Atomistry » Calcium » PDB 1i73-1iqi » 1ig9
Atomistry »
  Calcium »
    PDB 1i73-1iqi »
      1ig9 »

Calcium in PDB 1ig9: Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase

Enzymatic activity of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase

All present enzymatic activity of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase:
2.7.7.7;

Protein crystallography data

The structure of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase, PDB code: 1ig9 was solved by M.C.Franklin, J.Wang, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.75 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 80.787, 118.602, 127.997, 90.00, 90.00, 90.00
R / Rfree (%) 19.7 / 25.8

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase (pdb code 1ig9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase, PDB code: 1ig9:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 1ig9

Go back to Calcium Binding Sites List in 1ig9
Calcium binding site 1 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1001

b:44.3
occ:1.00
OD1 A:ASP623 2.6 67.5 1.0
O A:LEU412 2.6 59.1 1.0
O1G A:TTP1005 2.6 48.5 1.0
OD2 A:ASP411 2.6 63.0 1.0
OD1 A:ASP411 2.7 55.9 1.0
O2B A:TTP1005 2.7 41.8 1.0
O2A A:TTP1005 2.8 49.6 1.0
CG A:ASP411 3.0 58.9 1.0
PB A:TTP1005 3.4 49.2 1.0
PG A:TTP1005 3.5 42.5 1.0
O A:HOH1176 3.5 0.6 1.0
O3B A:TTP1005 3.6 47.5 1.0
CG A:ASP623 3.6 64.7 1.0
O3A A:TTP1005 3.7 52.1 1.0
C A:LEU412 3.8 56.9 1.0
PA A:TTP1005 3.9 52.2 1.0
O2G A:TTP1005 4.0 50.1 1.0
CA A:CA1002 4.1 79.1 1.0
OD2 A:ASP623 4.1 64.8 1.0
N A:LEU412 4.3 56.7 1.0
CB A:ASP411 4.5 56.3 1.0
CA A:LEU412 4.6 57.2 1.0
O5' A:TTP1005 4.7 50.1 1.0
C5' A:TTP1005 4.7 40.9 1.0
CB A:ASP623 4.7 61.5 1.0
N A:THR413 4.7 57.7 1.0
O3G A:TTP1005 4.8 55.0 1.0
N A:SER414 4.8 46.2 1.0
O1B A:TTP1005 4.8 48.4 1.0
CA A:THR413 4.8 55.8 1.0
C A:ASP411 4.9 57.7 1.0

Calcium binding site 2 out of 4 in 1ig9

Go back to Calcium Binding Sites List in 1ig9
Calcium binding site 2 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1002

b:79.1
occ:1.00
O2A A:TTP1005 2.9 49.6 1.0
OD2 A:ASP411 3.0 63.0 1.0
OG A:SER624 3.0 69.8 1.0
OD2 A:ASP623 3.3 64.8 1.0
CG A:ASP411 4.0 58.9 1.0
PA A:TTP1005 4.1 52.2 1.0
CA A:CA1001 4.1 44.3 1.0
CG A:ASP623 4.2 64.7 1.0
CB A:SER624 4.2 55.4 1.0
OD1 A:ASP623 4.2 67.5 1.0
O1A A:TTP1005 4.3 55.1 1.0
C3' P:DOC115 4.4 51.1 1.0
O P:HOH298 4.5 82.2 1.0
O5' P:DOC115 4.6 52.2 1.0
OD1 A:ASP411 4.8 55.9 1.0
CB A:ASP411 4.8 56.3 1.0
O5' A:TTP1005 5.0 50.1 1.0

Calcium binding site 3 out of 4 in 1ig9

Go back to Calcium Binding Sites List in 1ig9
Calcium binding site 3 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1003

b:0.0
occ:1.00
O A:HOH1176 2.8 0.6 1.0
O A:HOH1283 3.1 85.8 1.0
O A:HOH1278 3.2 1.0 1.0
OE1 A:GLU686 3.3 90.2 1.0
OD2 A:ASP684 3.4 0.2 1.0
OE1 A:GLU716 3.5 84.9 1.0
OD1 A:ASP684 3.7 0.8 1.0
CD A:GLU716 3.8 83.3 1.0
CG A:ASP684 4.0 94.5 1.0
NZ A:LYS486 4.1 48.2 1.0
CG A:GLU716 4.1 75.8 1.0
CD A:GLU686 4.2 88.5 1.0
OE2 A:GLU686 4.3 93.9 1.0
OD1 A:ASP411 4.4 55.9 1.0
OE2 A:GLU716 4.5 86.6 1.0
OG1 A:THR413 4.7 66.3 1.0

Calcium binding site 4 out of 4 in 1ig9

Go back to Calcium Binding Sites List in 1ig9
Calcium binding site 4 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1004

b:99.0
occ:1.00
O A:HOH1224 2.9 76.4 1.0
O A:HOH1173 3.0 95.8 1.0
OE1 A:GLU116 3.0 65.2 1.0
OE2 A:GLU116 3.0 63.9 1.0
O A:HOH1058 3.1 76.5 1.0
O A:HOH1086 3.2 82.8 1.0
CD A:GLU116 3.4 66.0 1.0
O A:HOH1289 4.0 80.2 1.0
OD2 A:ASP114 4.6 68.1 1.0
O A:HOH1264 4.7 79.7 1.0
CG A:GLU116 4.8 58.3 1.0

Reference:

M.C.Franklin, J.Wang, T.A.Steitz. Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase Cell(Cambridge,Mass.) V. 105 657 2001.
ISSN: ISSN 0092-8674
PubMed: 11389835
DOI: 10.1016/S0092-8674(01)00367-1
Page generated: Sat Dec 12 03:00:30 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy