Calcium in PDB 6r2w: Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
Enzymatic activity of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
All present enzymatic activity of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor:
3.4.21.21;
Protein crystallography data
The structure of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor, PDB code: 6r2w
was solved by
A.B.Sorensen,
L.A.Svensson,
P.S.Gandhi,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
36.58 /
1.25
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
71.310,
80.040,
123.380,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
17 /
19.4
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
(pdb code 6r2w). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the
Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor, PDB code: 6r2w:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Calcium binding site 1 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 1 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca201
b:27.7
occ:1.00
|
O
|
L:GLN64
|
2.3
|
29.4
|
1.0
|
|
OD2
|
L:ASP46
|
2.3
|
30.4
|
1.0
|
|
OE1
|
L:GLN49
|
2.3
|
30.8
|
1.0
|
|
O
|
L:HOH408
|
2.3
|
30.9
|
1.0
|
|
O
|
L:GLY47
|
2.3
|
30.7
|
1.0
|
|
OD2
|
L:ASP63
|
2.5
|
27.4
|
1.0
|
|
OD1
|
L:ASP63
|
2.6
|
28.2
|
1.0
|
|
CG
|
L:ASP63
|
2.8
|
26.2
|
1.0
|
|
H
|
L:GLN49
|
3.3
|
37.0
|
1.0
|
|
CD
|
L:GLN49
|
3.4
|
30.9
|
1.0
|
|
HA
|
L:ASP48
|
3.4
|
38.0
|
1.0
|
|
H
|
L:GLN66
|
3.5
|
44.3
|
1.0
|
|
CG
|
L:ASP46
|
3.5
|
31.6
|
1.0
|
|
C
|
L:GLN64
|
3.5
|
30.9
|
1.0
|
|
HB3
|
L:ASP46
|
3.5
|
36.4
|
1.0
|
|
HE22
|
L:GLN49
|
3.6
|
37.7
|
1.0
|
|
C
|
L:GLY47
|
3.6
|
31.1
|
1.0
|
|
HA
|
L:LEU65
|
3.6
|
42.6
|
1.0
|
|
H
|
L:GLN64
|
3.8
|
31.3
|
1.0
|
|
NE2
|
L:GLN49
|
3.9
|
31.4
|
1.0
|
|
CB
|
L:ASP46
|
4.1
|
30.3
|
1.0
|
|
N
|
L:GLN49
|
4.1
|
30.8
|
1.0
|
|
H
|
L:SER67
|
4.1
|
41.1
|
1.0
|
|
N
|
L:GLN66
|
4.1
|
36.9
|
1.0
|
|
N
|
L:GLN64
|
4.1
|
26.1
|
1.0
|
|
CA
|
L:ASP48
|
4.2
|
31.6
|
1.0
|
|
HB2
|
L:GLN49
|
4.3
|
36.4
|
1.0
|
|
CA
|
L:LEU65
|
4.3
|
35.5
|
1.0
|
|
CB
|
L:ASP63
|
4.3
|
23.7
|
1.0
|
|
H11
|
L:TMA213
|
4.3
|
0.4
|
1.0
|
|
N
|
L:ASP48
|
4.3
|
30.9
|
1.0
|
|
N
|
L:LEU65
|
4.3
|
33.5
|
1.0
|
|
O
|
L:SER67
|
4.4
|
27.4
|
1.0
|
|
O
|
L:HOH458
|
4.4
|
53.0
|
1.0
|
|
CA
|
L:GLN64
|
4.5
|
29.0
|
1.0
|
|
HD23
|
L:LEU65
|
4.5
|
43.6
|
1.0
|
|
C
|
L:ASP46
|
4.5
|
31.4
|
1.0
|
|
OD1
|
L:ASP46
|
4.5
|
33.2
|
1.0
|
|
N
|
L:GLY47
|
4.6
|
31.8
|
1.0
|
|
O
|
L:ASP46
|
4.6
|
32.8
|
1.0
|
|
C
|
L:LEU65
|
4.7
|
35.4
|
1.0
|
|
CG
|
L:GLN49
|
4.7
|
30.4
|
1.0
|
|
CA
|
L:GLY47
|
4.7
|
32.2
|
1.0
|
|
C
|
L:ASP48
|
4.7
|
31.2
|
1.0
|
|
HB3
|
L:ASP63
|
4.7
|
28.5
|
1.0
|
|
H12
|
L:TMA213
|
4.7
|
0.4
|
1.0
|
|
HE21
|
L:GLN49
|
4.7
|
37.7
|
1.0
|
|
HB2
|
L:ASP46
|
4.8
|
36.4
|
1.0
|
|
C
|
L:ASP63
|
4.8
|
24.8
|
1.0
|
|
HA
|
L:GLN66
|
4.8
|
47.0
|
1.0
|
|
O
|
T:HOH552
|
4.8
|
32.6
|
1.0
|
|
CB
|
L:GLN49
|
4.8
|
30.3
|
1.0
|
|
C1
|
L:TMA213
|
4.8
|
97.8
|
1.0
|
|
HB2
|
L:ASP63
|
4.9
|
28.5
|
1.0
|
|
H13
|
L:TMA213
|
4.9
|
0.4
|
1.0
|
|
HA
|
L:ASP63
|
4.9
|
27.3
|
1.0
|
|
H
|
L:GLY47
|
4.9
|
38.1
|
1.0
|
|
N
|
L:SER67
|
4.9
|
34.3
|
1.0
|
|
HA
|
L:GLN64
|
4.9
|
34.8
|
1.0
|
|
CA
|
L:ASP46
|
5.0
|
29.9
|
1.0
|
|
CA
|
L:ASP63
|
5.0
|
22.7
|
1.0
|
|
O
|
L:HOH372
|
5.0
|
50.5
|
1.0
|
|
Calcium binding site 2 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 2 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca202
b:25.8
occ:1.00
|
OE12
|
L:CGU7
|
2.3
|
22.4
|
1.0
|
|
OE21
|
L:CGU7
|
2.3
|
27.6
|
1.0
|
|
O
|
L:HOH302
|
2.4
|
32.3
|
1.0
|
|
OE11
|
L:CGU26
|
2.4
|
26.6
|
1.0
|
|
OE21
|
L:CGU29
|
2.5
|
28.2
|
1.0
|
|
OE22
|
L:CGU29
|
2.5
|
26.9
|
1.0
|
|
O
|
L:HOH437
|
2.7
|
25.8
|
1.0
|
|
CD2
|
L:CGU29
|
2.9
|
27.7
|
1.0
|
|
CD1
|
L:CGU7
|
3.2
|
22.5
|
1.0
|
|
CD1
|
L:CGU26
|
3.3
|
25.4
|
1.0
|
|
CD2
|
L:CGU7
|
3.4
|
26.7
|
1.0
|
|
OE12
|
L:CGU26
|
3.5
|
24.3
|
1.0
|
|
HD21
|
L:ASN2
|
3.7
|
36.2
|
1.0
|
|
CG
|
L:CGU7
|
3.8
|
23.3
|
1.0
|
|
HG
|
L:CGU25
|
3.8
|
41.7
|
1.0
|
|
CA
|
L:CA203
|
3.9
|
20.1
|
1.0
|
|
HB2
|
L:CGU7
|
3.9
|
26.1
|
1.0
|
|
OE22
|
L:CGU25
|
4.1
|
37.0
|
1.0
|
|
OE11
|
L:CGU7
|
4.2
|
22.1
|
1.0
|
|
HA
|
L:CGU26
|
4.2
|
28.4
|
1.0
|
|
ND2
|
L:ASN2
|
4.4
|
30.2
|
1.0
|
|
CB
|
L:CGU7
|
4.4
|
21.8
|
1.0
|
|
CG
|
L:CGU29
|
4.4
|
29.6
|
1.0
|
|
O
|
L:HOH385
|
4.5
|
27.3
|
1.0
|
|
OE22
|
L:CGU7
|
4.5
|
28.3
|
1.0
|
|
CD2
|
L:CGU25
|
4.6
|
35.9
|
1.0
|
|
OD1
|
L:ASN2
|
4.6
|
27.7
|
1.0
|
|
O
|
L:HOH423
|
4.6
|
45.8
|
1.0
|
|
CA
|
L:CA208
|
4.7
|
28.1
|
0.8
|
|
O
|
L:HOH440
|
4.7
|
20.4
|
1.0
|
|
HG
|
L:CGU7
|
4.7
|
28.0
|
1.0
|
|
O
|
L:HOH397
|
4.7
|
39.6
|
1.0
|
|
CG
|
L:CGU26
|
4.7
|
25.1
|
1.0
|
|
HG
|
L:CGU26
|
4.7
|
30.1
|
1.0
|
|
CG
|
L:CGU25
|
4.8
|
34.8
|
1.0
|
|
CG
|
L:ASN2
|
4.9
|
29.5
|
1.0
|
|
HD22
|
L:ASN2
|
4.9
|
36.2
|
1.0
|
|
HG
|
L:CGU29
|
4.9
|
35.6
|
1.0
|
|
Calcium binding site 3 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 3 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca203
b:20.1
occ:1.00
|
O
|
L:HOH334
|
2.4
|
18.6
|
1.0
|
|
OE12
|
L:CGU26
|
2.4
|
24.3
|
1.0
|
|
OE12
|
L:CGU7
|
2.4
|
22.4
|
1.0
|
|
O
|
L:HOH406
|
2.5
|
19.3
|
1.0
|
|
O
|
L:HOH440
|
2.5
|
20.4
|
1.0
|
|
OE22
|
L:CGU16
|
2.6
|
19.7
|
1.0
|
|
OE22
|
L:CGU29
|
2.6
|
26.9
|
1.0
|
|
OE11
|
L:CGU7
|
2.6
|
22.1
|
1.0
|
|
CD1
|
L:CGU7
|
2.9
|
22.5
|
1.0
|
|
CD1
|
L:CGU26
|
3.5
|
25.4
|
1.0
|
|
CD2
|
L:CGU16
|
3.5
|
20.3
|
1.0
|
|
OE21
|
L:CGU16
|
3.7
|
19.5
|
1.0
|
|
CA
|
L:CA204
|
3.7
|
20.9
|
1.0
|
|
HB3
|
L:CGU29
|
3.7
|
35.5
|
1.0
|
|
HA2
|
L:GLY11
|
3.8
|
31.3
|
1.0
|
|
HA
|
L:CGU26
|
3.8
|
28.4
|
1.0
|
|
CD2
|
L:CGU29
|
3.8
|
27.7
|
1.0
|
|
HB2
|
L:CGU29
|
3.8
|
35.5
|
1.0
|
|
CA
|
L:CA202
|
3.9
|
25.8
|
1.0
|
|
OE11
|
L:CGU26
|
4.0
|
26.6
|
1.0
|
|
HA
|
L:CGU7
|
4.2
|
24.4
|
1.0
|
|
CB
|
L:CGU29
|
4.2
|
29.6
|
1.0
|
|
HB2
|
L:CGU26
|
4.3
|
28.2
|
1.0
|
|
HA3
|
L:GLY11
|
4.3
|
31.3
|
1.0
|
|
CG
|
L:CGU7
|
4.4
|
23.3
|
1.0
|
|
CA
|
L:GLY11
|
4.4
|
26.1
|
1.0
|
|
OE12
|
L:CGU6
|
4.5
|
22.3
|
1.0
|
|
O
|
L:HOH385
|
4.5
|
27.3
|
1.0
|
|
CG
|
L:CGU29
|
4.6
|
29.6
|
1.0
|
|
CG
|
L:CGU26
|
4.7
|
25.1
|
1.0
|
|
CA
|
L:CGU26
|
4.7
|
23.7
|
1.0
|
|
O
|
L:CGU26
|
4.7
|
22.7
|
1.0
|
|
CB
|
L:CGU26
|
4.7
|
23.5
|
1.0
|
|
OE21
|
L:CGU29
|
4.7
|
28.2
|
1.0
|
|
OD1
|
L:ASN2
|
4.8
|
27.7
|
1.0
|
|
HG
|
L:CGU7
|
4.9
|
28.0
|
1.0
|
|
HB2
|
L:CGU7
|
4.9
|
26.1
|
1.0
|
|
HH21
|
L:ARG15
|
4.9
|
30.2
|
1.0
|
|
N
|
L:GLY11
|
4.9
|
25.0
|
1.0
|
|
CG
|
L:CGU16
|
4.9
|
20.0
|
1.0
|
|
O
|
L:HOH437
|
5.0
|
25.8
|
1.0
|
|
OE22
|
L:CGU26
|
5.0
|
23.1
|
1.0
|
|
HG13
|
L:ILE30
|
5.0
|
28.2
|
1.0
|
|
Calcium binding site 4 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 4 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca204
b:20.9
occ:1.00
|
OE11
|
L:CGU7
|
2.3
|
22.1
|
1.0
|
|
OD1
|
L:ASN2
|
2.3
|
27.7
|
1.0
|
|
OE11
|
L:CGU16
|
2.4
|
21.1
|
1.0
|
|
OE22
|
L:CGU26
|
2.4
|
23.1
|
1.0
|
|
OE22
|
L:CGU16
|
2.4
|
19.7
|
1.0
|
|
OE11
|
L:CGU6
|
2.5
|
23.6
|
1.0
|
|
OE12
|
L:CGU26
|
2.6
|
24.3
|
1.0
|
|
O
|
L:ALA1
|
3.0
|
28.6
|
1.0
|
|
CD1
|
L:CGU16
|
3.1
|
20.8
|
1.0
|
|
CD1
|
L:CGU6
|
3.2
|
23.1
|
1.0
|
|
OE12
|
L:CGU6
|
3.2
|
22.3
|
1.0
|
|
CD1
|
L:CGU26
|
3.3
|
25.4
|
1.0
|
|
CD1
|
L:CGU7
|
3.4
|
22.5
|
1.0
|
|
CD2
|
L:CGU16
|
3.4
|
20.3
|
1.0
|
|
CD2
|
L:CGU26
|
3.5
|
25.6
|
1.0
|
|
CG
|
L:ASN2
|
3.5
|
29.5
|
1.0
|
|
H2
|
L:ALA1
|
3.6
|
33.7
|
1.0
|
|
HA
|
L:ASN2
|
3.6
|
40.7
|
1.0
|
|
CA
|
L:CA203
|
3.7
|
20.1
|
1.0
|
|
C
|
L:ALA1
|
3.7
|
30.2
|
1.0
|
|
HG
|
L:CGU7
|
3.8
|
28.0
|
1.0
|
|
CG
|
L:CGU16
|
3.8
|
20.0
|
1.0
|
|
CA
|
L:CA205
|
3.8
|
25.6
|
1.0
|
|
CG
|
L:CGU26
|
3.9
|
25.1
|
1.0
|
|
OE12
|
L:CGU16
|
4.0
|
22.6
|
1.0
|
|
HB2
|
L:CGU16
|
4.1
|
24.1
|
1.0
|
|
HB2
|
L:CGU26
|
4.1
|
28.2
|
1.0
|
|
OE12
|
L:CGU7
|
4.1
|
22.4
|
1.0
|
|
OE11
|
L:CGU26
|
4.2
|
26.6
|
1.0
|
|
HD21
|
L:ASN2
|
4.2
|
36.2
|
1.0
|
|
CG
|
L:CGU7
|
4.2
|
23.3
|
1.0
|
|
H3
|
L:ALA1
|
4.2
|
33.7
|
1.0
|
|
N
|
L:ALA1
|
4.2
|
28.1
|
1.0
|
|
O
|
L:HOH406
|
4.3
|
19.3
|
1.0
|
|
CA
|
L:ASN2
|
4.3
|
33.9
|
1.0
|
|
ND2
|
L:ASN2
|
4.3
|
30.2
|
1.0
|
|
N
|
L:ASN2
|
4.3
|
32.5
|
1.0
|
|
CB
|
L:ASN2
|
4.5
|
31.9
|
1.0
|
|
HB2
|
L:CGU6
|
4.5
|
27.3
|
1.0
|
|
CB
|
L:CGU16
|
4.5
|
20.1
|
1.0
|
|
OE21
|
L:CGU16
|
4.5
|
19.5
|
1.0
|
|
OE21
|
L:CGU26
|
4.5
|
27.6
|
1.0
|
|
CA
|
L:ALA1
|
4.6
|
29.8
|
1.0
|
|
CB
|
L:CGU26
|
4.6
|
23.5
|
1.0
|
|
HH21
|
L:ARG15
|
4.7
|
30.2
|
1.0
|
|
HG
|
L:CGU16
|
4.7
|
24.0
|
1.0
|
|
CG
|
L:CGU6
|
4.7
|
23.3
|
1.0
|
|
HG
|
L:CGU26
|
4.8
|
30.1
|
1.0
|
|
CD2
|
L:CGU7
|
4.9
|
26.7
|
1.0
|
|
HA
|
L:CGU7
|
4.9
|
24.4
|
1.0
|
|
HB3
|
L:ASN2
|
4.9
|
38.2
|
1.0
|
|
HA
|
L:ALA1
|
4.9
|
35.8
|
1.0
|
|
OE21
|
L:CGU20
|
5.0
|
29.4
|
1.0
|
|
Calcium binding site 5 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 5 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca205
b:25.6
occ:1.00
|
OE21
|
L:CGU6
|
2.3
|
26.5
|
1.0
|
|
O
|
L:ALA1
|
2.3
|
28.6
|
1.0
|
|
O
|
L:HOH420
|
2.3
|
31.8
|
1.0
|
|
OE21
|
L:CGU20
|
2.4
|
29.4
|
1.0
|
|
OE12
|
L:CGU16
|
2.4
|
22.6
|
1.0
|
|
OE11
|
L:CGU6
|
2.5
|
23.6
|
1.0
|
|
OE11
|
L:CGU16
|
2.5
|
21.1
|
1.0
|
|
OE22
|
L:CGU20
|
2.6
|
30.0
|
1.0
|
|
CD1
|
L:CGU16
|
2.8
|
20.8
|
1.0
|
|
CD2
|
L:CGU20
|
2.9
|
30.4
|
1.0
|
|
CD1
|
L:CGU6
|
3.1
|
23.1
|
1.0
|
|
CD2
|
L:CGU6
|
3.3
|
26.2
|
1.0
|
|
H3
|
L:ALA1
|
3.3
|
33.7
|
1.0
|
|
C
|
L:ALA1
|
3.5
|
30.2
|
1.0
|
|
CG
|
L:CGU6
|
3.7
|
23.3
|
1.0
|
|
HE
|
L:ARG15
|
3.8
|
31.3
|
1.0
|
|
CA
|
L:CA204
|
3.8
|
20.9
|
1.0
|
|
OE12
|
L:CGU6
|
3.8
|
22.3
|
1.0
|
|
HA
|
L:CGU16
|
3.9
|
26.3
|
1.0
|
|
HA
|
L:ASN2
|
3.9
|
40.7
|
1.0
|
|
O
|
L:HOH335
|
4.0
|
33.4
|
1.0
|
|
N
|
L:ALA1
|
4.0
|
28.1
|
1.0
|
|
HB3
|
L:ALA1
|
4.0
|
36.1
|
1.0
|
|
HG2
|
L:ARG15
|
4.1
|
33.0
|
1.0
|
|
H2
|
L:ALA1
|
4.1
|
33.7
|
1.0
|
|
CA
|
L:ALA1
|
4.3
|
29.8
|
1.0
|
|
HB2
|
L:CGU6
|
4.3
|
27.3
|
1.0
|
|
CG
|
L:CGU16
|
4.3
|
20.0
|
1.0
|
|
H
|
L:ALA3
|
4.4
|
45.6
|
1.0
|
|
CG
|
L:CGU20
|
4.4
|
32.9
|
1.0
|
|
CB
|
L:CGU6
|
4.4
|
22.8
|
1.0
|
|
N
|
L:ASN2
|
4.4
|
32.5
|
1.0
|
|
OE22
|
L:CGU6
|
4.4
|
29.0
|
1.0
|
|
HB3
|
L:CGU6
|
4.5
|
27.3
|
1.0
|
|
NE
|
L:ARG15
|
4.6
|
26.1
|
1.0
|
|
HG
|
L:CGU6
|
4.6
|
27.9
|
1.0
|
|
CA
|
L:ASN2
|
4.6
|
33.9
|
1.0
|
|
CB
|
L:ALA1
|
4.7
|
30.1
|
1.0
|
|
HB3
|
L:CGU20
|
4.7
|
39.1
|
1.0
|
|
HG
|
L:CGU16
|
4.7
|
24.0
|
1.0
|
|
H1
|
L:ALA1
|
4.8
|
33.7
|
1.0
|
|
O
|
L:ARG15
|
4.8
|
25.5
|
1.0
|
|
HD2
|
L:ARG15
|
4.8
|
32.4
|
1.0
|
|
OE22
|
L:CGU26
|
4.8
|
23.1
|
1.0
|
|
CA
|
L:CA207
|
4.8
|
39.8
|
1.0
|
|
CA
|
L:CGU16
|
4.8
|
21.9
|
1.0
|
|
HH21
|
L:ARG15
|
4.9
|
30.2
|
1.0
|
|
CG
|
L:ARG15
|
5.0
|
27.5
|
1.0
|
|
N
|
L:ALA3
|
5.0
|
38.0
|
1.0
|
|
OE22
|
L:CGU16
|
5.0
|
19.7
|
1.0
|
|
Calcium binding site 6 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 6 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca206
b:49.8
occ:1.00
|
OE12
|
L:CGU19
|
2.2
|
43.6
|
1.0
|
|
OE11
|
L:CGU14
|
2.2
|
43.7
|
1.0
|
|
OE21
|
L:CGU19
|
2.4
|
44.3
|
1.0
|
|
O
|
L:HOH445
|
2.6
|
44.0
|
1.0
|
|
OE22
|
L:CGU14
|
2.7
|
42.5
|
1.0
|
|
O
|
L:HOH438
|
2.8
|
44.1
|
1.0
|
|
CD1
|
L:CGU14
|
3.2
|
42.3
|
1.0
|
|
CD1
|
L:CGU19
|
3.2
|
44.3
|
1.0
|
|
HG
|
L:CGU14
|
3.3
|
47.0
|
1.0
|
|
HG
|
L:CGU19
|
3.3
|
51.4
|
1.0
|
|
CD2
|
L:CGU19
|
3.3
|
44.1
|
1.0
|
|
CD2
|
L:CGU14
|
3.4
|
40.3
|
1.0
|
|
CG
|
L:CGU14
|
3.5
|
39.2
|
1.0
|
|
CG
|
L:CGU19
|
3.5
|
42.8
|
1.0
|
|
OE12
|
L:CGU14
|
4.4
|
43.3
|
1.0
|
|
OE11
|
L:CGU19
|
4.4
|
45.5
|
1.0
|
|
OE21
|
L:CGU14
|
4.5
|
38.3
|
1.0
|
|
OE22
|
L:CGU19
|
4.5
|
44.5
|
1.0
|
|
Calcium binding site 7 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 7 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca207
b:39.8
occ:1.00
|
O
|
L:HOH434
|
2.3
|
49.6
|
1.0
|
|
O
|
L:HOH335
|
2.3
|
33.4
|
1.0
|
|
O
|
L:HOH387
|
2.4
|
46.0
|
1.0
|
|
O
|
L:HOH319
|
2.4
|
32.2
|
1.0
|
|
O
|
L:HOH485
|
2.4
|
53.4
|
1.0
|
|
OE22
|
L:CGU20
|
2.5
|
30.0
|
1.0
|
|
OE12
|
L:CGU20
|
2.5
|
36.6
|
1.0
|
|
HG
|
L:CGU20
|
3.3
|
39.5
|
1.0
|
|
CD2
|
L:CGU20
|
3.3
|
30.4
|
1.0
|
|
CD1
|
L:CGU20
|
3.4
|
35.5
|
1.0
|
|
CG
|
L:CGU20
|
3.5
|
32.9
|
1.0
|
|
HG2
|
L:ARG15
|
4.1
|
33.0
|
1.0
|
|
HG3
|
L:ARG15
|
4.2
|
33.0
|
1.0
|
|
HB2
|
L:CGU19
|
4.4
|
48.1
|
1.0
|
|
OE21
|
L:CGU20
|
4.5
|
29.4
|
1.0
|
|
O
|
L:ARG15
|
4.5
|
25.5
|
1.0
|
|
OE11
|
L:CGU20
|
4.6
|
36.2
|
1.0
|
|
OE21
|
L:CGU6
|
4.6
|
26.5
|
1.0
|
|
CG
|
L:ARG15
|
4.6
|
27.5
|
1.0
|
|
HB3
|
L:CGU19
|
4.7
|
48.1
|
1.0
|
|
OE22
|
L:CGU19
|
4.7
|
44.5
|
1.0
|
|
HD2
|
L:ARG15
|
4.8
|
32.4
|
1.0
|
|
O
|
L:HOH420
|
4.8
|
31.8
|
1.0
|
|
CA
|
L:CA205
|
4.8
|
25.6
|
1.0
|
|
Calcium binding site 8 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 8 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca208
b:28.1
occ:0.83
|
OE11
|
L:CGU29
|
2.2
|
32.8
|
1.0
|
|
O
|
L:HOH453
|
2.3
|
41.5
|
1.0
|
|
OE21
|
L:CGU29
|
2.5
|
28.2
|
1.0
|
|
O
|
L:HOH386
|
2.5
|
40.0
|
1.0
|
|
O
|
L:HOH391
|
2.6
|
51.7
|
1.0
|
|
OE12
|
L:CGU25
|
2.7
|
35.4
|
1.0
|
|
CD1
|
L:CGU29
|
3.1
|
31.3
|
1.0
|
|
OE22
|
L:CGU25
|
3.3
|
37.0
|
1.0
|
|
HG
|
L:CGU29
|
3.3
|
35.6
|
1.0
|
|
CD2
|
L:CGU29
|
3.4
|
27.7
|
1.0
|
|
HH21
|
L:ARG28
|
3.4
|
91.5
|
1.0
|
|
CG
|
L:CGU29
|
3.5
|
29.6
|
1.0
|
|
CD1
|
L:CGU25
|
3.7
|
33.8
|
1.0
|
|
HG
|
L:CGU25
|
3.9
|
41.7
|
1.0
|
|
O
|
L:HOH397
|
4.1
|
39.6
|
1.0
|
|
O
|
L:HOH302
|
4.1
|
32.3
|
1.0
|
|
CG
|
L:CGU25
|
4.2
|
34.8
|
1.0
|
|
O
|
L:HOH437
|
4.2
|
25.8
|
1.0
|
|
CD2
|
L:CGU25
|
4.2
|
35.9
|
1.0
|
|
OE12
|
L:CGU29
|
4.2
|
32.5
|
1.0
|
|
HE
|
L:ARG28
|
4.2
|
86.1
|
1.0
|
|
NH2
|
L:ARG28
|
4.3
|
76.2
|
1.0
|
|
O
|
L:HOH379
|
4.4
|
37.6
|
1.0
|
|
OE22
|
L:CGU29
|
4.5
|
26.9
|
1.0
|
|
O
|
L:HOH439
|
4.6
|
43.9
|
1.0
|
|
CA
|
L:CA202
|
4.7
|
25.8
|
1.0
|
|
HH22
|
L:ARG28
|
4.7
|
91.5
|
1.0
|
|
OE11
|
L:CGU25
|
4.8
|
30.8
|
1.0
|
|
NE
|
L:ARG28
|
5.0
|
71.7
|
1.0
|
|
CB
|
L:CGU29
|
5.0
|
29.6
|
1.0
|
|
Calcium binding site 9 out
of 9 in 6r2w
Go back to
Calcium Binding Sites List in 6r2w
Calcium binding site 9 out
of 9 in the Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Crystal Structure of the Super-Active Fviia Variant Vyt in Complex with Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Ca301
b:12.2
occ:1.00
|
O
|
H:GLU78
|
2.2
|
14.3
|
1.0
|
|
O
|
H:ASP75
|
2.3
|
11.3
|
1.0
|
|
OE1
|
H:GLU83
|
2.3
|
14.5
|
1.0
|
|
O
|
H:HOH459
|
2.3
|
13.9
|
1.0
|
|
OE1
|
H:GLU73
|
2.4
|
11.5
|
1.0
|
|
O
|
H:HOH579
|
2.4
|
12.5
|
1.0
|
|
O
|
H:HOH405
|
2.7
|
29.6
|
1.0
|
|
HA
|
H:HIS79
|
3.2
|
17.6
|
1.0
|
|
H
|
H:ASP75
|
3.3
|
13.9
|
1.0
|
|
CD
|
H:GLU73
|
3.4
|
10.9
|
1.0
|
|
CD
|
H:GLU83
|
3.4
|
13.4
|
1.0
|
|
C
|
H:GLU78
|
3.4
|
15.6
|
1.0
|
|
C
|
H:ASP75
|
3.4
|
11.4
|
1.0
|
|
HG2
|
H:GLU83
|
3.5
|
14.6
|
1.0
|
|
H
|
H:HIS74
|
3.6
|
12.2
|
1.0
|
|
H
|
H:ASP80
|
3.7
|
16.4
|
1.0
|
|
OE2
|
H:GLU73
|
3.7
|
13.3
|
1.0
|
|
HB3
|
H:ASP75
|
3.9
|
16.3
|
1.0
|
|
CG
|
H:GLU83
|
3.9
|
12.2
|
1.0
|
|
N
|
H:ASP75
|
3.9
|
11.6
|
1.0
|
|
HA
|
H:LEU76
|
4.0
|
15.3
|
1.0
|
|
CA
|
H:HIS79
|
4.0
|
14.7
|
1.0
|
|
HG3
|
H:GLU83
|
4.0
|
14.6
|
1.0
|
|
N
|
H:HIS79
|
4.1
|
14.9
|
1.0
|
|
CA
|
H:ASP75
|
4.2
|
11.5
|
1.0
|
|
O
|
H:HOH488
|
4.2
|
11.9
|
1.0
|
|
N
|
H:ASP80
|
4.3
|
13.7
|
1.0
|
|
HA
|
H:GLU73
|
4.3
|
11.9
|
1.0
|
|
N
|
H:GLU78
|
4.4
|
16.6
|
1.0
|
|
N
|
H:LEU76
|
4.4
|
12.5
|
1.0
|
|
OE2
|
H:GLU83
|
4.5
|
12.6
|
1.0
|
|
N
|
H:HIS74
|
4.5
|
10.2
|
1.0
|
|
HB2
|
H:GLU78
|
4.5
|
30.3
|
1.0
|
|
CA
|
H:GLU78
|
4.5
|
19.7
|
1.0
|
|
CB
|
H:ASP75
|
4.5
|
13.6
|
1.0
|
|
ND1
|
H:HIS79
|
4.5
|
16.9
|
1.0
|
|
O
|
H:HOH516
|
4.5
|
17.8
|
1.0
|
|
CA
|
H:LEU76
|
4.6
|
12.8
|
1.0
|
|
C
|
H:HIS79
|
4.7
|
14.6
|
1.0
|
|
CG
|
H:GLU73
|
4.7
|
10.4
|
1.0
|
|
O
|
H:HOH429
|
4.7
|
36.2
|
1.0
|
|
HG3
|
H:GLU73
|
4.8
|
12.5
|
1.0
|
|
HD23
|
H:LEU76
|
4.8
|
17.9
|
1.0
|
|
C
|
H:LEU76
|
4.9
|
14.0
|
1.0
|
|
HB3
|
H:HIS74
|
4.9
|
14.8
|
1.0
|
|
C
|
H:HIS74
|
4.9
|
10.5
|
1.0
|
|
OD1
|
H:ASP80
|
4.9
|
13.3
|
1.0
|
|
H
|
H:HIS79
|
5.0
|
17.9
|
1.0
|
|
Reference:
A.B.Sorensen,
I.Tuneew,
L.A.Svensson,
E.Persson,
H.Ostergaard,
M.T.Overgaard,
O.H.Olsen,
P.S.Gandhi.
Beating Tissue Factor at Its Own Game: Design and Properties of A Soluble Tissue Factor-Independent Coagulation Factor Viia. J.Biol.Chem. 2019.
ISSN: ESSN 1083-351X
PubMed: 31801825
DOI: 10.1074/JBC.RA119.009183
Page generated: Tue Jul 16 14:14:09 2024
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