Potassium in PDB 1pcq: Crystal Structure of Groel-Groes
Protein crystallography data
The structure of Crystal Structure of Groel-Groes, PDB code: 1pcq
was solved by
C.Chaudhry,
G.W.Farr,
M.J.Todd,
H.S.Rye,
A.T.Brunger,
P.D.Adams,
A.L.Horwich,
P.B.Sigler,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.39 /
2.81
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
255.546,
266.855,
187.049,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
26.2 /
27.8
|
Other elements in 1pcq:
The structure of Crystal Structure of Groel-Groes also contains other interesting chemical elements:
Potassium Binding Sites:
The binding sites of Potassium atom in the Crystal Structure of Groel-Groes
(pdb code 1pcq). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 7 binding sites of Potassium where determined in the
Crystal Structure of Groel-Groes, PDB code: 1pcq:
Jump to Potassium binding site number:
1;
2;
3;
4;
5;
6;
7;
Potassium binding site 1 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 1 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K603
b:24.8
occ:1.00
|
O
|
A:LYS51
|
2.8
|
2.7
|
1.0
|
F3
|
A:AF3602
|
2.9
|
5.5
|
1.0
|
OG1
|
A:THR30
|
3.1
|
2.0
|
1.0
|
OG1
|
A:THR90
|
3.1
|
2.4
|
1.0
|
O
|
A:THR30
|
3.1
|
3.6
|
1.0
|
O1A
|
A:ADP600
|
3.3
|
2.0
|
1.0
|
O3A
|
A:ADP600
|
3.4
|
3.8
|
1.0
|
PA
|
A:ADP600
|
3.6
|
2.9
|
1.0
|
CB
|
A:THR30
|
3.6
|
2.1
|
1.0
|
C
|
A:THR30
|
3.7
|
2.6
|
1.0
|
O2A
|
A:ADP600
|
3.7
|
2.2
|
1.0
|
C
|
A:LYS51
|
3.9
|
3.0
|
1.0
|
AL
|
A:AF3602
|
3.9
|
12.2
|
1.0
|
NZ
|
A:LYS51
|
4.0
|
2.0
|
1.0
|
CG
|
A:LYS51
|
4.0
|
2.6
|
1.0
|
CB
|
A:THR90
|
4.0
|
2.1
|
1.0
|
F1
|
A:AF3602
|
4.0
|
7.3
|
1.0
|
O3B
|
A:ADP600
|
4.2
|
2.9
|
1.0
|
N
|
A:GLY53
|
4.2
|
2.6
|
1.0
|
N
|
A:LEU31
|
4.3
|
2.8
|
1.0
|
CA
|
A:THR30
|
4.4
|
2.0
|
1.0
|
CA
|
A:LEU31
|
4.4
|
2.2
|
1.0
|
PB
|
A:ADP600
|
4.4
|
2.6
|
1.0
|
CG2
|
A:THR90
|
4.6
|
2.0
|
1.0
|
CB
|
A:LYS51
|
4.7
|
2.7
|
1.0
|
N
|
A:ASP52
|
4.7
|
2.7
|
1.0
|
CA
|
A:ASP52
|
4.7
|
2.5
|
1.0
|
CA
|
A:LYS51
|
4.8
|
2.7
|
1.0
|
CE
|
A:LYS51
|
4.8
|
2.0
|
1.0
|
CA
|
A:GLY53
|
4.8
|
2.8
|
1.0
|
CG2
|
A:THR30
|
4.9
|
2.5
|
1.0
|
C
|
A:ASP52
|
4.9
|
2.2
|
1.0
|
|
Potassium binding site 2 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 2 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K703
b:24.4
occ:1.00
|
O
|
B:LYS51
|
2.8
|
2.4
|
1.0
|
F3
|
B:AF3702
|
2.9
|
5.3
|
1.0
|
OG1
|
B:THR90
|
3.1
|
2.6
|
1.0
|
O
|
B:THR30
|
3.1
|
3.7
|
1.0
|
OG1
|
B:THR30
|
3.2
|
2.0
|
1.0
|
O1A
|
B:ADP700
|
3.4
|
2.0
|
1.0
|
O3A
|
B:ADP700
|
3.4
|
3.5
|
1.0
|
PA
|
B:ADP700
|
3.6
|
2.7
|
1.0
|
O2A
|
B:ADP700
|
3.7
|
2.2
|
1.0
|
CB
|
B:THR30
|
3.7
|
2.2
|
1.0
|
C
|
B:THR30
|
3.8
|
2.8
|
1.0
|
AL
|
B:AF3702
|
3.8
|
12.2
|
1.0
|
NZ
|
B:LYS51
|
3.9
|
2.0
|
1.0
|
C
|
B:LYS51
|
3.9
|
2.9
|
1.0
|
F1
|
B:AF3702
|
4.0
|
7.5
|
1.0
|
CG
|
B:LYS51
|
4.0
|
2.7
|
1.0
|
CB
|
B:THR90
|
4.1
|
2.0
|
1.0
|
O3B
|
B:ADP700
|
4.1
|
2.7
|
1.0
|
N
|
B:GLY53
|
4.2
|
2.6
|
1.0
|
PB
|
B:ADP700
|
4.4
|
2.5
|
1.0
|
CA
|
B:THR30
|
4.4
|
2.1
|
1.0
|
N
|
B:LEU31
|
4.4
|
2.7
|
1.0
|
CA
|
B:LEU31
|
4.5
|
2.2
|
1.0
|
CG2
|
B:THR90
|
4.6
|
2.0
|
1.0
|
CB
|
B:LYS51
|
4.7
|
2.4
|
1.0
|
CA
|
B:ASP52
|
4.7
|
2.5
|
1.0
|
CE
|
B:LYS51
|
4.8
|
2.1
|
1.0
|
N
|
B:ASP52
|
4.8
|
2.6
|
1.0
|
CA
|
B:LYS51
|
4.9
|
2.6
|
1.0
|
CA
|
B:GLY53
|
4.9
|
2.7
|
1.0
|
C
|
B:ASP52
|
5.0
|
2.3
|
1.0
|
CG2
|
B:THR30
|
5.0
|
2.4
|
1.0
|
CD
|
B:LYS51
|
5.0
|
2.0
|
1.0
|
|
Potassium binding site 3 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 3 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K803
b:24.4
occ:1.00
|
O
|
C:LYS51
|
2.8
|
2.6
|
1.0
|
F3
|
C:AF3802
|
2.9
|
5.2
|
1.0
|
O
|
C:THR30
|
3.0
|
3.8
|
1.0
|
OG1
|
C:THR30
|
3.1
|
2.0
|
1.0
|
OG1
|
C:THR90
|
3.1
|
2.3
|
1.0
|
O1A
|
C:ADP800
|
3.3
|
2.0
|
1.0
|
O3A
|
C:ADP800
|
3.4
|
3.7
|
1.0
|
PA
|
C:ADP800
|
3.6
|
2.5
|
1.0
|
CB
|
C:THR30
|
3.6
|
2.1
|
1.0
|
C
|
C:THR30
|
3.7
|
2.7
|
1.0
|
O2A
|
C:ADP800
|
3.8
|
2.0
|
1.0
|
AL
|
C:AF3802
|
3.8
|
12.4
|
1.0
|
C
|
C:LYS51
|
3.9
|
2.8
|
1.0
|
CG
|
C:LYS51
|
3.9
|
2.4
|
1.0
|
NZ
|
C:LYS51
|
4.0
|
2.0
|
1.0
|
F1
|
C:AF3802
|
4.0
|
7.3
|
1.0
|
CB
|
C:THR90
|
4.1
|
2.0
|
1.0
|
N
|
C:GLY53
|
4.3
|
2.5
|
1.0
|
O3B
|
C:ADP800
|
4.3
|
2.7
|
1.0
|
CA
|
C:THR30
|
4.3
|
2.0
|
1.0
|
N
|
C:LEU31
|
4.4
|
2.8
|
1.0
|
CA
|
C:LEU31
|
4.4
|
2.2
|
1.0
|
PB
|
C:ADP800
|
4.5
|
2.1
|
1.0
|
CG2
|
C:THR90
|
4.6
|
2.0
|
1.0
|
CB
|
C:LYS51
|
4.6
|
2.3
|
1.0
|
N
|
C:ASP52
|
4.7
|
2.6
|
1.0
|
CE
|
C:LYS51
|
4.8
|
2.1
|
1.0
|
CA
|
C:ASP52
|
4.8
|
2.7
|
1.0
|
CA
|
C:LYS51
|
4.8
|
2.6
|
1.0
|
CG2
|
C:THR30
|
4.9
|
2.5
|
1.0
|
CA
|
C:GLY53
|
4.9
|
2.7
|
1.0
|
CD
|
C:LYS51
|
4.9
|
2.0
|
1.0
|
C
|
C:ASP52
|
5.0
|
2.2
|
1.0
|
|
Potassium binding site 4 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 4 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:K903
b:24.5
occ:1.00
|
O
|
D:LYS51
|
2.9
|
2.5
|
1.0
|
F3
|
D:AF3902
|
3.0
|
5.6
|
1.0
|
O
|
D:THR30
|
3.0
|
3.3
|
1.0
|
OG1
|
D:THR90
|
3.2
|
2.8
|
1.0
|
OG1
|
D:THR30
|
3.2
|
2.0
|
1.0
|
O1A
|
D:ADP900
|
3.3
|
2.0
|
1.0
|
O3A
|
D:ADP900
|
3.5
|
3.4
|
1.0
|
PA
|
D:ADP900
|
3.6
|
2.3
|
1.0
|
O2A
|
D:ADP900
|
3.7
|
2.0
|
1.0
|
CB
|
D:THR30
|
3.7
|
2.1
|
1.0
|
C
|
D:THR30
|
3.7
|
2.5
|
1.0
|
CG
|
D:LYS51
|
3.9
|
2.6
|
1.0
|
NZ
|
D:LYS51
|
3.9
|
2.0
|
1.0
|
AL
|
D:AF3902
|
3.9
|
12.3
|
1.0
|
C
|
D:LYS51
|
3.9
|
2.8
|
1.0
|
F1
|
D:AF3902
|
3.9
|
7.7
|
1.0
|
CB
|
D:THR90
|
4.1
|
2.0
|
1.0
|
O3B
|
D:ADP900
|
4.2
|
2.6
|
1.0
|
N
|
D:GLY53
|
4.3
|
2.5
|
1.0
|
N
|
D:LEU31
|
4.4
|
2.6
|
1.0
|
CA
|
D:THR30
|
4.4
|
2.0
|
1.0
|
PB
|
D:ADP900
|
4.4
|
2.0
|
1.0
|
CA
|
D:LEU31
|
4.4
|
2.2
|
1.0
|
CB
|
D:LYS51
|
4.6
|
2.6
|
1.0
|
CG2
|
D:THR90
|
4.7
|
2.0
|
1.0
|
CE
|
D:LYS51
|
4.7
|
2.0
|
1.0
|
CA
|
D:ASP52
|
4.7
|
2.6
|
1.0
|
N
|
D:ASP52
|
4.7
|
2.7
|
1.0
|
CA
|
D:LYS51
|
4.8
|
2.7
|
1.0
|
CD
|
D:LYS51
|
4.9
|
2.0
|
1.0
|
CA
|
D:GLY53
|
4.9
|
2.8
|
1.0
|
CG2
|
D:THR30
|
5.0
|
2.2
|
1.0
|
C
|
D:ASP52
|
5.0
|
2.2
|
1.0
|
|
Potassium binding site 5 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 5 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 5 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:K1003
b:24.4
occ:1.00
|
O
|
E:LYS51
|
2.6
|
2.9
|
1.0
|
F3
|
E:AF31002
|
2.8
|
5.4
|
1.0
|
OG1
|
E:THR90
|
3.1
|
2.4
|
1.0
|
OG1
|
E:THR30
|
3.1
|
2.0
|
1.0
|
O
|
E:THR30
|
3.3
|
3.6
|
1.0
|
O1A
|
E:ADP1000
|
3.5
|
2.0
|
1.0
|
O3A
|
E:ADP1000
|
3.5
|
3.4
|
1.0
|
CB
|
E:THR30
|
3.7
|
2.0
|
1.0
|
PA
|
E:ADP1000
|
3.7
|
2.8
|
1.0
|
AL
|
E:AF31002
|
3.8
|
12.1
|
1.0
|
O2A
|
E:ADP1000
|
3.8
|
2.3
|
1.0
|
C
|
E:LYS51
|
3.8
|
3.0
|
1.0
|
C
|
E:THR30
|
3.9
|
2.7
|
1.0
|
F1
|
E:AF31002
|
3.9
|
7.5
|
1.0
|
CG
|
E:LYS51
|
4.0
|
2.6
|
1.0
|
N
|
E:GLY53
|
4.0
|
2.5
|
1.0
|
NZ
|
E:LYS51
|
4.0
|
2.0
|
1.0
|
CB
|
E:THR90
|
4.0
|
2.0
|
1.0
|
O3B
|
E:ADP1000
|
4.2
|
2.8
|
1.0
|
PB
|
E:ADP1000
|
4.4
|
2.1
|
1.0
|
CA
|
E:THR30
|
4.5
|
2.0
|
1.0
|
N
|
E:LEU31
|
4.5
|
2.7
|
1.0
|
CA
|
E:ASP52
|
4.6
|
2.6
|
1.0
|
CG2
|
E:THR90
|
4.6
|
2.0
|
1.0
|
CA
|
E:LEU31
|
4.6
|
2.2
|
1.0
|
N
|
E:ASP52
|
4.6
|
2.7
|
1.0
|
CB
|
E:LYS51
|
4.6
|
2.4
|
1.0
|
CA
|
E:GLY53
|
4.7
|
2.7
|
1.0
|
CA
|
E:LYS51
|
4.8
|
2.6
|
1.0
|
C
|
E:ASP52
|
4.8
|
2.2
|
1.0
|
CE
|
E:LYS51
|
4.9
|
2.0
|
1.0
|
CG2
|
E:THR30
|
4.9
|
2.4
|
1.0
|
CD
|
E:LYS51
|
5.0
|
2.1
|
1.0
|
|
Potassium binding site 6 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 6 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 6 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:K1103
b:24.0
occ:1.00
|
O
|
F:LYS51
|
2.8
|
2.7
|
1.0
|
F3
|
F:AF31102
|
2.9
|
5.7
|
1.0
|
O
|
F:THR30
|
3.1
|
3.5
|
1.0
|
OG1
|
F:THR90
|
3.3
|
2.4
|
1.0
|
OG1
|
F:THR30
|
3.3
|
2.0
|
1.0
|
O1A
|
F:ADP1100
|
3.4
|
2.0
|
1.0
|
O3A
|
F:ADP1100
|
3.5
|
3.4
|
1.0
|
PA
|
F:ADP1100
|
3.6
|
2.6
|
1.0
|
O2A
|
F:ADP1100
|
3.6
|
2.1
|
1.0
|
AL
|
F:AF31102
|
3.8
|
12.1
|
1.0
|
CB
|
F:THR30
|
3.8
|
2.0
|
1.0
|
C
|
F:THR30
|
3.9
|
2.5
|
1.0
|
C
|
F:LYS51
|
3.9
|
2.8
|
1.0
|
F1
|
F:AF31102
|
3.9
|
7.6
|
1.0
|
NZ
|
F:LYS51
|
3.9
|
2.0
|
1.0
|
CG
|
F:LYS51
|
3.9
|
2.6
|
1.0
|
CB
|
F:THR90
|
4.2
|
2.0
|
1.0
|
N
|
F:GLY53
|
4.2
|
2.5
|
1.0
|
O3B
|
F:ADP1100
|
4.2
|
2.7
|
1.0
|
PB
|
F:ADP1100
|
4.4
|
2.0
|
1.0
|
CA
|
F:THR30
|
4.5
|
2.1
|
1.0
|
N
|
F:LEU31
|
4.6
|
2.6
|
1.0
|
CA
|
F:LEU31
|
4.6
|
2.1
|
1.0
|
CB
|
F:LYS51
|
4.6
|
2.5
|
1.0
|
CA
|
F:ASP52
|
4.7
|
2.6
|
1.0
|
N
|
F:ASP52
|
4.7
|
2.6
|
1.0
|
CG2
|
F:THR90
|
4.7
|
2.0
|
1.0
|
CE
|
F:LYS51
|
4.8
|
2.0
|
1.0
|
CA
|
F:LYS51
|
4.8
|
2.6
|
1.0
|
CD
|
F:LYS51
|
4.9
|
2.0
|
1.0
|
CA
|
F:GLY53
|
4.9
|
2.5
|
1.0
|
C
|
F:ASP52
|
4.9
|
2.2
|
1.0
|
MG
|
F:MG1101
|
5.0
|
2.0
|
1.0
|
|
Potassium binding site 7 out
of 7 in 1pcq
Go back to
Potassium Binding Sites List in 1pcq
Potassium binding site 7 out
of 7 in the Crystal Structure of Groel-Groes
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 7 of Crystal Structure of Groel-Groes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:K1203
b:24.4
occ:1.00
|
O
|
G:LYS51
|
2.8
|
2.5
|
1.0
|
F3
|
G:AF31202
|
2.8
|
5.3
|
1.0
|
OG1
|
G:THR90
|
3.0
|
2.5
|
1.0
|
OG1
|
G:THR30
|
3.1
|
2.0
|
1.0
|
O
|
G:THR30
|
3.2
|
3.7
|
1.0
|
O1A
|
G:ADP1200
|
3.4
|
2.0
|
1.0
|
O3A
|
G:ADP1200
|
3.5
|
3.5
|
1.0
|
PA
|
G:ADP1200
|
3.7
|
2.4
|
1.0
|
CB
|
G:THR30
|
3.7
|
2.1
|
1.0
|
O2A
|
G:ADP1200
|
3.8
|
2.0
|
1.0
|
AL
|
G:AF31202
|
3.8
|
12.2
|
1.0
|
C
|
G:THR30
|
3.8
|
2.8
|
1.0
|
C
|
G:LYS51
|
3.8
|
2.8
|
1.0
|
F1
|
G:AF31202
|
4.0
|
7.4
|
1.0
|
CG
|
G:LYS51
|
4.0
|
2.6
|
1.0
|
CB
|
G:THR90
|
4.0
|
2.0
|
1.0
|
N
|
G:GLY53
|
4.1
|
2.7
|
1.0
|
NZ
|
G:LYS51
|
4.2
|
2.0
|
1.0
|
O3B
|
G:ADP1200
|
4.2
|
2.7
|
1.0
|
PB
|
G:ADP1200
|
4.4
|
2.3
|
1.0
|
CA
|
G:THR30
|
4.4
|
2.1
|
1.0
|
N
|
G:LEU31
|
4.5
|
2.8
|
1.0
|
CA
|
G:LEU31
|
4.5
|
2.2
|
1.0
|
CG2
|
G:THR90
|
4.6
|
2.0
|
1.0
|
CB
|
G:LYS51
|
4.7
|
2.7
|
1.0
|
CA
|
G:ASP52
|
4.7
|
2.6
|
1.0
|
N
|
G:ASP52
|
4.7
|
2.6
|
1.0
|
CA
|
G:LYS51
|
4.8
|
2.6
|
1.0
|
CA
|
G:GLY53
|
4.8
|
2.7
|
1.0
|
CE
|
G:LYS51
|
4.8
|
2.1
|
1.0
|
C
|
G:ASP52
|
4.9
|
2.2
|
1.0
|
CG2
|
G:THR30
|
4.9
|
2.5
|
1.0
|
|
Reference:
C.Chaudhry,
G.W.Farr,
M.J.Todd,
H.S.Rye,
A.T.Brunger,
P.D.Adams,
A.L.Horwich,
P.B.Sigler.
Role of the Gamma-Phosphate of Atp in Triggering Protein Folding By Groel-Groes: Function, Structure and Energetics. Embo J. V. 22 4877 2003.
ISSN: ISSN 0261-4189
PubMed: 14517228
DOI: 10.1093/EMBOJ/CDG477
Page generated: Mon Aug 12 05:11:08 2024
|