Manganese in PDB 6s85: Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
Other elements in 6s85:
The structure of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. also contains other interesting chemical elements:
Manganese Binding Sites:
The binding sites of Manganese atom in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
(pdb code 6s85). This binding sites where shown within
5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the
Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna., PDB code: 6s85:
Jump to Manganese binding site number:
1;
2;
3;
4;
Manganese binding site 1 out
of 4 in 6s85
Go back to
Manganese Binding Sites List in 6s85
Manganese binding site 1 out
of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
Mono view
Stereo pair view
|
A full contact list of Manganese with other atoms in the Mn binding
site number 1 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mn501
b:0.5
occ:1.00
|
OP1
|
F:DG76
|
1.8
|
0.2
|
1.0
|
OD2
|
A:ASP48
|
1.8
|
93.9
|
1.0
|
OD1
|
A:ASP8
|
1.8
|
93.9
|
1.0
|
NE2
|
A:HIS10
|
1.9
|
93.9
|
1.0
|
CG
|
A:ASP48
|
2.5
|
93.9
|
1.0
|
CD2
|
A:HIS10
|
2.6
|
93.9
|
1.0
|
CB
|
A:ASP48
|
2.8
|
93.9
|
1.0
|
P
|
F:DG76
|
2.9
|
0.2
|
1.0
|
CG
|
A:ASP8
|
3.1
|
93.9
|
1.0
|
CE1
|
A:HIS10
|
3.1
|
93.9
|
1.0
|
OP2
|
F:DG76
|
3.3
|
0.2
|
1.0
|
MN
|
A:MN502
|
3.3
|
0.6
|
1.0
|
NE2
|
A:HIS224
|
3.4
|
93.9
|
1.0
|
OD1
|
A:ASP48
|
3.7
|
93.9
|
1.0
|
CG
|
A:HIS10
|
3.8
|
93.9
|
1.0
|
O3'
|
F:DA75
|
3.9
|
1.0
|
1.0
|
CB
|
A:ASP8
|
3.9
|
93.9
|
1.0
|
OD2
|
A:ASP8
|
4.0
|
93.9
|
1.0
|
CA
|
A:ASP8
|
4.0
|
93.9
|
1.0
|
O5'
|
F:DG76
|
4.0
|
0.2
|
1.0
|
ND1
|
A:HIS10
|
4.1
|
93.9
|
1.0
|
CE1
|
A:HIS224
|
4.1
|
93.9
|
1.0
|
CA
|
A:ASP48
|
4.3
|
93.9
|
1.0
|
CD2
|
A:HIS224
|
4.4
|
93.9
|
1.0
|
CE1
|
A:HIS184
|
4.5
|
93.9
|
1.0
|
NE2
|
A:HIS184
|
4.6
|
93.9
|
1.0
|
C
|
A:ASP8
|
4.7
|
93.9
|
1.0
|
C3'
|
F:DA75
|
4.8
|
1.0
|
1.0
|
O
|
A:ASP48
|
4.8
|
93.9
|
1.0
|
OD1
|
A:ASN83
|
4.9
|
93.9
|
1.0
|
O
|
A:ASP8
|
5.0
|
93.9
|
1.0
|
|
Manganese binding site 2 out
of 4 in 6s85
Go back to
Manganese Binding Sites List in 6s85
Manganese binding site 2 out
of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
Mono view
Stereo pair view
|
A full contact list of Manganese with other atoms in the Mn binding
site number 2 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mn502
b:0.6
occ:1.00
|
OP2
|
F:DG76
|
1.9
|
0.2
|
1.0
|
OD2
|
A:ASP48
|
1.9
|
93.9
|
1.0
|
OD1
|
A:ASN83
|
2.0
|
93.9
|
1.0
|
ND1
|
A:HIS222
|
2.4
|
93.9
|
1.0
|
NE2
|
A:HIS184
|
2.4
|
93.9
|
1.0
|
CG
|
A:ASP48
|
2.8
|
93.9
|
1.0
|
CE1
|
A:HIS222
|
3.0
|
93.9
|
1.0
|
P
|
F:DG76
|
3.1
|
0.2
|
1.0
|
CG
|
A:ASN83
|
3.1
|
93.9
|
1.0
|
OD1
|
A:ASP48
|
3.1
|
93.9
|
1.0
|
CE1
|
A:HIS184
|
3.2
|
93.9
|
1.0
|
MN
|
A:MN501
|
3.3
|
0.5
|
1.0
|
CG
|
A:HIS222
|
3.4
|
93.9
|
1.0
|
CD2
|
A:HIS184
|
3.5
|
93.9
|
1.0
|
OP1
|
F:DG76
|
3.5
|
0.2
|
1.0
|
ND2
|
A:ASN83
|
3.6
|
93.9
|
1.0
|
CA
|
A:HIS222
|
3.8
|
93.9
|
1.0
|
CB
|
A:HIS222
|
3.9
|
93.9
|
1.0
|
O3'
|
F:DA75
|
4.0
|
1.0
|
1.0
|
C3'
|
F:DA75
|
4.0
|
1.0
|
1.0
|
OD1
|
A:ASP8
|
4.0
|
93.9
|
1.0
|
NE2
|
A:HIS222
|
4.1
|
93.9
|
1.0
|
CB
|
A:ASP48
|
4.1
|
93.9
|
1.0
|
CD2
|
A:HIS222
|
4.3
|
93.9
|
1.0
|
O5'
|
F:DG76
|
4.3
|
0.2
|
1.0
|
CB
|
A:ASN83
|
4.4
|
93.9
|
1.0
|
ND1
|
A:HIS184
|
4.4
|
93.9
|
1.0
|
C2'
|
F:DA75
|
4.4
|
1.0
|
1.0
|
CG
|
A:HIS184
|
4.5
|
93.9
|
1.0
|
N
|
A:ASN83
|
4.5
|
93.9
|
1.0
|
O
|
A:HIS222
|
4.6
|
93.9
|
1.0
|
N
|
A:HIS222
|
4.7
|
93.9
|
1.0
|
NE2
|
A:HIS10
|
4.7
|
93.9
|
1.0
|
C
|
A:HIS222
|
4.7
|
93.9
|
1.0
|
C5'
|
F:DG76
|
4.8
|
0.2
|
1.0
|
|
Manganese binding site 3 out
of 4 in 6s85
Go back to
Manganese Binding Sites List in 6s85
Manganese binding site 3 out
of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
Mono view
Stereo pair view
|
A full contact list of Manganese with other atoms in the Mn binding
site number 3 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mn501
b:0.8
occ:1.00
|
OD2
|
B:ASP48
|
1.9
|
0.5
|
1.0
|
NE2
|
B:HIS224
|
1.9
|
0.9
|
1.0
|
NE2
|
B:HIS10
|
2.1
|
0.2
|
1.0
|
CE1
|
B:HIS10
|
2.2
|
0.2
|
1.0
|
CG
|
B:ASP48
|
2.6
|
0.5
|
1.0
|
CE1
|
B:HIS224
|
2.8
|
0.9
|
1.0
|
CD2
|
B:HIS224
|
3.0
|
0.9
|
1.0
|
MN
|
B:MN502
|
3.3
|
0.7
|
1.0
|
CB
|
B:ASP48
|
3.4
|
0.5
|
1.0
|
CD2
|
B:HIS10
|
3.4
|
0.2
|
1.0
|
OD1
|
B:ASP48
|
3.5
|
0.5
|
1.0
|
ND1
|
B:HIS10
|
3.5
|
0.2
|
1.0
|
ND1
|
B:HIS224
|
3.9
|
0.9
|
1.0
|
OD1
|
B:ASP8
|
4.0
|
0.0
|
1.0
|
CG
|
B:HIS224
|
4.0
|
0.9
|
1.0
|
CG
|
B:HIS10
|
4.1
|
0.2
|
1.0
|
CB
|
B:ASP8
|
4.2
|
0.0
|
1.0
|
CG
|
B:ASP8
|
4.3
|
0.0
|
1.0
|
ND1
|
B:HIS222
|
4.6
|
0.1
|
1.0
|
OD1
|
B:ASN83
|
4.7
|
0.1
|
1.0
|
O
|
B:HIS222
|
4.8
|
0.1
|
1.0
|
CA
|
B:ASP48
|
4.8
|
0.5
|
1.0
|
CA
|
B:ASP8
|
4.9
|
0.0
|
1.0
|
|
Manganese binding site 4 out
of 4 in 6s85
Go back to
Manganese Binding Sites List in 6s85
Manganese binding site 4 out
of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.
Mono view
Stereo pair view
|
A full contact list of Manganese with other atoms in the Mn binding
site number 4 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mn502
b:0.7
occ:1.00
|
OD2
|
B:ASP48
|
1.8
|
0.5
|
1.0
|
OD1
|
B:ASN83
|
1.9
|
0.1
|
1.0
|
ND1
|
B:HIS222
|
1.9
|
0.1
|
1.0
|
NE2
|
B:HIS184
|
2.5
|
0.8
|
1.0
|
CG
|
B:ASP48
|
2.5
|
0.5
|
1.0
|
CE1
|
B:HIS184
|
2.9
|
0.8
|
1.0
|
CG
|
B:HIS222
|
2.9
|
0.1
|
1.0
|
OD1
|
B:ASP48
|
2.9
|
0.5
|
1.0
|
CE1
|
B:HIS222
|
2.9
|
0.1
|
1.0
|
CG
|
B:ASN83
|
3.0
|
0.1
|
1.0
|
CA
|
B:HIS222
|
3.1
|
0.1
|
1.0
|
CB
|
B:HIS222
|
3.2
|
0.1
|
1.0
|
MN
|
B:MN501
|
3.3
|
0.8
|
1.0
|
ND2
|
B:ASN83
|
3.6
|
0.1
|
1.0
|
CD2
|
B:HIS184
|
3.8
|
0.8
|
1.0
|
CB
|
B:ASP48
|
3.8
|
0.5
|
1.0
|
O
|
B:HIS222
|
4.0
|
0.1
|
1.0
|
CD2
|
B:HIS222
|
4.0
|
0.1
|
1.0
|
NE2
|
B:HIS222
|
4.0
|
0.1
|
1.0
|
C
|
B:HIS222
|
4.0
|
0.1
|
1.0
|
ND1
|
B:HIS184
|
4.1
|
0.8
|
1.0
|
N
|
B:HIS222
|
4.1
|
0.1
|
1.0
|
OD1
|
B:ASP8
|
4.2
|
0.0
|
1.0
|
NE2
|
B:HIS224
|
4.2
|
0.9
|
1.0
|
CB
|
B:ASN83
|
4.2
|
0.1
|
1.0
|
CG
|
B:HIS184
|
4.5
|
0.8
|
1.0
|
N
|
B:ASN83
|
4.6
|
0.1
|
1.0
|
CA
|
B:ASP48
|
4.7
|
0.5
|
1.0
|
NE2
|
B:HIS10
|
4.9
|
0.2
|
1.0
|
N
|
B:ASP48
|
4.9
|
0.5
|
1.0
|
|
Reference:
L.Kashammer,
J.H.Saathoff,
K.Lammens,
F.Gut,
J.Bartho,
A.Alt,
B.Kessler,
K.P.Hopfner.
Mechanism of Dna End Sensing and Processing By the MRE11-RAD50 Complex. Mol.Cell V. 76 382 2019.
ISSN: ISSN 1097-2765
PubMed: 31492634
DOI: 10.1016/J.MOLCEL.2019.07.035
Page generated: Sun Oct 6 07:05:50 2024
|