0.8 1.0
N G:VAL75 4.7 0.5 1.0
C G:PRO72 4.8 0.7 1.0
N G:THR66 4.9 0.4 1.0
CA G:GLY74 5.0 0.2 1.0
CB G:GLU65 5.0 0.2 1.0

Zinc binding site 6 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 6 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn423

b:0.4
occ:1.00
 SG H:CYS79 2.3 0.1 1.0
SG H:CYS76 2.3 0.5 1.0
SG H:CYS73 2.3 0.6 1.0
SG H:CYS64 2.4 0.8 1.0
CB H:CYS79 3.2 0.9 1.0
CB H:CYS64 3.3 99.2 1.0
N H:CYS73 3.5 0.2 1.0
CB H:CYS73 3.6 0.7 1.0
CB H:CYS76 3.7 0.1 1.0
CA H:CYS64 3.7 99.5 1.0
CA H:CYS73 3.9 0.6 1.0
N H:GLU65 3.9 0.2 1.0
N H:GLY74 4.0 0.1 1.0
N H:CYS76 4.2 0.0 1.0
C H:CYS64 4.2 0.8 1.0
C H:CYS73 4.3 0.9 1.0
CA H:CYS79 4.3 0.2 1.0
N H:CYS79 4.3 0.8 1.0
CG2 H:THR66 4.4 0.2 1.0
CA H:CYS76 4.5 0.7 1.0
C H:PRO72 4.6 0.4 1.0
N H:VAL75 4.7 0.1 1.0
CA H:PRO72 4.8 0.7 1.0
O H:CYS76 4.8 0.5 1.0
CA H:GLY74 5.0 0.5 1.0

Zinc binding site 7 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 7 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn424

b:0.7
occ:1.00
 SG I:CYS79 2.3 0.1 1.0
SG I:CYS76 2.3 0.8 1.0
SG I:CYS73 2.3 0.9 1.0
SG I:CYS64 2.4 94.3 1.0
CB I:CYS64 3.4 90.1 1.0
CB I:CYS73 3.6 1.0 1.0
N I:CYS73 3.6 0.1 1.0
N I:GLY74 3.7 0.6 1.0
CB I:CYS79 3.7 0.6 1.0
CB I:CYS76 3.8 0.9 1.0
CA I:CYS73 4.0 0.8 1.0
CA I:CYS64 4.0 89.3 1.0
N I:CYS76 4.1 0.4 1.0
N I:GLU65 4.1 0.2 1.0
CG2 I:THR66 4.1 0.8 1.0
C I:CYS73 4.3 0.6 1.0
N I:VAL75 4.3 0.2 1.0
C I:CYS64 4.4 92.4 1.0
CA I:CYS76 4.5 1.0 1.0
C I:PRO72 4.6 98.7 1.0
N I:CYS79 4.6 0.8 1.0
CA I:GLY74 4.7 0.1 1.0
CA I:CYS79 4.8 0.2 1.0
N I:THR66 4.8 0.6 1.0

Zinc binding site 8 out of 8 in 3glg

Go back to Zinc Binding Sites List in 3glg
Zinc binding site 8 out of 8 in the Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of A Mutant (GAMMAT157A) E. Coli Clamp Loader Bound to Primer-Template Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn425

b:0.6
occ:1.00
 SG J:CYS59 2.3 0.2 1.0
SG J:CYS62 2.3 0.6 1.0
SG J:CYS65 2.3 0.2 1.0
SG J:CYS50 2.3 0.2 1.0
CB J:CYS50 3.1 0.9 1.0
CB J:CYS65 3.2 0.7 1.0
CB J:CYS62 3.4 0.1 1.0
N J:CYS59 3.7 0.6 1.0
N J:GLY60 3.7 0.7 1.0
CB J:CYS59 3.8 0.9 1.0
CA J:CYS50 3.8 0.8 1.0
N J:CYS62 4.0 0.9 1.0
CA J:CYS59 4.1 0.9 1.0
N J:GLN51 4.2 0.1 1.0
N J:CYS65 4.2 0.5 1.0
CA J:CYS62 4.2 0.4 1.0
CA J:CYS65 4.3 0.9 1.0
C J:CYS50 4.3 0.4 1.0
N J:GLN52 4.4 0.1 1.0
C J:CYS59 4.5 0.2 1.0
N J:HIS61 4.5 0.2 1.0
C J:SER58 4.6 0.5 1.0
CA J:GLY60 4.6 0.8 1.0
O J:GLN52 4.9 0.0 1.0
C J:GLY60 4.9 0.7 1.0
CA J:SER58 4.9 1.0 1.0
C J:GLN52 4.9 0.3 1.0
C J:CYS62 4.9 0.9 1.0
O J:CYS62 4.9 0.8 1.0
CB J:SER58 5.0 0.4 1.0

Reference:

K.R.Simonetta, S.L.Kazmirski, E.R.Goedken, A.J.Cantor, B.A.Kelch, R.Mcnally, S.N.Seyedin, D.L.Makino, M.O'donnell, J.Kuriyan. The Mechanism of Atp-Dependent Primer-Template Recognition By A Clamp Loader Complex. Cell(Cambridge,Mass.) V. 137 659 2009.
ISSN: ISSN 0092-8674
PubMed: 19450514
DOI: 10.1016/J.CELL.2009.03.044
Page generated: Thu Oct 24 13:45:44 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