Cobalt in PDB 4c1n: Corrinoid Protein Reactivation Complex with Activator
Protein crystallography data
The structure of Corrinoid Protein Reactivation Complex with Activator, PDB code: 4c1n
was solved by
S.E.Hennig,
S.Goetzl,
J.H.Jeoung,
M.Bommer,
F.Lendzian,
P.Hildebrandt,
H.Dobbek,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
30.631 /
2.53
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
67.134,
128.175,
163.366,
77.61,
82.25,
88.76
|
R / Rfree (%)
|
19.08 /
24.29
|
Other elements in 4c1n:
The structure of Corrinoid Protein Reactivation Complex with Activator also contains other interesting chemical elements:
Cobalt Binding Sites:
The binding sites of Cobalt atom in the Corrinoid Protein Reactivation Complex with Activator
(pdb code 4c1n). This binding sites where shown within
5.0 Angstroms radius around Cobalt atom.
In total 4 binding sites of Cobalt where determined in the
Corrinoid Protein Reactivation Complex with Activator, PDB code: 4c1n:
Jump to Cobalt binding site number:
1;
2;
3;
4;
Cobalt binding site 1 out
of 4 in 4c1n
Go back to
Cobalt Binding Sites List in 4c1n
Cobalt binding site 1 out
of 4 in the Corrinoid Protein Reactivation Complex with Activator
Mono view
Stereo pair view
|
A full contact list of Cobalt with other atoms in the Co binding
site number 1 of Corrinoid Protein Reactivation Complex with Activator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Co1444
b:25.7
occ:1.00
|
CO
|
C:B121444
|
0.0
|
25.7
|
1.0
|
N21
|
C:B121444
|
1.9
|
27.2
|
1.0
|
N24
|
C:B121444
|
1.9
|
29.8
|
1.0
|
N23
|
C:B121444
|
1.9
|
27.3
|
1.0
|
N22
|
C:B121444
|
1.9
|
32.4
|
1.0
|
OG
|
J:SER398
|
2.4
|
34.9
|
0.9
|
C19
|
C:B121444
|
2.8
|
28.8
|
1.0
|
C9
|
C:B121444
|
2.8
|
29.5
|
1.0
|
C1
|
C:B121444
|
2.9
|
26.6
|
1.0
|
C11
|
C:B121444
|
2.9
|
29.9
|
1.0
|
C4
|
C:B121444
|
2.9
|
27.3
|
1.0
|
C6
|
C:B121444
|
2.9
|
28.2
|
1.0
|
C14
|
C:B121444
|
3.0
|
29.0
|
1.0
|
C16
|
C:B121444
|
3.0
|
31.4
|
1.0
|
CB
|
J:SER398
|
3.2
|
29.7
|
0.9
|
C10
|
C:B121444
|
3.2
|
34.1
|
1.0
|
C5
|
C:B121444
|
3.3
|
28.9
|
1.0
|
C15
|
C:B121444
|
3.4
|
27.1
|
1.0
|
C20
|
C:B121444
|
3.4
|
21.8
|
1.0
|
OG1
|
C:THR374
|
3.8
|
27.5
|
1.0
|
C18
|
C:B121444
|
4.1
|
26.4
|
1.0
|
C2
|
C:B121444
|
4.1
|
25.9
|
1.0
|
O
|
J:SER398
|
4.2
|
34.0
|
0.9
|
C7
|
C:B121444
|
4.2
|
32.3
|
1.0
|
C8
|
C:B121444
|
4.2
|
30.8
|
1.0
|
C3
|
C:B121444
|
4.2
|
24.4
|
1.0
|
C12
|
C:B121444
|
4.2
|
28.3
|
1.0
|
C13
|
C:B121444
|
4.2
|
29.4
|
1.0
|
C17
|
C:B121444
|
4.3
|
30.5
|
1.0
|
CG2
|
C:THR374
|
4.3
|
25.6
|
1.0
|
CA
|
J:SER398
|
4.6
|
30.3
|
0.9
|
CB
|
C:THR374
|
4.6
|
25.8
|
1.0
|
C26
|
C:B121444
|
4.6
|
24.3
|
1.0
|
C37
|
C:B121444
|
4.6
|
33.0
|
1.0
|
C35
|
C:B121444
|
4.7
|
30.8
|
1.0
|
C48
|
C:B121444
|
4.8
|
25.6
|
1.0
|
O39
|
C:B121444
|
4.8
|
35.2
|
1.0
|
C46
|
C:B121444
|
4.8
|
25.3
|
1.0
|
C
|
J:SER398
|
4.8
|
29.6
|
0.9
|
C53
|
C:B121444
|
4.9
|
28.2
|
1.0
|
C41
|
C:B121444
|
4.9
|
28.1
|
1.0
|
CA
|
C:THR374
|
5.0
|
28.5
|
1.0
|
C30
|
C:B121444
|
5.0
|
23.1
|
1.0
|
|
Cobalt binding site 2 out
of 4 in 4c1n
Go back to
Cobalt Binding Sites List in 4c1n
Cobalt binding site 2 out
of 4 in the Corrinoid Protein Reactivation Complex with Activator
Mono view
Stereo pair view
|
A full contact list of Cobalt with other atoms in the Co binding
site number 2 of Corrinoid Protein Reactivation Complex with Activator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Co1631
b:20.7
occ:1.00
|
CO
|
I:B121631
|
0.0
|
20.7
|
1.0
|
N21
|
I:B121631
|
1.9
|
24.1
|
1.0
|
N24
|
I:B121631
|
1.9
|
18.5
|
1.0
|
N23
|
I:B121631
|
1.9
|
20.4
|
1.0
|
N22
|
I:B121631
|
1.9
|
23.8
|
1.0
|
OG
|
I:SER398
|
2.4
|
29.9
|
1.0
|
C19
|
I:B121631
|
2.8
|
19.9
|
1.0
|
C9
|
I:B121631
|
2.8
|
21.7
|
1.0
|
C4
|
I:B121631
|
2.8
|
23.6
|
1.0
|
C11
|
I:B121631
|
2.9
|
22.0
|
1.0
|
C1
|
I:B121631
|
2.9
|
26.1
|
1.0
|
C6
|
I:B121631
|
2.9
|
23.5
|
1.0
|
C14
|
I:B121631
|
3.0
|
17.4
|
1.0
|
C16
|
I:B121631
|
3.0
|
24.8
|
1.0
|
C10
|
I:B121631
|
3.2
|
21.8
|
1.0
|
CB
|
I:SER398
|
3.2
|
25.0
|
1.0
|
C5
|
I:B121631
|
3.3
|
21.1
|
1.0
|
C15
|
I:B121631
|
3.4
|
18.4
|
1.0
|
C20
|
I:B121631
|
3.5
|
20.2
|
1.0
|
OG1
|
A:THR374
|
3.7
|
26.9
|
1.0
|
O
|
I:SER398
|
4.1
|
33.0
|
1.0
|
C18
|
I:B121631
|
4.1
|
22.2
|
1.0
|
C2
|
I:B121631
|
4.1
|
22.9
|
1.0
|
C7
|
I:B121631
|
4.1
|
24.3
|
1.0
|
C3
|
I:B121631
|
4.2
|
22.2
|
1.0
|
C8
|
I:B121631
|
4.2
|
20.8
|
1.0
|
C12
|
I:B121631
|
4.2
|
21.7
|
1.0
|
C13
|
I:B121631
|
4.2
|
20.6
|
1.0
|
C17
|
I:B121631
|
4.3
|
25.9
|
1.0
|
CG2
|
A:THR374
|
4.4
|
22.9
|
1.0
|
C26
|
I:B121631
|
4.6
|
24.8
|
1.0
|
C37
|
I:B121631
|
4.6
|
26.1
|
1.0
|
CA
|
I:SER398
|
4.6
|
28.5
|
1.0
|
CB
|
A:THR374
|
4.6
|
23.3
|
1.0
|
C35
|
I:B121631
|
4.7
|
22.4
|
1.0
|
O39
|
I:B121631
|
4.7
|
27.1
|
1.0
|
C
|
I:SER398
|
4.8
|
28.6
|
1.0
|
C46
|
I:B121631
|
4.8
|
18.5
|
1.0
|
C48
|
I:B121631
|
4.8
|
20.4
|
1.0
|
C53
|
I:B121631
|
4.9
|
18.2
|
1.0
|
C41
|
I:B121631
|
4.9
|
24.9
|
1.0
|
C30
|
I:B121631
|
5.0
|
20.3
|
1.0
|
|
Cobalt binding site 3 out
of 4 in 4c1n
Go back to
Cobalt Binding Sites List in 4c1n
Cobalt binding site 3 out
of 4 in the Corrinoid Protein Reactivation Complex with Activator
Mono view
Stereo pair view
|
A full contact list of Cobalt with other atoms in the Co binding
site number 3 of Corrinoid Protein Reactivation Complex with Activator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
K:Co1631
b:25.6
occ:1.00
|
CO
|
K:B121631
|
0.0
|
25.6
|
1.0
|
N21
|
K:B121631
|
1.9
|
34.4
|
1.0
|
N24
|
K:B121631
|
1.9
|
32.8
|
1.0
|
N23
|
K:B121631
|
1.9
|
32.7
|
1.0
|
N22
|
K:B121631
|
1.9
|
31.4
|
1.0
|
OG
|
K:SER398
|
2.4
|
34.5
|
1.0
|
C19
|
K:B121631
|
2.8
|
33.9
|
1.0
|
C9
|
K:B121631
|
2.8
|
32.8
|
1.0
|
C1
|
K:B121631
|
2.9
|
30.6
|
1.0
|
C11
|
K:B121631
|
2.9
|
32.4
|
1.0
|
C4
|
K:B121631
|
2.9
|
28.3
|
1.0
|
C6
|
K:B121631
|
2.9
|
25.8
|
1.0
|
C14
|
K:B121631
|
3.0
|
31.2
|
1.0
|
C16
|
K:B121631
|
3.0
|
36.5
|
1.0
|
CB
|
K:SER398
|
3.1
|
34.4
|
1.0
|
C10
|
K:B121631
|
3.2
|
35.2
|
1.0
|
C5
|
K:B121631
|
3.3
|
26.8
|
1.0
|
C15
|
K:B121631
|
3.4
|
31.8
|
1.0
|
C20
|
K:B121631
|
3.4
|
26.7
|
1.0
|
OG1
|
G:THR374
|
3.7
|
32.5
|
1.0
|
O
|
K:SER398
|
4.0
|
34.7
|
1.0
|
C18
|
K:B121631
|
4.1
|
34.3
|
1.0
|
C2
|
K:B121631
|
4.1
|
30.4
|
1.0
|
C7
|
K:B121631
|
4.2
|
31.5
|
1.0
|
C8
|
K:B121631
|
4.2
|
31.5
|
1.0
|
C3
|
K:B121631
|
4.2
|
29.2
|
1.0
|
C12
|
K:B121631
|
4.2
|
33.0
|
1.0
|
C17
|
K:B121631
|
4.3
|
36.4
|
1.0
|
C13
|
K:B121631
|
4.3
|
31.2
|
1.0
|
CG2
|
G:THR374
|
4.3
|
33.4
|
1.0
|
CA
|
K:SER398
|
4.5
|
35.8
|
1.0
|
C49
|
K:B121631
|
4.5
|
35.9
|
1.0
|
CB
|
G:THR374
|
4.5
|
31.2
|
1.0
|
C26
|
K:B121631
|
4.6
|
31.5
|
1.0
|
C37
|
K:B121631
|
4.7
|
31.5
|
1.0
|
C
|
K:SER398
|
4.7
|
31.4
|
1.0
|
C35
|
K:B121631
|
4.8
|
27.9
|
1.0
|
O39
|
K:B121631
|
4.8
|
36.3
|
1.0
|
C46
|
K:B121631
|
4.9
|
30.6
|
1.0
|
C53
|
K:B121631
|
4.9
|
35.5
|
1.0
|
C41
|
K:B121631
|
4.9
|
30.1
|
1.0
|
CA
|
G:THR374
|
4.9
|
30.6
|
1.0
|
C30
|
K:B121631
|
5.0
|
26.3
|
1.0
|
|
Cobalt binding site 4 out
of 4 in 4c1n
Go back to
Cobalt Binding Sites List in 4c1n
Cobalt binding site 4 out
of 4 in the Corrinoid Protein Reactivation Complex with Activator
Mono view
Stereo pair view
|
A full contact list of Cobalt with other atoms in the Co binding
site number 4 of Corrinoid Protein Reactivation Complex with Activator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
X:Co1631
b:22.4
occ:1.00
|
CO
|
X:B121631
|
0.0
|
22.4
|
1.0
|
N21
|
X:B121631
|
1.9
|
22.2
|
1.0
|
N24
|
X:B121631
|
1.9
|
25.1
|
1.0
|
N23
|
X:B121631
|
1.9
|
22.6
|
1.0
|
N22
|
X:B121631
|
1.9
|
23.9
|
1.0
|
OG
|
X:SER398
|
2.6
|
28.4
|
1.0
|
CB
|
X:SER398
|
2.8
|
26.2
|
1.0
|
C19
|
X:B121631
|
2.8
|
24.8
|
1.0
|
C9
|
X:B121631
|
2.8
|
25.7
|
1.0
|
C1
|
X:B121631
|
2.9
|
24.2
|
1.0
|
C4
|
X:B121631
|
2.9
|
25.2
|
1.0
|
C11
|
X:B121631
|
2.9
|
22.2
|
1.0
|
C6
|
X:B121631
|
2.9
|
21.5
|
1.0
|
C14
|
X:B121631
|
3.0
|
21.8
|
1.0
|
C16
|
X:B121631
|
3.0
|
24.8
|
1.0
|
C10
|
X:B121631
|
3.2
|
22.2
|
1.0
|
C5
|
X:B121631
|
3.3
|
22.5
|
1.0
|
C15
|
X:B121631
|
3.4
|
28.8
|
1.0
|
C20
|
X:B121631
|
3.4
|
20.6
|
1.0
|
OG1
|
E:THR374
|
3.8
|
25.2
|
1.0
|
C2
|
X:B121631
|
4.1
|
22.9
|
1.0
|
C18
|
X:B121631
|
4.1
|
22.4
|
1.0
|
C7
|
X:B121631
|
4.2
|
26.0
|
1.0
|
C3
|
X:B121631
|
4.2
|
24.4
|
1.0
|
C8
|
X:B121631
|
4.2
|
26.3
|
1.0
|
C12
|
X:B121631
|
4.2
|
28.2
|
1.0
|
CG2
|
E:THR374
|
4.2
|
22.0
|
1.0
|
C13
|
X:B121631
|
4.2
|
23.2
|
1.0
|
CA
|
X:SER398
|
4.2
|
25.7
|
1.0
|
C17
|
X:B121631
|
4.3
|
23.5
|
1.0
|
O
|
X:SER398
|
4.4
|
30.4
|
1.0
|
CB
|
E:THR374
|
4.6
|
28.0
|
1.0
|
C26
|
X:B121631
|
4.6
|
25.3
|
1.0
|
N40
|
X:B121631
|
4.7
|
25.1
|
1.0
|
C37
|
X:B121631
|
4.7
|
25.1
|
1.0
|
C48
|
X:B121631
|
4.7
|
22.6
|
1.0
|
C35
|
X:B121631
|
4.7
|
22.2
|
1.0
|
C46
|
X:B121631
|
4.8
|
26.4
|
1.0
|
C
|
X:SER398
|
4.8
|
29.1
|
1.0
|
C53
|
X:B121631
|
4.9
|
28.5
|
1.0
|
C41
|
X:B121631
|
4.9
|
25.5
|
1.0
|
C30
|
X:B121631
|
5.0
|
24.7
|
1.0
|
|
Reference:
S.E.Hennig,
S.Goetzl,
J.H.Jeoung,
M.Bommer,
F.Lendzian,
P.Hildebrandt,
H.Dobbek.
Atp-Induced Electron Transfer By Redox-Selective Partner Recognition Nat.Commun. V. 5 4626 2014.
ISSN: ISSN 2041-1723
PubMed: 25109607
DOI: 10.1038/NCOMMS5626
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