Atomistry » Magnesium » PDB 6i0v-6i9t » 6i1l
Atomistry »
  Magnesium »
    PDB 6i0v-6i9t »
      6i1l »

Magnesium in PDB 6i1l: Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target

Enzymatic activity of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target

All present enzymatic activity of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target:
3.1.21.1; 3.1.27.2;

Protein crystallography data

The structure of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target, PDB code: 6i1l was solved by M.Jinek, D.C.Swarts, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.14 / 2.98
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 78.800, 188.580, 284.120, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 23.1

Other elements in 6i1l:

The structure of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target also contains other interesting chemical elements:

Potassium (K) 12 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target (pdb code 6i1l). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 9 binding sites of Magnesium where determined in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target, PDB code: 6i1l:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Magnesium binding site 1 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 1 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1401

b:74.4
occ:1.00
 O A:HOH1510 2.2 74.4 1.0
O A:HOH1536 2.2 74.4 1.0
O A:HOH1530 2.2 74.4 1.0
OD1 A:ASN602 2.9 58.1 1.0
OG1 A:THR604 2.9 56.7 1.0
O A:ASP616 3.2 62.5 1.0
NZ A:LYS635 3.7 71.2 1.0
CG A:ASN602 3.9 57.1 1.0
OG A:SER603 3.9 62.9 1.0
CG2 A:THR604 3.9 49.9 1.0
CB A:THR604 3.9 55.9 1.0
N A:THR604 4.1 63.6 1.0
ND2 A:ASN602 4.3 51.3 1.0
C A:ASP616 4.4 61.2 1.0
CE A:LYS635 4.4 73.6 1.0
N A:SER603 4.4 59.8 1.0
O A:HOH1543 4.4 55.7 1.0
CA A:THR604 4.6 56.8 1.0
CA A:ASP616 4.9 58.6 1.0
O A:HOH1534 4.9 60.5 1.0
C A:SER603 5.0 59.6 1.0
CA A:ASN602 5.0 58.5 1.0

Magnesium binding site 2 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 2 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1402

b:70.9
occ:1.00
 O A:HOH1535 2.2 70.9 1.0
O A:HOH1503 2.2 70.9 1.0
O A:HOH1526 2.2 70.9 1.0
O A:HOH1501 2.2 70.9 1.0
O A:HOH1540 2.2 70.9 1.0
O A:HOH1521 2.2 70.9 1.0
OD1 A:ASN607 3.9 63.4 1.0
NZ A:LYS597 4.1 43.4 1.0
CE A:LYS597 4.4 53.3 1.0
ND2 A:ASN607 4.5 69.3 1.0
CG A:ASN607 4.5 65.1 1.0
CB A:GLU827 4.9 54.7 1.0
CG A:GLU829 4.9 45.1 1.0
O A:ALA828 4.9 59.5 1.0
OE2 A:GLU829 5.0 55.8 1.0

Magnesium binding site 3 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 3 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1403

b:95.9
occ:1.00
 O A:HOH1538 2.2 95.9 1.0
O A:HOH1542 2.2 95.9 1.0
O A:HOH1544 2.2 95.9 1.0
SG A:CYS70 3.1 82.7 1.0
CB A:CYS70 4.2 81.6 1.0
CA A:SER72 4.9 71.2 1.0
O A:CYS70 5.0 84.1 1.0

Magnesium binding site 4 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 4 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1404

b:78.3
occ:1.00
 O B:HOH205 2.2 78.3 1.0
O A:HOH1502 2.2 78.3 1.0
O A:HOH1523 2.2 78.3 1.0
O B:HOH203 2.2 78.3 1.0
OP2 B:A-3 2.7 61.2 1.0
O A:ARG800 2.8 72.6 1.0
C A:ARG800 4.0 69.8 1.0
OP2 B:U-4 4.1 69.8 1.0
O A:HOH1511 4.2 52.9 1.0
OD1 A:ASN802 4.2 61.9 1.0
P B:A-3 4.2 67.2 1.0
OP1 B:U-4 4.3 78.4 1.0
OD1 A:ASP792 4.3 64.0 1.0
O5' B:U-4 4.4 74.0 1.0
P B:U-4 4.5 69.6 1.0
CA A:PRO801 4.5 61.9 1.0
C5' B:A-3 4.5 63.5 1.0
C A:PRO801 4.6 63.5 1.0
N A:PRO801 4.7 64.9 1.0
C3' B:U-4 4.7 69.0 1.0
N A:ASN802 4.8 53.7 1.0
N7 B:A-3 4.9 63.0 1.0
O3' B:U-4 4.9 66.4 1.0
O5' B:A-3 5.0 67.5 1.0
C8 B:A-3 5.0 62.2 1.0
N A:ARG800 5.0 74.0 1.0
NZ A:LYS791 5.0 63.9 1.0

Magnesium binding site 5 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 5 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg101

b:85.0
occ:1.00
 O B:HOH210 2.2 85.0 1.0
O A:HOH1529 2.2 85.0 1.0
O B:HOH206 2.2 85.0 1.0
O B:HOH201 2.2 85.0 1.0
O B:HOH204 2.2 85.0 1.0
O B:HOH208 2.2 85.0 1.0
OP2 B:A-17 4.0 81.8 1.0
O4 B:U-16 4.1 57.5 1.0
OP2 B:U-12 4.2 56.0 1.0
NH2 A:ARG872 4.5 46.3 1.0
OP2 B:A-11 4.7 58.5 1.0
OD1 A:ASP870 4.7 70.0 1.0
OP1 B:A-17 4.8 81.0 1.0
P B:A-17 4.9 81.9 1.0
C4 B:U-16 4.9 57.9 1.0

Magnesium binding site 6 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 6 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1401

b:86.5
occ:1.00
 O D:HOH1510 2.2 86.5 1.0
O D:HOH1519 2.2 86.5 1.0
O D:HOH1522 2.2 86.5 1.0
O D:ASP616 2.8 82.2 1.0
OD1 D:ASN602 2.9 76.7 1.0
OG1 D:THR604 2.9 81.6 1.0
CG D:ASN602 3.6 75.9 1.0
ND2 D:ASN602 3.7 70.4 1.0
C D:ASP616 3.8 80.0 1.0
CG2 D:THR604 3.9 74.5 1.0
CB D:THR604 3.9 81.0 1.0
CA D:ASP616 4.1 79.0 1.0
O3 D:CIT1406 4.1 0.9 1.0
CB D:ASP616 4.2 80.2 1.0
N D:THR604 4.3 88.1 1.0
CA D:THR604 4.6 82.1 1.0
OD2 D:ASP616 4.6 99.3 1.0
OG D:SER603 4.7 79.4 1.0
C5 D:CIT1406 4.8 0.9 1.0
O4 D:CIT1406 4.8 0.9 1.0
N D:SER603 4.9 77.0 1.0
C D:THR604 4.9 80.7 1.0
CB D:ASN602 5.0 75.6 1.0
CG D:ASP616 5.0 93.5 1.0
N D:ASN617 5.0 86.8 1.0

Magnesium binding site 7 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 7 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1402

b:86.8
occ:1.00
 O D:HOH1507 2.2 86.8 1.0
O E:HOH201 2.2 86.8 1.0
O D:HOH1515 2.2 86.8 1.0
O E:HOH204 2.2 86.8 1.0
OP2 E:A-3 2.8 68.7 1.0
O D:ARG800 2.8 76.2 1.0
OD1 D:ASP792 3.8 72.1 1.0
C D:ARG800 3.9 73.7 1.0
OD1 D:ASN802 4.0 75.1 1.0
OP2 E:U-4 4.1 71.0 1.0
P E:A-3 4.1 74.7 1.0
OP1 E:U-4 4.3 80.1 1.0
P E:U-4 4.5 71.0 1.0
O5' E:A-3 4.5 74.7 1.0
CA D:PRO801 4.5 72.4 1.0
C D:PRO801 4.6 74.7 1.0
O5' E:U-4 4.6 75.6 1.0
N D:ARG800 4.7 79.3 1.0
N D:ASN802 4.7 66.2 1.0
N D:PRO801 4.7 76.6 1.0
CG D:ASP792 4.8 68.6 1.0
CG D:ASN802 4.9 72.2 1.0
CA D:ARG800 4.9 75.1 1.0
N7 E:A-3 4.9 70.2 1.0
C3' E:U-4 5.0 70.9 1.0
C8 E:A-3 5.0 69.5 1.0

Magnesium binding site 8 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 8 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1403

b:0.6
occ:1.00
 O D:HOH1506 2.2 0.6 1.0
O D:HOH1505 2.2 0.6 1.0
O D:HOH1526 2.2 0.6 1.0
O D:HOH1525 2.2 0.6 1.0
O D:HOH1502 2.2 0.6 1.0
O E:HOH210 2.2 0.6 1.0
NZ D:LYS994 4.1 87.3 1.0
CE D:LYS994 4.2 82.6 1.0
NE2 D:HIS990 4.4 71.5 1.0
NH2 D:ARG800 4.4 0.4 1.0

Magnesium binding site 9 out of 9 in 6i1l

Go back to Magnesium Binding Sites List in 6i1l
Magnesium binding site 9 out of 9 in the Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of FNCAS12A in Complex with A Crrna Guide and Ssdna Target within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg101

b:91.7
occ:1.00
 O E:HOH206 2.2 91.7 1.0
O E:HOH211 2.2 91.7 1.0
O E:HOH203 2.2 91.7 1.0
O E:HOH202 2.2 91.7 1.0
O D:HOH1524 2.2 91.7 1.0
O E:HOH207 2.2 91.7 1.0
OP2 E:U-12 4.1 69.9 1.0
O E:HOH208 4.3 91.3 1.0
OP2 E:A-17 4.3 84.8 1.0
O4 E:U-16 4.5 65.8 1.0
OP2 E:A-11 4.6 70.2 1.0
OP1 E:A-17 4.8 84.3 1.0
NH2 D:ARG872 4.9 53.6 1.0
OD1 D:ASP870 4.9 77.4 1.0

Reference:

D.C.Swarts, M.Jinek. Mechanistic Insights Into the Cis- and Trans-Acting Dnase Activities of CAS12A. Mol. Cell V. 73 589 2019.
ISSN: ISSN 1097-4164
PubMed: 30639240
DOI: 10.1016/J.MOLCEL.2018.11.021
Page generated: Tue Oct 1 02:55:54 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy