Iodine in PDB 6rns: Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Protein crystallography data
The structure of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A, PDB code: 6rns
was solved by
M.Moreno-Morcillo,
S.Ramon-Maiques,
E.Martinez-Salas,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
64.22 /
2.69
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
67.851,
54.622,
103.032,
90.00,
108.82,
90.00
|
R / Rfree (%)
|
23.4 /
26.5
|
Iodine Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
13;
Binding sites:
The binding sites of Iodine atom in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
(pdb code 6rns). This binding sites where shown within
5.0 Angstroms radius around Iodine atom.
In total 13 binding sites of Iodine where determined in the
Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A, PDB code: 6rns:
Jump to Iodine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iodine binding site 1 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 1 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 1 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I1101
b:82.9
occ:1.00
|
HD2
|
A:LYS874
|
2.7
|
80.5
|
1.0
|
HZ3
|
A:LYS874
|
2.8
|
78.2
|
1.0
|
HA
|
A:LYS874
|
3.3
|
87.6
|
1.0
|
NZ
|
A:LYS874
|
3.6
|
64.8
|
1.0
|
HB3
|
A:ASP898
|
3.6
|
69.1
|
1.0
|
CD
|
A:LYS874
|
3.6
|
66.8
|
1.0
|
HB1
|
A:ALA873
|
3.7
|
80.5
|
1.0
|
HZ1
|
A:LYS874
|
3.8
|
78.2
|
1.0
|
C
|
A:THR897
|
3.8
|
50.2
|
1.0
|
O
|
A:THR897
|
3.8
|
55.5
|
1.0
|
CA
|
A:THR897
|
3.9
|
50.0
|
1.0
|
HD3
|
A:LYS874
|
3.9
|
80.5
|
1.0
|
O
|
A:ALA873
|
4.0
|
70.0
|
1.0
|
CB
|
A:THR897
|
4.0
|
55.3
|
1.0
|
CE
|
A:LYS874
|
4.1
|
71.5
|
1.0
|
CA
|
A:LYS874
|
4.1
|
72.7
|
1.0
|
C
|
A:ALA873
|
4.2
|
69.4
|
1.0
|
HE3
|
A:LYS874
|
4.2
|
86.2
|
1.0
|
N
|
A:LYS874
|
4.2
|
70.8
|
1.0
|
HZ2
|
A:LYS874
|
4.3
|
78.2
|
1.0
|
N
|
A:ASP898
|
4.4
|
53.8
|
1.0
|
HB3
|
A:ALA873
|
4.5
|
80.5
|
1.0
|
CB
|
A:ASP898
|
4.5
|
57.3
|
1.0
|
CB
|
A:ALA873
|
4.5
|
66.8
|
1.0
|
H
|
A:LYS874
|
4.7
|
85.3
|
1.0
|
H
|
A:ASP898
|
4.7
|
65.0
|
1.0
|
CG
|
A:LYS874
|
4.7
|
66.8
|
1.0
|
CG2
|
A:THR897
|
4.8
|
57.6
|
1.0
|
CG
|
A:ASP898
|
4.8
|
56.8
|
1.0
|
HG2
|
A:LYS874
|
4.9
|
80.6
|
1.0
|
CA
|
A:ASP898
|
4.9
|
62.9
|
1.0
|
OG
|
A:SER876
|
4.9
|
91.1
|
1.0
|
CB
|
A:LYS874
|
4.9
|
75.1
|
1.0
|
CA
|
A:ALA873
|
5.0
|
66.8
|
1.0
|
OD1
|
A:ASP898
|
5.0
|
51.4
|
1.0
|
HE2
|
A:LYS874
|
5.0
|
86.2
|
1.0
|
|
Iodine binding site 2 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 2 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 2 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I1102
b:81.4
occ:0.72
|
HE2
|
A:HIS923
|
2.7
|
89.3
|
1.0
|
HD2
|
A:PHE922
|
3.4
|
82.1
|
1.0
|
HA
|
A:ALA939
|
3.4
|
91.7
|
1.0
|
HD2
|
A:ARG942
|
3.4
|
0.1
|
1.0
|
NE2
|
A:HIS923
|
3.5
|
74.0
|
1.0
|
HE2
|
A:PHE922
|
3.6
|
79.0
|
1.0
|
HH11
|
A:ARG942
|
3.7
|
0.1
|
1.0
|
HB2
|
A:ALA939
|
3.8
|
83.4
|
1.0
|
CB
|
A:GLU944
|
3.8
|
73.0
|
1.0
|
HB2
|
A:PRO919
|
3.8
|
0.2
|
1.0
|
HD21
|
A:LEU914
|
3.9
|
95.5
|
1.0
|
HG22
|
A:THR938
|
3.9
|
0.5
|
1.0
|
CD2
|
A:PHE922
|
4.0
|
68.1
|
1.0
|
HB3
|
A:PRO919
|
4.0
|
0.2
|
1.0
|
CG
|
A:GLU944
|
4.0
|
81.1
|
1.0
|
HB2
|
A:ARG942
|
4.0
|
0.0
|
1.0
|
CE2
|
A:PHE922
|
4.1
|
65.5
|
1.0
|
HD2
|
A:HIS923
|
4.2
|
87.9
|
1.0
|
CA
|
A:ALA939
|
4.2
|
76.1
|
1.0
|
CD2
|
A:HIS923
|
4.2
|
72.9
|
1.0
|
CB
|
A:ALA939
|
4.4
|
69.2
|
1.0
|
CD
|
A:ARG942
|
4.4
|
0.6
|
1.0
|
CB
|
A:PRO919
|
4.4
|
83.2
|
1.0
|
CE1
|
A:HIS923
|
4.4
|
81.8
|
1.0
|
NH1
|
A:ARG942
|
4.4
|
99.8
|
1.0
|
N
|
A:ALA939
|
4.5
|
91.1
|
1.0
|
HB1
|
A:ALA939
|
4.6
|
83.4
|
1.0
|
HD22
|
A:LEU914
|
4.6
|
95.5
|
1.0
|
HE1
|
A:HIS923
|
4.6
|
98.5
|
1.0
|
CD2
|
A:LEU914
|
4.6
|
79.2
|
1.0
|
HD3
|
A:ARG942
|
4.7
|
0.1
|
1.0
|
HB
|
A:THR938
|
4.8
|
0.2
|
1.0
|
HG3
|
A:ARG942
|
4.8
|
0.9
|
1.0
|
CG2
|
A:THR938
|
4.8
|
0.2
|
1.0
|
CB
|
A:ARG942
|
4.8
|
97.2
|
1.0
|
HH12
|
A:ARG942
|
4.8
|
0.1
|
1.0
|
H
|
A:ALA939
|
4.8
|
0.7
|
1.0
|
C
|
A:THR938
|
4.9
|
83.4
|
1.0
|
CG
|
A:ARG942
|
4.9
|
0.6
|
1.0
|
HD11
|
A:LEU914
|
4.9
|
93.0
|
1.0
|
O
|
A:THR938
|
4.9
|
81.9
|
1.0
|
HB3
|
A:ARG942
|
5.0
|
0.0
|
1.0
|
HB3
|
A:PHE922
|
5.0
|
76.1
|
1.0
|
|
Iodine binding site 3 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 3 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 3 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I1103
b:0.0
occ:1.00
|
H
|
A:ALA1040
|
2.8
|
99.8
|
1.0
|
HB2
|
A:TYR1039
|
3.0
|
0.6
|
1.0
|
H
|
A:TYR1039
|
3.0
|
0.1
|
1.0
|
HE2
|
A:LYS1062
|
3.4
|
0.3
|
1.0
|
HD3
|
A:LYS1062
|
3.4
|
0.2
|
1.0
|
HB2
|
A:ALA1040
|
3.6
|
0.1
|
1.0
|
N
|
A:ALA1040
|
3.6
|
82.8
|
1.0
|
N
|
A:TYR1039
|
3.8
|
0.9
|
1.0
|
HG2
|
A:LYS1062
|
3.8
|
0.6
|
1.0
|
CB
|
A:TYR1039
|
3.9
|
95.2
|
1.0
|
HB3
|
A:ALA1040
|
3.9
|
0.1
|
1.0
|
HD2
|
A:TYR1039
|
4.0
|
0.7
|
1.0
|
CD
|
A:LYS1062
|
4.0
|
0.7
|
1.0
|
CE
|
A:LYS1062
|
4.1
|
0.9
|
1.0
|
HB2
|
A:LYS1062
|
4.1
|
0.0
|
1.0
|
CB
|
A:ALA1040
|
4.1
|
93.1
|
1.0
|
HZ3
|
A:LYS1062
|
4.2
|
0.8
|
1.0
|
CA
|
A:TYR1039
|
4.2
|
0.3
|
1.0
|
CE
|
B:LYS860
|
4.3
|
0.7
|
1.0
|
HA
|
A:HIS1038
|
4.3
|
0.6
|
1.0
|
C
|
A:TYR1039
|
4.3
|
87.9
|
1.0
|
CG
|
A:LYS1062
|
4.3
|
0.7
|
1.0
|
HB3
|
A:TYR1039
|
4.4
|
0.6
|
1.0
|
O
|
A:GLY1037
|
4.4
|
0.4
|
1.0
|
CD
|
B:LYS860
|
4.5
|
0.6
|
1.0
|
CA
|
A:ALA1040
|
4.5
|
81.8
|
1.0
|
CG
|
B:LYS860
|
4.5
|
0.8
|
1.0
|
NZ
|
A:LYS1062
|
4.6
|
0.7
|
1.0
|
HE2
|
B:HIS864
|
4.6
|
0.8
|
1.0
|
CD2
|
A:TYR1039
|
4.7
|
92.7
|
1.0
|
CB
|
A:LYS1062
|
4.8
|
0.2
|
1.0
|
C
|
A:HIS1038
|
4.8
|
100.0
|
1.0
|
CG
|
A:TYR1039
|
4.8
|
95.8
|
1.0
|
HE3
|
A:LYS1062
|
4.9
|
0.3
|
1.0
|
NZ
|
B:LYS860
|
4.9
|
0.6
|
1.0
|
HA
|
A:ALA1040
|
4.9
|
98.6
|
1.0
|
HD2
|
A:LYS1062
|
4.9
|
0.2
|
1.0
|
HG
|
A:SER1067
|
4.9
|
0.2
|
1.0
|
HZ1
|
A:LYS1062
|
5.0
|
0.8
|
1.0
|
|
Iodine binding site 4 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 4 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 4 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I1104
b:0.5
occ:0.79
|
O
|
B:HOH1206
|
3.5
|
53.7
|
1.0
|
HB3
|
A:LEU932
|
3.5
|
84.6
|
1.0
|
HB1
|
A:ALA955
|
3.6
|
69.9
|
1.0
|
HB2
|
A:LEU932
|
3.6
|
84.6
|
1.0
|
O
|
A:HOH1212
|
3.8
|
75.4
|
1.0
|
HE1
|
B:HIS989
|
3.8
|
79.9
|
1.0
|
HD22
|
A:LEU932
|
3.9
|
70.0
|
1.0
|
HB3
|
A:ALA955
|
3.9
|
69.9
|
1.0
|
H
|
A:LEU932
|
4.0
|
0.5
|
1.0
|
CB
|
A:LEU932
|
4.0
|
70.2
|
1.0
|
HA2
|
A:GLY930
|
4.1
|
88.4
|
1.0
|
HA
|
A:ALA956
|
4.2
|
54.4
|
1.0
|
CB
|
A:ALA955
|
4.2
|
57.9
|
1.0
|
HB2
|
A:ALA956
|
4.2
|
66.3
|
1.0
|
HD12
|
A:LEU927
|
4.3
|
59.2
|
1.0
|
O
|
A:ALA955
|
4.4
|
62.8
|
1.0
|
C
|
A:ALA955
|
4.4
|
57.4
|
1.0
|
HH22
|
B:ARG1014
|
4.5
|
74.6
|
1.0
|
HD23
|
A:LEU932
|
4.5
|
70.0
|
1.0
|
N
|
A:ALA956
|
4.5
|
53.2
|
1.0
|
CD2
|
A:LEU932
|
4.6
|
58.0
|
1.0
|
CE1
|
B:HIS989
|
4.7
|
66.3
|
1.0
|
O
|
A:GLY930
|
4.7
|
87.6
|
1.0
|
CA
|
A:ALA956
|
4.7
|
45.0
|
1.0
|
N
|
A:LEU932
|
4.8
|
90.0
|
1.0
|
HH12
|
B:ARG1014
|
4.8
|
85.1
|
1.0
|
C
|
A:GLY930
|
4.8
|
82.1
|
1.0
|
H
|
A:ALA956
|
4.9
|
64.3
|
1.0
|
CA
|
A:GLY930
|
4.9
|
73.3
|
1.0
|
HB2
|
A:ALA955
|
4.9
|
69.9
|
1.0
|
CB
|
A:ALA956
|
5.0
|
54.9
|
1.0
|
CA
|
A:ALA955
|
5.0
|
58.1
|
1.0
|
CG
|
A:LEU932
|
5.0
|
63.6
|
1.0
|
HD1
|
B:HIS989
|
5.0
|
75.5
|
1.0
|
NH2
|
B:ARG1014
|
5.0
|
61.9
|
1.0
|
|
Iodine binding site 5 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 5 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 5 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I1105
b:73.2
occ:0.41
|
HA
|
A:LYS970
|
3.3
|
79.8
|
1.0
|
HG
|
A:CYS973
|
3.5
|
86.8
|
1.0
|
HB1
|
A:ALA969
|
3.7
|
71.5
|
1.0
|
SG
|
A:CYS973
|
3.7
|
72.0
|
1.0
|
HD11
|
A:LEU985
|
3.7
|
54.0
|
1.0
|
HD13
|
A:LEU997
|
3.7
|
91.0
|
1.0
|
HD22
|
A:LEU997
|
4.0
|
72.9
|
1.0
|
N
|
A:LYS970
|
4.0
|
55.2
|
1.0
|
HB3
|
A:ALA969
|
4.0
|
71.5
|
1.0
|
HD21
|
A:LEU985
|
4.1
|
73.1
|
1.0
|
CA
|
A:LYS970
|
4.1
|
66.2
|
1.0
|
C
|
A:ALA969
|
4.1
|
60.1
|
1.0
|
O
|
A:ALA969
|
4.1
|
61.9
|
1.0
|
CB
|
A:ALA969
|
4.3
|
59.2
|
1.0
|
H
|
A:LYS970
|
4.3
|
66.7
|
1.0
|
HD21
|
A:LEU997
|
4.4
|
72.9
|
1.0
|
HB2
|
A:LYS970
|
4.4
|
77.4
|
1.0
|
HG3
|
A:LYS970
|
4.5
|
0.2
|
1.0
|
CD1
|
A:LEU997
|
4.6
|
75.4
|
1.0
|
HB2
|
A:CYS973
|
4.6
|
93.2
|
1.0
|
CD2
|
A:LEU997
|
4.6
|
60.4
|
1.0
|
CD1
|
A:LEU985
|
4.6
|
44.6
|
1.0
|
HD11
|
A:LEU997
|
4.6
|
91.0
|
1.0
|
HB1
|
A:ALA981
|
4.7
|
58.1
|
1.0
|
CB
|
A:LYS970
|
4.7
|
64.1
|
1.0
|
CA
|
A:ALA969
|
4.8
|
60.0
|
1.0
|
CB
|
A:CYS973
|
4.8
|
77.3
|
1.0
|
CD2
|
A:LEU985
|
5.0
|
60.6
|
1.0
|
|
Iodine binding site 6 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 6 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 6 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I1101
b:91.1
occ:0.65
|
HG1
|
B:THR946
|
2.8
|
74.4
|
1.0
|
HA
|
B:GLU920
|
2.9
|
0.9
|
1.0
|
HD22
|
B:ASN948
|
3.3
|
79.5
|
1.0
|
OG1
|
B:THR946
|
3.3
|
61.7
|
1.0
|
HG
|
B:LEU949
|
3.3
|
76.1
|
1.0
|
HB2
|
B:GLU920
|
3.4
|
0.3
|
1.0
|
HB3
|
B:ASN948
|
3.6
|
76.1
|
1.0
|
HB2
|
B:HIS923
|
3.6
|
0.8
|
1.0
|
HG3
|
B:GLN924
|
3.7
|
0.3
|
1.0
|
CA
|
B:GLU920
|
3.7
|
88.8
|
1.0
|
HG21
|
B:THR946
|
3.7
|
77.4
|
1.0
|
HG23
|
B:THR946
|
3.8
|
77.4
|
1.0
|
CB
|
B:GLU920
|
3.9
|
94.9
|
1.0
|
HB3
|
B:GLU920
|
3.9
|
0.3
|
1.0
|
O
|
B:GLU920
|
3.9
|
85.0
|
1.0
|
HD12
|
B:LEU949
|
3.9
|
96.1
|
1.0
|
OE1
|
B:GLN924
|
4.0
|
0.9
|
1.0
|
ND2
|
B:ASN948
|
4.0
|
65.9
|
1.0
|
CG2
|
B:THR946
|
4.1
|
64.2
|
1.0
|
HB3
|
B:HIS923
|
4.1
|
0.8
|
1.0
|
CG
|
B:LEU949
|
4.2
|
63.1
|
1.0
|
H
|
B:LEU949
|
4.3
|
61.4
|
1.0
|
CB
|
B:THR946
|
4.3
|
58.7
|
1.0
|
C
|
B:GLU920
|
4.3
|
89.0
|
1.0
|
CB
|
B:HIS923
|
4.3
|
88.7
|
1.0
|
HD2
|
B:HIS923
|
4.4
|
0.8
|
1.0
|
CG
|
B:GLN924
|
4.5
|
94.1
|
1.0
|
HB2
|
B:LEU949
|
4.5
|
72.5
|
1.0
|
HD21
|
B:ASN948
|
4.5
|
79.5
|
1.0
|
CB
|
B:ASN948
|
4.5
|
63.0
|
1.0
|
CD1
|
B:LEU949
|
4.5
|
79.8
|
1.0
|
HG2
|
B:GLN924
|
4.6
|
0.3
|
1.0
|
HB
|
B:THR946
|
4.6
|
70.8
|
1.0
|
N
|
B:LEU949
|
4.7
|
50.8
|
1.0
|
CD
|
B:GLN924
|
4.7
|
0.4
|
1.0
|
CG
|
B:ASN948
|
4.7
|
67.3
|
1.0
|
H
|
B:GLN924
|
4.8
|
92.4
|
1.0
|
HD11
|
B:LEU949
|
4.8
|
96.1
|
1.0
|
CB
|
B:LEU949
|
4.8
|
60.0
|
1.0
|
N
|
B:GLU920
|
4.9
|
86.4
|
1.0
|
CD2
|
B:HIS923
|
5.0
|
0.3
|
1.0
|
|
Iodine binding site 7 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 7 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 7 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I1102
b:0.6
occ:1.00
|
H
|
B:ALA1040
|
2.9
|
82.3
|
1.0
|
HD3
|
B:LYS1062
|
3.0
|
0.6
|
1.0
|
H
|
B:TYR1039
|
3.0
|
0.5
|
1.0
|
HB2
|
B:TYR1039
|
3.2
|
0.0
|
1.0
|
HD2
|
B:TYR1039
|
3.2
|
0.7
|
1.0
|
HZ2
|
B:LYS1062
|
3.6
|
0.2
|
1.0
|
N
|
B:TYR1039
|
3.7
|
97.6
|
1.0
|
N
|
B:ALA1040
|
3.7
|
68.2
|
1.0
|
HB2
|
B:ALA1040
|
3.8
|
96.4
|
1.0
|
CD
|
B:LYS1062
|
3.9
|
98.5
|
1.0
|
HB2
|
B:LYS1062
|
3.9
|
0.3
|
1.0
|
HA
|
B:HIS1038
|
3.9
|
0.4
|
1.0
|
HG2
|
B:LYS1062
|
4.0
|
0.2
|
1.0
|
CD2
|
B:TYR1039
|
4.0
|
90.3
|
1.0
|
CB
|
B:TYR1039
|
4.0
|
93.8
|
1.0
|
O
|
B:GLY1037
|
4.0
|
77.7
|
1.0
|
CD
|
A:LYS860
|
4.0
|
0.4
|
1.0
|
HB3
|
B:ALA1040
|
4.1
|
96.4
|
1.0
|
CE
|
A:LYS860
|
4.2
|
0.3
|
1.0
|
CA
|
B:TYR1039
|
4.3
|
84.4
|
1.0
|
NZ
|
B:LYS1062
|
4.3
|
0.0
|
1.0
|
CB
|
B:ALA1040
|
4.3
|
80.0
|
1.0
|
CG
|
B:LYS1062
|
4.3
|
0.6
|
1.0
|
CG
|
B:TYR1039
|
4.5
|
89.2
|
1.0
|
C
|
B:TYR1039
|
4.5
|
73.4
|
1.0
|
CE
|
B:LYS1062
|
4.5
|
0.8
|
1.0
|
HD2
|
B:LYS1062
|
4.5
|
0.6
|
1.0
|
HE3
|
B:LYS1062
|
4.5
|
0.5
|
1.0
|
C
|
B:HIS1038
|
4.6
|
89.8
|
1.0
|
HZ3
|
B:LYS1062
|
4.6
|
0.2
|
1.0
|
NZ
|
A:LYS860
|
4.6
|
0.3
|
1.0
|
CB
|
B:LYS1062
|
4.6
|
91.6
|
1.0
|
CA
|
B:ALA1040
|
4.7
|
74.2
|
1.0
|
CA
|
B:HIS1038
|
4.7
|
95.0
|
1.0
|
HB3
|
B:TYR1039
|
4.8
|
0.0
|
1.0
|
HG
|
B:SER1067
|
4.9
|
0.6
|
1.0
|
HZ1
|
B:LYS1062
|
5.0
|
0.2
|
1.0
|
|
Iodine binding site 8 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 8 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 8 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I1103
b:89.1
occ:0.59
|
HH22
|
A:ARG1014
|
3.0
|
89.9
|
1.0
|
HA
|
A:SER987
|
3.3
|
64.8
|
1.0
|
HD13
|
B:LEU932
|
3.4
|
82.4
|
1.0
|
HB3
|
B:LEU927
|
3.5
|
0.2
|
1.0
|
HH21
|
A:ARG1014
|
3.6
|
89.9
|
1.0
|
NH2
|
A:ARG1014
|
3.6
|
74.6
|
1.0
|
HB2
|
B:LEU932
|
3.6
|
0.3
|
1.0
|
HB3
|
A:LEU986
|
3.8
|
66.8
|
1.0
|
HD21
|
B:LEU927
|
3.9
|
0.6
|
1.0
|
HD22
|
B:LEU927
|
4.0
|
0.6
|
1.0
|
O
|
A:LEU986
|
4.1
|
54.8
|
1.0
|
CA
|
A:SER987
|
4.1
|
53.6
|
1.0
|
HD22
|
B:LEU932
|
4.1
|
76.1
|
1.0
|
O
|
B:LEU927
|
4.2
|
75.4
|
1.0
|
C
|
A:LEU986
|
4.2
|
52.7
|
1.0
|
N
|
A:SER987
|
4.2
|
56.9
|
1.0
|
HB2
|
A:LEU986
|
4.3
|
66.8
|
1.0
|
HB3
|
B:ALA955
|
4.3
|
67.9
|
1.0
|
HB1
|
B:ALA955
|
4.3
|
67.9
|
1.0
|
CD1
|
B:LEU932
|
4.4
|
68.3
|
1.0
|
HB3
|
B:MET952
|
4.4
|
71.4
|
1.0
|
CD2
|
B:LEU927
|
4.4
|
0.8
|
1.0
|
CB
|
B:LEU927
|
4.4
|
93.2
|
1.0
|
HB3
|
A:SER987
|
4.5
|
73.9
|
1.0
|
CB
|
A:LEU986
|
4.5
|
55.3
|
1.0
|
CB
|
B:LEU932
|
4.6
|
84.1
|
1.0
|
HB2
|
B:ALA955
|
4.6
|
67.9
|
1.0
|
CB
|
B:ALA955
|
4.6
|
56.2
|
1.0
|
HA
|
B:LEU927
|
4.6
|
96.8
|
1.0
|
H
|
A:SER987
|
4.7
|
68.7
|
1.0
|
HB2
|
A:SER987
|
4.7
|
73.9
|
1.0
|
CB
|
A:SER987
|
4.7
|
61.2
|
1.0
|
CD2
|
B:LEU932
|
4.8
|
63.1
|
1.0
|
CG
|
B:LEU932
|
4.8
|
73.8
|
1.0
|
HD12
|
B:LEU932
|
4.8
|
82.4
|
1.0
|
CZ
|
A:ARG1014
|
4.9
|
63.3
|
1.0
|
HD11
|
B:LEU932
|
4.9
|
82.4
|
1.0
|
HD21
|
B:LEU932
|
4.9
|
76.1
|
1.0
|
C
|
B:LEU927
|
4.9
|
74.7
|
1.0
|
HA2
|
B:GLY930
|
4.9
|
93.5
|
1.0
|
CA
|
B:LEU927
|
4.9
|
80.3
|
1.0
|
HD12
|
B:LEU927
|
5.0
|
0.9
|
1.0
|
HH12
|
A:ARG1014
|
5.0
|
75.4
|
1.0
|
CG
|
B:LEU927
|
5.0
|
0.9
|
1.0
|
HB2
|
B:LEU927
|
5.0
|
0.2
|
1.0
|
|
Iodine binding site 9 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 9 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 9 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I1104
b:0.6
occ:0.53
|
HB1
|
B:ALA1065
|
3.0
|
0.7
|
1.0
|
HA
|
B:ALA1066
|
3.5
|
0.9
|
1.0
|
HB3
|
B:ALA1065
|
3.6
|
0.7
|
1.0
|
O
|
B:ALA1065
|
3.6
|
98.1
|
1.0
|
CB
|
B:ALA1065
|
3.7
|
97.8
|
1.0
|
C
|
B:ALA1065
|
3.7
|
0.1
|
1.0
|
HG
|
B:CYS1091
|
3.7
|
0.5
|
1.0
|
CD
|
B:ARG1069
|
3.8
|
0.9
|
1.0
|
N
|
B:ALA1066
|
4.0
|
99.8
|
1.0
|
CB
|
B:ARG1069
|
4.0
|
94.8
|
1.0
|
HD21
|
B:LEU1095
|
4.1
|
1.0
|
1.0
|
CA
|
B:ALA1066
|
4.2
|
97.1
|
1.0
|
CA
|
B:ALA1065
|
4.3
|
0.1
|
1.0
|
SG
|
B:CYS1091
|
4.3
|
84.2
|
1.0
|
H
|
B:ALA1066
|
4.4
|
0.2
|
1.0
|
HB2
|
B:ALA1065
|
4.5
|
0.7
|
1.0
|
NH1
|
B:ARG1069
|
4.5
|
0.6
|
1.0
|
HD13
|
B:LEU1095
|
4.6
|
0.7
|
1.0
|
CG
|
B:ARG1069
|
4.6
|
0.4
|
1.0
|
HA
|
B:ALA1065
|
4.6
|
0.1
|
1.0
|
HD11
|
B:LEU1095
|
4.7
|
0.7
|
1.0
|
H
|
B:ARG1069
|
4.8
|
98.9
|
1.0
|
HB2
|
B:ALA1066
|
4.8
|
0.1
|
1.0
|
|
Iodine binding site 10 out
of 13 in 6rns
Go back to
Iodine Binding Sites List in 6rns
Iodine binding site 10 out
of 13 in the Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 10 of Crystal Structure of the Dimerization Domain of GEMIN5 at 2.7 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I1105
b:0.6
occ:0.48
|
HE
|
B:ARG942
|
2.5
|
0.4
|
1.0
|
HE2
|
B:HIS923
|
2.7
|
0.2
|
1.0
|
HD3
|
B:ARG942
|
2.9
|
0.2
|
1.0
|
NE2
|
B:HIS923
|
3.0
|
0.1
|
1.0
|
HB2
|
B:PRO919
|
3.0
|
0.1
|
1.0
|
HB3
|
B:PRO919
|
3.1
|
0.1
|
1.0
|
NE
|
B:ARG942
|
3.1
|
0.0
|
1.0
|
CG
|
B:GLU944
|
3.4
|
0.3
|
1.0
|
CB
|
B:PRO919
|
3.5
|
95.6
|
1.0
|
CD
|
B:ARG942
|
3.5
|
0.3
|
1.0
|
HD21
|
B:LEU914
|
3.5
|
0.5
|
1.0
|
CD2
|
B:HIS923
|
3.5
|
0.3
|
1.0
|
CB
|
B:GLU944
|
3.6
|
0.9
|
1.0
|
CE1
|
B:HIS923
|
3.6
|
0.3
|
1.0
|
HD2
|
B:HIS923
|
3.7
|
0.8
|
1.0
|
HD2
|
B:PHE922
|
3.7
|
93.8
|
1.0
|
HE1
|
B:HIS923
|
3.8
|
0.3
|
1.0
|
HB2
|
B:ARG942
|
3.8
|
0.8
|
1.0
|
HH12
|
B:ARG942
|
4.0
|
0.5
|
1.0
|
HB3
|
B:ARG942
|
4.1
|
0.8
|
1.0
|
HD2
|
B:ARG942
|
4.1
|
0.2
|
1.0
|
HA
|
B:ALA939
|
4.1
|
0.5
|
1.0
|
HA
|
B:PRO919
|
4.1
|
0.8
|
1.0
|
CZ
|
B:ARG942
|
4.1
|
96.8
|
1.0
|
CD2
|
B:PHE922
|
4.2
|
77.8
|
1.0
|
CD2
|
B:LEU914
|
4.3
|
89.2
|
1.0
|
HD22
|
B:LEU914
|
4.3
|
0.5
|
1.0
|
CA
|
B:PRO919
|
4.3
|
95.3
|
1.0
|
CB
|
B:ARG942
|
4.3
|
87.0
|
1.0
|
ND1
|
B:HIS923
|
4.3
|
84.9
|
1.0
|
CG
|
B:HIS923
|
4.3
|
91.3
|
1.0
|
O
|
B:PRO919
|
4.4
|
83.3
|
1.0
|
CD
|
B:GLU944
|
4.4
|
0.8
|
1.0
|
NH1
|
B:ARG942
|
4.4
|
0.8
|
1.0
|
HE2
|
B:PHE922
|
4.4
|
0.2
|
1.0
|
HB3
|
B:PHE922
|
4.5
|
89.5
|
1.0
|
CG
|
B:ARG942
|
4.5
|
0.6
|
1.0
|
HD23
|
B:LEU914
|
4.5
|
0.5
|
1.0
|
HG22
|
B:THR938
|
4.6
|
89.0
|
1.0
|
CE2
|
B:PHE922
|
4.6
|
83.2
|
1.0
|
C
|
B:PRO919
|
4.7
|
87.5
|
1.0
|
CG
|
B:PRO919
|
4.7
|
99.6
|
1.0
|
HG3
|
B:PRO919
|
4.8
|
0.9
|
1.0
|
OE2
|
B:GLU944
|
4.8
|
0.6
|
1.0
|
CG
|
B:PHE922
|
5.0
|
82.3
|
1.0
|
HD11
|
B:LEU914
|
5.0
|
99.4
|
1.0
|
|
Reference:
M.Moreno-Morcillo,
R.Francisco-Velilla,
A.Embarc-Buh,
J.Fernandez-Chamorro,
S.Ramon-Maiques,
E.Martinez-Salas.
A Novel GEMIN5 Dimerization Module Is Critical For Protein Recruitment and Translation Control Nucleic Acids Res. 2019.
ISSN: ESSN 1362-4962
Page generated: Sun Aug 11 23:57:35 2024
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