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Manganese in PDB 7mi5: Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex

Enzymatic activity of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex

All present enzymatic activity of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex:
3.1.12.1;

Other elements in 7mi5:

The structure of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex (pdb code 7mi5). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 6 binding sites of Manganese where determined in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex, PDB code: 7mi5:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6;

Manganese binding site 1 out of 6 in 7mi5

Go back to Manganese Binding Sites List in 7mi5
Manganese binding site 1 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn602

b:127.9
occ:1.00
 OE2 A:GLU466 2.3 119.8 1.0
OE2 A:GLU380 2.6 152.7 1.0
CD A:GLU466 3.0 119.8 1.0
OE1 A:GLU466 3.1 119.8 1.0
NE2 A:HIS451 3.5 126.6 1.0
NH1 A:ARG469 3.8 133.0 1.0
CD A:GLU380 3.8 152.7 1.0
CE1 A:HIS451 4.0 126.6 1.0
CZ A:ARG469 4.1 133.0 1.0
NZ A:LYS331 4.1 123.2 1.0
CG A:GLU466 4.4 119.8 1.0
NH2 A:ARG469 4.4 133.0 1.0
NE A:ARG469 4.6 133.0 1.0
OE1 A:GLU380 4.6 152.7 1.0
CD2 A:HIS451 4.7 126.6 1.0
CG A:GLU380 4.8 152.7 1.0

Manganese binding site 2 out of 6 in 7mi5

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Manganese binding site 2 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn701

b:171.5
occ:1.00
 OE1 B:GLU466 2.3 164.8 1.0
OE2 B:GLU466 2.5 164.8 1.0
CD B:GLU466 2.7 164.8 1.0
OE2 B:GLU380 2.9 155.6 1.0
NZ B:LYS331 3.7 153.5 1.0
NH1 B:ARG469 4.0 154.1 1.0
CD B:GLU380 4.1 155.6 1.0
CG B:GLU466 4.2 164.8 1.0
NE2 B:HIS451 4.3 142.7 1.0
NE B:ARG469 4.3 154.1 1.0
CZ B:ARG469 4.4 154.1 1.0
OE1 B:GLU380 4.7 155.6 1.0
CE1 B:HIS451 4.9 142.7 1.0
CE B:LYS331 4.9 153.5 1.0

Manganese binding site 3 out of 6 in 7mi5

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Manganese binding site 3 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn701

b:256.1
occ:1.00
 OE1 D:GLU466 2.3 241.7 1.0
OE2 D:GLU466 2.5 241.7 1.0
CD D:GLU466 2.7 241.7 1.0
OE2 D:GLU380 2.9 271.2 1.0
NZ D:LYS331 3.7 267.2 1.0
NH1 D:ARG469 4.0 241.6 1.0
CD D:GLU380 4.1 271.2 1.0
CG D:GLU466 4.2 241.7 1.0
NE2 D:HIS451 4.3 219.7 1.0
NE D:ARG469 4.3 241.6 1.0
CZ D:ARG469 4.4 241.6 1.0
OE1 D:GLU380 4.7 271.2 1.0
CE1 D:HIS451 4.9 219.7 1.0
CE D:LYS331 4.9 267.2 1.0

Manganese binding site 4 out of 6 in 7mi5

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Manganese binding site 4 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn101

b:105.2
occ:1.00
 OP1 H:DC15 1.9 122.2 1.0
OD1 E:ASP10 2.0 112.1 1.0
O E:TYR9 2.0 111.4 1.0
OG E:SER34 2.4 101.9 1.0
CB E:SER34 3.1 101.9 1.0
C E:TYR9 3.1 111.4 1.0
CG E:ASP10 3.2 112.1 1.0
P H:DC15 3.4 122.2 1.0
N E:ASP10 3.8 112.1 1.0
CA E:ASP10 3.9 112.1 1.0
OD2 E:ASP10 4.1 112.1 1.0
CB E:ASP10 4.1 112.1 1.0
O5' H:DC15 4.1 122.2 1.0
OP2 H:DC15 4.1 122.2 1.0
N E:TYR9 4.2 111.4 1.0
CA E:TYR9 4.3 111.4 1.0
C5' H:DC15 4.3 122.2 1.0
O E:SER34 4.4 101.9 1.0
O3' H:DC14 4.4 119.9 1.0
CD1 E:TYR9 4.4 111.4 1.0
CB F:LEU33 4.5 101.5 1.0
CA E:SER34 4.5 101.9 1.0
CD2 F:LEU33 4.6 101.5 1.0
CE1 E:TYR9 4.8 111.4 1.0
C E:SER34 4.9 101.9 1.0
CG E:TYR9 4.9 111.4 1.0

Manganese binding site 5 out of 6 in 7mi5

Go back to Manganese Binding Sites List in 7mi5
Manganese binding site 5 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mn101

b:104.8
occ:1.00
 OD1 F:ASP10 2.0 116.5 1.0
OP1 G:DC15 2.0 120.1 1.0
O F:TYR9 2.0 116.9 1.0
OG F:SER34 2.4 102.6 1.0
CB F:SER34 3.1 102.6 1.0
C F:TYR9 3.1 116.9 1.0
CG F:ASP10 3.2 116.5 1.0
P G:DC15 3.3 120.1 1.0
OP2 G:DC15 3.8 120.1 1.0
N F:ASP10 3.8 116.5 1.0
CA F:ASP10 3.9 116.5 1.0
OD2 F:ASP10 4.1 116.5 1.0
O5' G:DC15 4.1 120.1 1.0
CB F:ASP10 4.1 116.5 1.0
N F:TYR9 4.2 116.9 1.0
C5' G:DC15 4.3 120.1 1.0
CA F:TYR9 4.3 116.9 1.0
O F:SER34 4.4 102.6 1.0
CD1 F:TYR9 4.4 116.9 1.0
O3' G:DC14 4.4 121.4 1.0
CD2 E:LEU33 4.5 98.9 1.0
CB E:LEU33 4.5 98.9 1.0
CA F:SER34 4.5 102.6 1.0
CE1 F:TYR9 4.8 116.9 1.0
C F:SER34 4.9 102.6 1.0
CG F:TYR9 4.9 116.9 1.0

Manganese binding site 6 out of 6 in 7mi5

Go back to Manganese Binding Sites List in 7mi5
Manganese binding site 6 out of 6 in the Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Asymmetrical Pam-Non Pam Prespacer Bound CAS4/CAS1/CAS2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mn801

b:156.8
occ:1.00
 OP1 H:DG32 1.7 130.1 1.0
NE2 A:HIS48 1.9 147.8 1.0
CE1 A:HIS48 2.4 147.8 1.0
O A:TYR101 2.7 140.9 1.0
OD1 A:ASP100 2.7 152.2 1.0
P H:DG32 2.8 130.1 1.0
OD2 A:ASP87 2.9 158.1 1.0
CD2 A:HIS48 3.2 147.8 1.0
O5' H:DG32 3.3 130.1 1.0
NH2 A:ARG14 3.3 127.5 1.0
OP2 H:DG32 3.4 130.1 1.0
ND1 A:HIS48 3.7 147.8 1.0
OP2 H:DA33 3.7 130.6 1.0
C5' H:DG32 3.8 130.1 1.0
C A:TYR101 3.8 140.9 1.0
CG A:ASP100 3.9 152.2 1.0
CG A:ASP87 3.9 158.1 1.0
CG A:HIS48 4.1 147.8 1.0
NZ A:LYS102 4.1 132.9 1.0
N A:TYR101 4.1 140.9 1.0
CE A:LYS102 4.1 132.9 1.0
O3' H:DT31 4.2 137.3 1.0
OD2 A:ASP100 4.3 152.2 1.0
OD1 A:ASP87 4.4 158.1 1.0
CA A:TYR101 4.4 140.9 1.0
OP1 H:DA33 4.5 130.6 1.0
CZ A:ARG14 4.6 127.5 1.0
P H:DA33 4.6 130.6 1.0
CB A:TYR101 4.7 140.9 1.0
N A:LYS102 4.9 132.9 1.0
CB A:ASP87 4.9 158.1 1.0

Reference:

C.Hu, C.Almendros, K.H.Nam, A.R.Costa, J.N.A.Vink, A.C.Haagsma, S.R.Bagde, S.J.J.Brouns, A.Ke. Mechanism For CAS4-Assisted Directional Spacer Acquisition in Crispr-Cas. Nature V. 598 515 2021.
ISSN: ESSN 1476-4687
PubMed: 34588691
DOI: 10.1038/S41586-021-03951-Z
Page generated: Sun Oct 6 10:07:44 2024

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