Chlorine in PDB 5f4q: Crystal Structure of the Human Egg Surface Protein Juno
Protein crystallography data
The structure of Crystal Structure of the Human Egg Surface Protein Juno, PDB code: 5f4q
was solved by
H.Aydin,
A.Sultana,
J.E.Lee,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
43.68 /
1.80
|
Space group
|
P 41
|
Cell size a, b, c (Å), α, β, γ (°)
|
73.150,
73.150,
163.100,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.6 /
22.7
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of the Human Egg Surface Protein Juno
(pdb code 5f4q). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the
Crystal Structure of the Human Egg Surface Protein Juno, PDB code: 5f4q:
Jump to Chlorine binding site number:
1;
2;
3;
4;
Chlorine binding site 1 out
of 4 in 5f4q
Go back to
Chlorine Binding Sites List in 5f4q
Chlorine binding site 1 out
of 4 in the Crystal Structure of the Human Egg Surface Protein Juno
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of the Human Egg Surface Protein Juno within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl302
b:10.2
occ:1.00
|
HD22
|
A:ASN219
|
2.1
|
13.9
|
1.0
|
HG
|
A:SER100
|
2.2
|
16.1
|
1.0
|
HD22
|
A:ASN102
|
2.4
|
14.5
|
1.0
|
HE1
|
A:TRP50
|
2.5
|
15.0
|
1.0
|
HB2
|
A:ASN219
|
2.8
|
14.6
|
1.0
|
HD21
|
A:ASN217
|
2.9
|
28.5
|
1.0
|
OG
|
A:SER100
|
2.9
|
13.4
|
1.0
|
ND2
|
A:ASN219
|
2.9
|
11.6
|
1.0
|
HE1
|
A:PHE96
|
3.2
|
10.6
|
1.0
|
HB2
|
A:ASN102
|
3.2
|
17.1
|
1.0
|
ND2
|
A:ASN102
|
3.2
|
12.1
|
1.0
|
HB2
|
A:SER100
|
3.3
|
14.6
|
1.0
|
NE1
|
A:TRP50
|
3.3
|
12.5
|
1.0
|
HD21
|
A:ASN219
|
3.5
|
13.9
|
1.0
|
CB
|
A:ASN219
|
3.5
|
12.2
|
1.0
|
HD2
|
A:PRO101
|
3.5
|
13.1
|
1.0
|
CB
|
A:SER100
|
3.6
|
12.1
|
1.0
|
HB3
|
A:ASN219
|
3.6
|
14.6
|
1.0
|
HD21
|
A:ASN102
|
3.7
|
14.5
|
1.0
|
ND2
|
A:ASN217
|
3.7
|
23.7
|
1.0
|
CG
|
A:ASN219
|
3.7
|
11.9
|
1.0
|
HE1
|
A:PHE211
|
3.7
|
16.9
|
1.0
|
HA
|
A:SER100
|
3.7
|
14.7
|
1.0
|
HD1
|
A:TRP50
|
3.9
|
15.0
|
1.0
|
HD1
|
A:PHE96
|
3.9
|
10.1
|
1.0
|
CE1
|
A:PHE96
|
4.0
|
8.8
|
1.0
|
CD1
|
A:TRP50
|
4.0
|
12.5
|
1.0
|
OD1
|
A:ASN217
|
4.0
|
14.5
|
1.0
|
CB
|
A:ASN102
|
4.0
|
14.2
|
1.0
|
CG
|
A:ASN102
|
4.1
|
12.2
|
1.0
|
HD23
|
A:LEU207
|
4.2
|
14.2
|
1.0
|
CA
|
A:SER100
|
4.2
|
12.2
|
1.0
|
H
|
A:ASN102
|
4.2
|
16.3
|
1.0
|
CG
|
A:ASN217
|
4.3
|
21.9
|
1.0
|
HD22
|
A:ASN217
|
4.3
|
28.5
|
1.0
|
CD1
|
A:PHE96
|
4.3
|
8.4
|
1.0
|
HB3
|
A:SER100
|
4.4
|
14.6
|
1.0
|
CE2
|
A:TRP50
|
4.4
|
11.7
|
1.0
|
CD
|
A:PRO101
|
4.5
|
10.9
|
1.0
|
CE1
|
A:PHE211
|
4.5
|
14.0
|
1.0
|
HZ2
|
A:TRP50
|
4.5
|
13.3
|
1.0
|
HB3
|
A:ASN102
|
4.6
|
17.1
|
1.0
|
HZ
|
A:PHE211
|
4.7
|
18.5
|
1.0
|
H
|
A:ASN219
|
4.8
|
16.0
|
1.0
|
HD3
|
A:PRO101
|
4.8
|
13.1
|
1.0
|
N
|
A:ASN102
|
4.8
|
13.6
|
1.0
|
CA
|
A:ASN219
|
4.9
|
13.2
|
1.0
|
OD1
|
A:ASN219
|
4.9
|
11.7
|
1.0
|
CZ2
|
A:TRP50
|
4.9
|
11.1
|
1.0
|
N
|
A:PRO101
|
5.0
|
12.2
|
1.0
|
C
|
A:SER100
|
5.0
|
9.8
|
1.0
|
|
Chlorine binding site 2 out
of 4 in 5f4q
Go back to
Chlorine Binding Sites List in 5f4q
Chlorine binding site 2 out
of 4 in the Crystal Structure of the Human Egg Surface Protein Juno
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of the Human Egg Surface Protein Juno within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl302
b:7.6
occ:1.00
|
HG
|
B:SER100
|
2.3
|
11.7
|
1.0
|
HD22
|
B:ASN219
|
2.4
|
12.5
|
1.0
|
HD22
|
B:ASN102
|
2.4
|
12.2
|
1.0
|
HE1
|
B:TRP50
|
2.4
|
14.4
|
1.0
|
HD21
|
B:ASN217
|
2.8
|
25.3
|
1.0
|
HB2
|
B:ASN219
|
2.9
|
14.4
|
1.0
|
OG
|
B:SER100
|
3.0
|
9.7
|
1.0
|
HB2
|
B:SER100
|
3.2
|
11.9
|
1.0
|
HB2
|
B:ASN102
|
3.2
|
11.7
|
1.0
|
HE1
|
B:PHE96
|
3.2
|
12.9
|
1.0
|
ND2
|
B:ASN102
|
3.2
|
10.2
|
1.0
|
NE1
|
B:TRP50
|
3.2
|
12.0
|
1.0
|
ND2
|
B:ASN219
|
3.2
|
10.4
|
1.0
|
HD2
|
B:PRO101
|
3.3
|
14.4
|
1.0
|
CB
|
B:SER100
|
3.5
|
9.9
|
1.0
|
HD1
|
B:TRP50
|
3.6
|
15.4
|
1.0
|
ND2
|
B:ASN217
|
3.6
|
21.1
|
1.0
|
CB
|
B:ASN219
|
3.6
|
12.0
|
1.0
|
HD21
|
B:ASN102
|
3.6
|
12.2
|
1.0
|
HA
|
B:SER100
|
3.6
|
13.1
|
1.0
|
HB3
|
B:ASN219
|
3.7
|
14.4
|
1.0
|
CD1
|
B:TRP50
|
3.8
|
12.8
|
1.0
|
HD21
|
B:ASN219
|
3.8
|
12.5
|
1.0
|
HD1
|
B:PHE96
|
3.9
|
12.3
|
1.0
|
HE1
|
B:PHE211
|
3.9
|
18.5
|
1.0
|
CG
|
B:ASN219
|
3.9
|
10.9
|
1.0
|
CE1
|
B:PHE96
|
4.0
|
10.7
|
1.0
|
CB
|
B:ASN102
|
4.0
|
9.7
|
1.0
|
CG
|
B:ASN102
|
4.0
|
10.3
|
1.0
|
H
|
B:ASN102
|
4.0
|
13.1
|
1.0
|
OD1
|
B:ASN217
|
4.0
|
20.3
|
1.0
|
CA
|
B:SER100
|
4.1
|
10.9
|
1.0
|
HD22
|
B:ASN217
|
4.2
|
25.3
|
1.0
|
CD
|
B:PRO101
|
4.3
|
12.0
|
1.0
|
CG
|
B:ASN217
|
4.3
|
20.7
|
1.0
|
HD23
|
B:LEU207
|
4.3
|
12.3
|
1.0
|
CD1
|
B:PHE96
|
4.3
|
10.3
|
1.0
|
HB3
|
B:SER100
|
4.4
|
11.9
|
1.0
|
CE2
|
B:TRP50
|
4.4
|
11.2
|
1.0
|
HD3
|
B:PRO101
|
4.6
|
14.4
|
1.0
|
HB3
|
B:ASN102
|
4.6
|
11.7
|
1.0
|
N
|
B:ASN102
|
4.7
|
10.9
|
1.0
|
HZ2
|
B:TRP50
|
4.7
|
13.3
|
1.0
|
CE1
|
B:PHE211
|
4.7
|
15.4
|
1.0
|
N
|
B:PRO101
|
4.7
|
12.0
|
1.0
|
C
|
B:SER100
|
4.8
|
11.7
|
1.0
|
CA
|
B:ASN102
|
4.9
|
10.3
|
1.0
|
H
|
B:ASN219
|
4.9
|
17.1
|
1.0
|
CA
|
B:ASN219
|
5.0
|
12.4
|
1.0
|
|
Chlorine binding site 3 out
of 4 in 5f4q
Go back to
Chlorine Binding Sites List in 5f4q
Chlorine binding site 3 out
of 4 in the Crystal Structure of the Human Egg Surface Protein Juno
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of the Human Egg Surface Protein Juno within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl302
b:10.9
occ:1.00
|
HE1
|
C:TRP50
|
2.3
|
15.2
|
1.0
|
HD22
|
C:ASN102
|
2.4
|
14.5
|
1.0
|
HD21
|
C:ASN217
|
2.5
|
17.2
|
1.0
|
HD22
|
C:ASN219
|
2.6
|
14.0
|
1.0
|
HG
|
C:SER100
|
2.7
|
12.8
|
1.0
|
NE1
|
C:TRP50
|
3.0
|
12.7
|
1.0
|
HB2
|
C:ASN219
|
3.1
|
13.6
|
1.0
|
ND2
|
C:ASN102
|
3.3
|
12.1
|
1.0
|
HD2
|
C:PRO101
|
3.3
|
15.0
|
1.0
|
ND2
|
C:ASN217
|
3.3
|
14.3
|
1.0
|
HB2
|
C:SER100
|
3.3
|
12.8
|
1.0
|
HD1
|
C:TRP50
|
3.4
|
15.3
|
1.0
|
HB2
|
C:ASN102
|
3.4
|
14.5
|
1.0
|
OG
|
C:SER100
|
3.4
|
10.7
|
1.0
|
ND2
|
C:ASN219
|
3.4
|
11.7
|
1.0
|
HE2
|
C:PHE211
|
3.5
|
17.0
|
1.0
|
CD1
|
C:TRP50
|
3.6
|
12.8
|
1.0
|
HA
|
C:SER100
|
3.6
|
12.7
|
1.0
|
HD21
|
C:ASN102
|
3.7
|
14.5
|
1.0
|
CB
|
C:SER100
|
3.8
|
10.7
|
1.0
|
OD1
|
C:ASN217
|
3.8
|
16.6
|
1.0
|
HE1
|
C:PHE96
|
3.8
|
12.0
|
1.0
|
CB
|
C:ASN219
|
3.8
|
11.4
|
1.0
|
HD22
|
C:ASN217
|
3.9
|
17.2
|
1.0
|
HB3
|
C:ASN219
|
3.9
|
13.6
|
1.0
|
HD21
|
C:ASN219
|
4.0
|
14.0
|
1.0
|
CG
|
C:ASN217
|
4.0
|
14.0
|
1.0
|
CG
|
C:ASN219
|
4.1
|
11.4
|
1.0
|
HD1
|
C:PHE96
|
4.2
|
11.5
|
1.0
|
CB
|
C:ASN102
|
4.2
|
12.1
|
1.0
|
CD
|
C:PRO101
|
4.2
|
12.5
|
1.0
|
CA
|
C:SER100
|
4.2
|
10.6
|
1.0
|
CG
|
C:ASN102
|
4.2
|
12.4
|
1.0
|
HZ
|
C:PHE211
|
4.3
|
17.7
|
1.0
|
CE2
|
C:PHE211
|
4.3
|
14.1
|
1.0
|
CE2
|
C:TRP50
|
4.3
|
12.2
|
1.0
|
O
|
C:HOH555
|
4.3
|
17.0
|
1.0
|
H
|
C:ASN102
|
4.4
|
14.4
|
1.0
|
HD23
|
C:LEU207
|
4.5
|
13.8
|
1.0
|
HD3
|
C:PRO101
|
4.5
|
15.0
|
1.0
|
CE1
|
C:PHE96
|
4.5
|
10.0
|
1.0
|
HZ2
|
C:TRP50
|
4.6
|
13.9
|
1.0
|
HB3
|
C:SER100
|
4.7
|
12.8
|
1.0
|
CZ
|
C:PHE211
|
4.7
|
14.8
|
1.0
|
CD1
|
C:PHE96
|
4.8
|
9.6
|
1.0
|
HB3
|
C:ASN102
|
4.8
|
14.5
|
1.0
|
N
|
C:PRO101
|
4.8
|
11.5
|
1.0
|
N
|
C:ASN102
|
4.9
|
12.0
|
1.0
|
CZ2
|
C:TRP50
|
4.9
|
11.6
|
1.0
|
H
|
C:ASN219
|
4.9
|
17.5
|
1.0
|
C
|
C:SER100
|
4.9
|
11.9
|
1.0
|
CG
|
C:TRP50
|
4.9
|
12.5
|
1.0
|
HG2
|
C:PRO101
|
5.0
|
14.8
|
1.0
|
|
Chlorine binding site 4 out
of 4 in 5f4q
Go back to
Chlorine Binding Sites List in 5f4q
Chlorine binding site 4 out
of 4 in the Crystal Structure of the Human Egg Surface Protein Juno
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structure of the Human Egg Surface Protein Juno within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl302
b:8.9
occ:1.00
|
HE1
|
D:TRP50
|
2.3
|
11.9
|
1.0
|
HD22
|
D:ASN219
|
2.5
|
17.6
|
1.0
|
HD22
|
D:ASN102
|
2.5
|
15.1
|
1.0
|
HG
|
D:SER100
|
2.6
|
13.7
|
1.0
|
HD21
|
D:ASN217
|
2.6
|
23.6
|
1.0
|
NE1
|
D:TRP50
|
3.0
|
9.9
|
1.0
|
HB2
|
D:ASN219
|
3.1
|
17.0
|
1.0
|
HD2
|
D:PRO101
|
3.2
|
14.5
|
1.0
|
HD1
|
D:TRP50
|
3.3
|
11.4
|
1.0
|
OG
|
D:SER100
|
3.3
|
11.4
|
1.0
|
ND2
|
D:ASN219
|
3.3
|
14.7
|
1.0
|
ND2
|
D:ASN102
|
3.3
|
12.6
|
1.0
|
ND2
|
D:ASN217
|
3.4
|
19.6
|
1.0
|
HB2
|
D:SER100
|
3.4
|
13.3
|
1.0
|
HE1
|
D:PHE211
|
3.5
|
11.8
|
1.0
|
CD1
|
D:TRP50
|
3.5
|
9.5
|
1.0
|
HE1
|
D:PHE96
|
3.5
|
12.9
|
1.0
|
HA
|
D:SER100
|
3.6
|
13.5
|
1.0
|
HB2
|
D:ASN102
|
3.6
|
15.3
|
1.0
|
HD21
|
D:ASN102
|
3.7
|
15.1
|
1.0
|
OD1
|
D:ASN217
|
3.7
|
18.3
|
1.0
|
CB
|
D:SER100
|
3.8
|
11.1
|
1.0
|
CB
|
D:ASN219
|
3.8
|
14.1
|
1.0
|
HD21
|
D:ASN219
|
3.9
|
17.6
|
1.0
|
HB3
|
D:ASN219
|
4.0
|
17.0
|
1.0
|
CG
|
D:ASN217
|
4.0
|
19.8
|
1.0
|
HD22
|
D:ASN217
|
4.1
|
23.6
|
1.0
|
CG
|
D:ASN219
|
4.1
|
14.1
|
1.0
|
HD1
|
D:PHE96
|
4.1
|
12.5
|
1.0
|
CD
|
D:PRO101
|
4.2
|
12.1
|
1.0
|
CA
|
D:SER100
|
4.2
|
11.2
|
1.0
|
CE1
|
D:PHE211
|
4.2
|
9.8
|
1.0
|
CE2
|
D:TRP50
|
4.3
|
10.2
|
1.0
|
HZ
|
D:PHE211
|
4.3
|
11.7
|
1.0
|
H
|
D:ASN102
|
4.3
|
15.2
|
1.0
|
CE1
|
D:PHE96
|
4.3
|
10.8
|
1.0
|
CG
|
D:ASN102
|
4.3
|
12.9
|
1.0
|
CB
|
D:ASN102
|
4.4
|
12.8
|
1.0
|
HD3
|
D:PRO101
|
4.4
|
14.5
|
1.0
|
O
|
D:HOH545
|
4.5
|
12.6
|
1.0
|
CD1
|
D:PHE96
|
4.6
|
10.4
|
1.0
|
CZ
|
D:PHE211
|
4.7
|
9.8
|
1.0
|
HZ2
|
D:TRP50
|
4.7
|
12.4
|
1.0
|
HD23
|
D:LEU207
|
4.7
|
10.4
|
1.0
|
HB3
|
D:SER100
|
4.7
|
13.3
|
1.0
|
N
|
D:PRO101
|
4.8
|
12.2
|
1.0
|
CG
|
D:TRP50
|
4.9
|
9.5
|
1.0
|
H
|
D:ASN219
|
4.9
|
18.2
|
1.0
|
CZ2
|
D:TRP50
|
4.9
|
10.3
|
1.0
|
N
|
D:ASN102
|
4.9
|
12.7
|
1.0
|
C
|
D:SER100
|
4.9
|
11.8
|
1.0
|
|
Reference:
H.Aydin,
A.Sultana,
S.Li,
A.Thavalingam,
J.E.Lee.
Molecular Architecture of the Human Sperm IZUMO1 and Egg Juno Fertilization Complex. Nature V. 534 562 2016.
ISSN: ESSN 1476-4687
PubMed: 27309818
DOI: 10.1038/NATURE18595
Page generated: Fri Jul 26 07:39:08 2024
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