Calcium in PDB 4ylq: Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor
Enzymatic activity of Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor
All present enzymatic activity of Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor:
3.4.21.21;
Protein crystallography data
The structure of Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor, PDB code: 4ylq
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)
|
34.25 /
1.40
|
|
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 (%)
|
14 /
17.4
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor
(pdb code 4ylq). 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor, PDB code: 4ylq:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Calcium binding site 1 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 1 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca201
b:28.8
occ:1.00
|
OD2
|
L:ASP46
|
2.3
|
30.5
|
1.0
|
|
O
|
L:GLY47
|
2.3
|
30.1
|
1.0
|
|
O
|
L:GLN64
|
2.3
|
30.1
|
1.0
|
|
OE1
|
L:GLN49
|
2.3
|
29.7
|
1.0
|
|
O
|
L:HOH391
|
2.4
|
29.6
|
1.0
|
|
OD2
|
L:ASP63
|
2.5
|
28.3
|
1.0
|
|
OD1
|
L:ASP63
|
2.5
|
28.1
|
1.0
|
|
CG
|
L:ASP63
|
2.9
|
25.4
|
1.0
|
|
H
|
L:GLN49
|
3.3
|
38.1
|
1.0
|
|
CD
|
L:GLN49
|
3.4
|
30.1
|
1.0
|
|
H
|
L:GLN66
|
3.4
|
43.6
|
1.0
|
|
CG
|
L:ASP46
|
3.5
|
30.9
|
1.0
|
|
HA
|
L:ASP48
|
3.5
|
40.1
|
1.0
|
|
C
|
L:GLN64
|
3.5
|
31.5
|
1.0
|
|
C
|
L:GLY47
|
3.5
|
32.5
|
1.0
|
|
HE22
|
L:GLN49
|
3.6
|
38.1
|
1.0
|
|
HB3
|
L:ASP46
|
3.6
|
34.4
|
1.0
|
|
HA
|
L:LEU65
|
3.6
|
42.3
|
1.0
|
|
H
|
L:GLN64
|
3.8
|
32.0
|
1.0
|
|
NE2
|
L:GLN49
|
3.9
|
31.8
|
1.0
|
|
N
|
L:GLN49
|
4.0
|
31.8
|
1.0
|
|
CB
|
L:ASP46
|
4.1
|
28.7
|
1.0
|
|
N
|
L:GLN66
|
4.1
|
36.3
|
1.0
|
|
H
|
L:SER67
|
4.1
|
40.6
|
1.0
|
|
N
|
L:GLN64
|
4.2
|
26.6
|
1.0
|
|
HB2
|
L:GLN49
|
4.2
|
38.2
|
1.0
|
|
CA
|
L:ASP48
|
4.2
|
33.4
|
1.0
|
|
CA
|
L:LEU65
|
4.3
|
35.3
|
1.0
|
|
H32
|
T:TMA305
|
4.3
|
60.2
|
1.0
|
|
N
|
L:ASP48
|
4.3
|
32.8
|
1.0
|
|
CB
|
L:ASP63
|
4.3
|
24.0
|
1.0
|
|
N
|
L:LEU65
|
4.4
|
33.3
|
1.0
|
|
O
|
L:SER67
|
4.4
|
26.4
|
1.0
|
|
OD1
|
L:ASP46
|
4.5
|
34.0
|
1.0
|
|
HD23
|
L:LEU65
|
4.5
|
43.7
|
1.0
|
|
CA
|
L:GLN64
|
4.5
|
28.6
|
1.0
|
|
C
|
L:ASP46
|
4.5
|
32.7
|
1.0
|
|
N
|
L:GLY47
|
4.5
|
34.3
|
1.0
|
|
CG
|
L:GLN49
|
4.6
|
30.3
|
1.0
|
|
O
|
L:ASP46
|
4.6
|
34.1
|
1.0
|
|
C
|
L:ASP48
|
4.6
|
33.4
|
1.0
|
|
CA
|
L:GLY47
|
4.6
|
34.2
|
1.0
|
|
H33
|
T:TMA305
|
4.6
|
60.2
|
1.0
|
|
C
|
L:LEU65
|
4.7
|
35.5
|
1.0
|
|
H31
|
T:TMA305
|
4.7
|
60.2
|
1.0
|
|
HB3
|
L:ASP63
|
4.7
|
28.8
|
1.0
|
|
O
|
T:HOH545
|
4.7
|
31.6
|
1.0
|
|
HE21
|
L:GLN49
|
4.7
|
38.1
|
1.0
|
|
CB
|
L:GLN49
|
4.7
|
31.8
|
1.0
|
|
C3
|
T:TMA305
|
4.8
|
50.2
|
1.0
|
|
HB2
|
L:ASP46
|
4.8
|
34.4
|
1.0
|
|
H
|
L:GLY47
|
4.8
|
41.2
|
1.0
|
|
C
|
L:ASP63
|
4.8
|
25.9
|
1.0
|
|
HA
|
L:GLN66
|
4.8
|
46.6
|
1.0
|
|
HB2
|
L:ASP63
|
4.9
|
28.8
|
1.0
|
|
HA
|
L:ASP63
|
4.9
|
28.9
|
1.0
|
|
HA
|
L:GLN64
|
4.9
|
34.3
|
1.0
|
|
N
|
L:SER67
|
5.0
|
33.9
|
1.0
|
|
O
|
L:HOH378
|
5.0
|
44.1
|
1.0
|
|
CA
|
L:ASP63
|
5.0
|
24.1
|
1.0
|
|
HG2
|
L:GLN49
|
5.0
|
36.3
|
1.0
|
|
CA
|
L:ASP46
|
5.0
|
30.0
|
1.0
|
|
Calcium binding site 2 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 2 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca202
b:23.0
occ:1.00
|
OE12
|
L:CGU7
|
2.3
|
20.7
|
1.0
|
|
OE21
|
L:CGU7
|
2.3
|
23.0
|
1.0
|
|
O
|
L:HOH334
|
2.4
|
29.2
|
1.0
|
|
O
|
L:HOH414
|
2.4
|
25.2
|
1.0
|
|
OE11
|
L:CGU26
|
2.4
|
24.4
|
1.0
|
|
OE21
|
L:CGU29
|
2.5
|
24.9
|
1.0
|
|
OE22
|
L:CGU29
|
2.5
|
21.9
|
1.0
|
|
CD2
|
L:CGU29
|
2.9
|
22.8
|
1.0
|
|
CD1
|
L:CGU7
|
3.2
|
19.6
|
1.0
|
|
CD1
|
L:CGU26
|
3.4
|
23.7
|
1.0
|
|
CD2
|
L:CGU7
|
3.4
|
22.0
|
1.0
|
|
OE12
|
L:CGU26
|
3.6
|
21.2
|
1.0
|
|
CG
|
L:CGU7
|
3.8
|
20.0
|
1.0
|
|
HD21
|
L:ASN2
|
3.8
|
34.1
|
1.0
|
|
CA
|
L:CA203
|
3.9
|
19.5
|
1.0
|
|
HB2
|
L:CGU7
|
3.9
|
21.8
|
1.0
|
|
OE11
|
L:CGU7
|
4.1
|
20.0
|
1.0
|
|
OE12
|
L:CGU25
|
4.2
|
26.5
|
1.0
|
|
HA
|
L:CGU26
|
4.3
|
25.9
|
1.0
|
|
O
|
L:HOH356
|
4.3
|
26.2
|
1.0
|
|
O
|
L:HOH367
|
4.4
|
40.2
|
1.0
|
|
CG
|
L:CGU29
|
4.4
|
24.3
|
1.0
|
|
ND2
|
L:ASN2
|
4.4
|
28.4
|
1.0
|
|
CB
|
L:CGU7
|
4.4
|
18.2
|
1.0
|
|
CA
|
L:CA208
|
4.5
|
27.2
|
1.0
|
|
OE22
|
L:CGU7
|
4.5
|
24.0
|
1.0
|
|
O
|
L:HOH413
|
4.5
|
19.7
|
1.0
|
|
OD1
|
L:ASN2
|
4.6
|
24.6
|
1.0
|
|
HG
|
L:CGU7
|
4.7
|
24.0
|
1.0
|
|
CG
|
L:CGU26
|
4.8
|
23.4
|
1.0
|
|
O
|
L:HOH394
|
4.8
|
33.2
|
1.0
|
|
HG
|
L:CGU26
|
4.9
|
28.1
|
1.0
|
|
CD1
|
L:CGU25
|
4.9
|
31.0
|
1.0
|
|
CG
|
L:ASN2
|
4.9
|
27.4
|
1.0
|
|
HG
|
L:CGU29
|
4.9
|
29.1
|
1.0
|
|
HD22
|
L:ASN2
|
4.9
|
34.1
|
1.0
|
|
HB3
|
L:CGU29
|
5.0
|
28.2
|
1.0
|
|
Calcium binding site 3 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 3 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca203
b:19.5
occ:1.00
|
O
|
L:HOH324
|
2.4
|
18.8
|
1.0
|
|
OE12
|
L:CGU26
|
2.4
|
21.2
|
1.0
|
|
O
|
L:HOH413
|
2.4
|
19.7
|
1.0
|
|
OE12
|
L:CGU7
|
2.4
|
20.7
|
1.0
|
|
O
|
L:HOH377
|
2.5
|
18.9
|
1.0
|
|
OE22
|
L:CGU16
|
2.6
|
19.1
|
1.0
|
|
OE22
|
L:CGU29
|
2.6
|
21.9
|
1.0
|
|
OE11
|
L:CGU7
|
2.6
|
20.0
|
1.0
|
|
CD1
|
L:CGU7
|
2.9
|
19.6
|
1.0
|
|
CD1
|
L:CGU26
|
3.5
|
23.7
|
1.0
|
|
CD2
|
L:CGU16
|
3.5
|
18.5
|
1.0
|
|
HB3
|
L:CGU29
|
3.6
|
28.2
|
1.0
|
|
OE21
|
L:CGU16
|
3.7
|
19.8
|
1.0
|
|
CA
|
L:CA204
|
3.7
|
20.8
|
1.0
|
|
HA2
|
L:GLY11
|
3.8
|
28.6
|
1.0
|
|
HA
|
L:CGU26
|
3.8
|
25.9
|
1.0
|
|
CD2
|
L:CGU29
|
3.8
|
22.8
|
1.0
|
|
HB2
|
L:CGU29
|
3.8
|
28.2
|
1.0
|
|
CA
|
L:CA202
|
3.9
|
23.0
|
1.0
|
|
OE11
|
L:CGU26
|
4.0
|
24.4
|
1.0
|
|
CB
|
L:CGU29
|
4.2
|
23.5
|
1.0
|
|
HA
|
L:CGU7
|
4.2
|
23.0
|
1.0
|
|
HB2
|
L:CGU26
|
4.2
|
24.5
|
1.0
|
|
HA3
|
L:GLY11
|
4.3
|
28.6
|
1.0
|
|
OE12
|
L:CGU6
|
4.4
|
24.4
|
1.0
|
|
CG
|
L:CGU7
|
4.4
|
20.0
|
1.0
|
|
CA
|
L:GLY11
|
4.4
|
23.8
|
1.0
|
|
O
|
L:HOH356
|
4.5
|
26.2
|
1.0
|
|
CG
|
L:CGU29
|
4.6
|
24.3
|
1.0
|
|
CG
|
L:CGU26
|
4.6
|
23.4
|
1.0
|
|
OE21
|
L:CGU29
|
4.7
|
24.9
|
1.0
|
|
CB
|
L:CGU26
|
4.7
|
20.4
|
1.0
|
|
CA
|
L:CGU26
|
4.7
|
21.5
|
1.0
|
|
O
|
L:CGU26
|
4.7
|
20.2
|
1.0
|
|
OD1
|
L:ASN2
|
4.8
|
24.6
|
1.0
|
|
HB2
|
L:CGU7
|
4.8
|
21.8
|
1.0
|
|
HH21
|
L:ARG15
|
4.9
|
30.6
|
1.0
|
|
N
|
L:GLY11
|
4.9
|
23.4
|
1.0
|
|
HG
|
L:CGU7
|
4.9
|
24.0
|
1.0
|
|
H
|
L:GLY11
|
5.0
|
28.1
|
1.0
|
|
OE22
|
L:CGU26
|
5.0
|
23.5
|
1.0
|
|
CG
|
L:CGU16
|
5.0
|
20.0
|
1.0
|
|
Calcium binding site 4 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 4 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca204
b:20.8
occ:1.00
|
OE11
|
L:CGU7
|
2.3
|
20.0
|
1.0
|
|
OD1
|
L:ASN2
|
2.3
|
24.6
|
1.0
|
|
OE11
|
L:CGU16
|
2.4
|
21.5
|
1.0
|
|
OE22
|
L:CGU16
|
2.4
|
19.1
|
1.0
|
|
OE22
|
L:CGU26
|
2.4
|
23.5
|
1.0
|
|
OE11
|
L:CGU6
|
2.5
|
22.6
|
1.0
|
|
OE12
|
L:CGU26
|
2.6
|
21.2
|
1.0
|
|
O
|
L:ALA1
|
2.9
|
26.3
|
1.0
|
|
CD1
|
L:CGU16
|
3.2
|
20.7
|
1.0
|
|
CD1
|
L:CGU6
|
3.3
|
24.2
|
1.0
|
|
OE12
|
L:CGU6
|
3.3
|
24.4
|
1.0
|
|
CD1
|
L:CGU7
|
3.4
|
19.6
|
1.0
|
|
CD1
|
L:CGU26
|
3.4
|
23.7
|
1.0
|
|
CD2
|
L:CGU16
|
3.4
|
18.5
|
1.0
|
|
CD2
|
L:CGU26
|
3.5
|
24.1
|
1.0
|
|
CG
|
L:ASN2
|
3.5
|
27.4
|
1.0
|
|
HA
|
L:ASN2
|
3.6
|
37.0
|
1.0
|
|
CA
|
L:CA203
|
3.7
|
19.5
|
1.0
|
|
C
|
L:ALA1
|
3.7
|
26.8
|
1.0
|
|
CA
|
L:CA205
|
3.8
|
25.6
|
1.0
|
|
CG
|
L:CGU16
|
3.8
|
20.0
|
1.0
|
|
HG
|
L:CGU7
|
3.8
|
24.0
|
1.0
|
|
CG
|
L:CGU26
|
4.0
|
23.4
|
1.0
|
|
OE12
|
L:CGU16
|
4.0
|
23.9
|
1.0
|
|
HB2
|
L:CGU16
|
4.1
|
23.9
|
1.0
|
|
HB2
|
L:CGU26
|
4.1
|
24.5
|
1.0
|
|
OE12
|
L:CGU7
|
4.2
|
20.7
|
1.0
|
|
CG
|
L:CGU7
|
4.2
|
20.0
|
1.0
|
|
N
|
L:ALA1
|
4.2
|
27.1
|
1.0
|
|
O
|
L:HOH377
|
4.2
|
18.9
|
1.0
|
|
OE11
|
L:CGU26
|
4.2
|
24.4
|
1.0
|
|
HD21
|
L:ASN2
|
4.3
|
34.1
|
1.0
|
|
CA
|
L:ASN2
|
4.3
|
30.8
|
1.0
|
|
N
|
L:ASN2
|
4.3
|
29.1
|
1.0
|
|
ND2
|
L:ASN2
|
4.4
|
28.4
|
1.0
|
|
CB
|
L:ASN2
|
4.5
|
29.2
|
1.0
|
|
OE21
|
L:CGU16
|
4.5
|
19.8
|
1.0
|
|
CB
|
L:CGU16
|
4.5
|
19.9
|
1.0
|
|
HB2
|
L:CGU6
|
4.5
|
27.9
|
1.0
|
|
OE21
|
L:CGU26
|
4.5
|
26.5
|
1.0
|
|
CA
|
L:ALA1
|
4.5
|
28.6
|
1.0
|
|
CB
|
L:CGU26
|
4.6
|
20.4
|
1.0
|
|
HH21
|
L:ARG15
|
4.7
|
30.6
|
1.0
|
|
CG
|
L:CGU6
|
4.7
|
24.9
|
1.0
|
|
HG
|
L:CGU16
|
4.8
|
24.0
|
1.0
|
|
HA
|
L:CGU7
|
4.8
|
23.0
|
1.0
|
|
HA
|
L:ALA1
|
4.9
|
34.3
|
1.0
|
|
HB3
|
L:ASN2
|
4.9
|
35.1
|
1.0
|
|
CD2
|
L:CGU7
|
4.9
|
22.0
|
1.0
|
|
HG
|
L:CGU26
|
4.9
|
28.1
|
1.0
|
|
OE21
|
L:CGU20
|
4.9
|
26.4
|
1.0
|
|
O
|
L:HOH324
|
5.0
|
18.8
|
1.0
|
|
H
|
L:ASN2
|
5.0
|
35.0
|
1.0
|
|
Calcium binding site 5 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 5 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca205
b:25.6
occ:1.00
|
O
|
L:ALA1
|
2.3
|
26.3
|
1.0
|
|
OE21
|
L:CGU20
|
2.3
|
26.4
|
1.0
|
|
OE21
|
L:CGU6
|
2.4
|
26.7
|
1.0
|
|
OE11
|
L:CGU6
|
2.4
|
22.6
|
1.0
|
|
OE12
|
L:CGU16
|
2.5
|
23.9
|
1.0
|
|
O
|
L:HOH415
|
2.5
|
31.7
|
1.0
|
|
OE11
|
L:CGU16
|
2.5
|
21.5
|
1.0
|
|
OE22
|
L:CGU20
|
2.7
|
30.0
|
1.0
|
|
CD1
|
L:CGU16
|
2.8
|
20.7
|
1.0
|
|
CD2
|
L:CGU20
|
2.9
|
29.1
|
1.0
|
|
CD1
|
L:CGU6
|
3.1
|
24.2
|
1.0
|
|
CD2
|
L:CGU6
|
3.4
|
25.6
|
1.0
|
|
C
|
L:ALA1
|
3.4
|
26.8
|
1.0
|
|
CG
|
L:CGU6
|
3.7
|
24.9
|
1.0
|
|
CA
|
L:CA204
|
3.8
|
20.8
|
1.0
|
|
HE
|
L:ARG15
|
3.9
|
30.8
|
1.0
|
|
HA
|
L:CGU16
|
3.9
|
26.0
|
1.0
|
|
OE12
|
L:CGU6
|
3.9
|
24.4
|
1.0
|
|
HA
|
L:ASN2
|
3.9
|
37.0
|
1.0
|
|
N
|
L:ALA1
|
4.0
|
27.1
|
1.0
|
|
HB3
|
L:ALA1
|
4.0
|
35.9
|
1.0
|
|
O
|
L:HOH343
|
4.1
|
31.5
|
1.0
|
|
HG2
|
L:ARG15
|
4.1
|
31.9
|
1.0
|
|
CA
|
L:ALA1
|
4.2
|
28.6
|
1.0
|
|
HB2
|
L:CGU6
|
4.3
|
27.9
|
1.0
|
|
O
|
L:HOH421
|
4.3
|
56.8
|
1.0
|
|
CG
|
L:CGU16
|
4.3
|
20.0
|
1.0
|
|
H
|
L:ALA3
|
4.4
|
38.9
|
1.0
|
|
CG
|
L:CGU20
|
4.4
|
29.9
|
1.0
|
|
N
|
L:ASN2
|
4.4
|
29.1
|
1.0
|
|
CB
|
L:CGU6
|
4.4
|
23.3
|
1.0
|
|
HB3
|
L:CGU6
|
4.4
|
27.9
|
1.0
|
|
OE22
|
L:CGU6
|
4.6
|
28.1
|
1.0
|
|
O
|
L:HOH431
|
4.6
|
39.8
|
1.0
|
|
CA
|
L:ASN2
|
4.6
|
30.8
|
1.0
|
|
CB
|
L:ALA1
|
4.6
|
29.9
|
1.0
|
|
NE
|
L:ARG15
|
4.7
|
25.7
|
1.0
|
|
HG
|
L:CGU6
|
4.7
|
29.8
|
1.0
|
|
HB3
|
L:CGU20
|
4.7
|
35.6
|
1.0
|
|
OE22
|
L:CGU26
|
4.8
|
23.5
|
1.0
|
|
HG
|
L:CGU16
|
4.8
|
24.0
|
1.0
|
|
CA
|
L:CA206
|
4.8
|
35.3
|
1.0
|
|
O
|
L:ARG15
|
4.8
|
25.9
|
1.0
|
|
CA
|
L:CGU16
|
4.9
|
21.6
|
1.0
|
|
HD2
|
L:ARG15
|
4.9
|
31.6
|
1.0
|
|
HG
|
L:CGU20
|
4.9
|
35.9
|
1.0
|
|
OE22
|
L:CGU16
|
4.9
|
19.1
|
1.0
|
|
N
|
L:ALA3
|
5.0
|
32.4
|
1.0
|
|
HB2
|
L:CGU20
|
5.0
|
35.6
|
1.0
|
|
Calcium binding site 6 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 6 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca206
b:35.3
occ:1.00
|
O
|
L:HOH419
|
2.3
|
42.1
|
1.0
|
|
O
|
L:HOH343
|
2.4
|
31.5
|
1.0
|
|
O
|
L:HOH349
|
2.4
|
30.2
|
1.0
|
|
O
|
L:HOH405
|
2.4
|
40.1
|
1.0
|
|
OE22
|
L:CGU20
|
2.4
|
30.0
|
1.0
|
|
OE12
|
L:CGU20
|
2.4
|
35.9
|
1.0
|
|
HG
|
L:CGU20
|
3.3
|
35.9
|
1.0
|
|
CD2
|
L:CGU20
|
3.3
|
29.1
|
1.0
|
|
CD1
|
L:CGU20
|
3.4
|
33.9
|
1.0
|
|
CG
|
L:CGU20
|
3.6
|
29.9
|
1.0
|
|
HG2
|
L:ARG15
|
4.1
|
31.9
|
1.0
|
|
HG3
|
L:ARG15
|
4.2
|
31.9
|
1.0
|
|
O
|
L:HOH421
|
4.4
|
56.8
|
1.0
|
|
OE21
|
L:CGU20
|
4.5
|
26.4
|
1.0
|
|
OE11
|
L:CGU20
|
4.5
|
35.2
|
1.0
|
|
O
|
L:ARG15
|
4.5
|
25.9
|
1.0
|
|
HB2
|
L:CGU19
|
4.5
|
46.2
|
1.0
|
|
OE21
|
L:CGU6
|
4.5
|
26.7
|
1.0
|
|
CG
|
L:ARG15
|
4.6
|
26.6
|
1.0
|
|
O
|
L:HOH415
|
4.7
|
31.7
|
1.0
|
|
HB3
|
L:CGU19
|
4.8
|
46.2
|
1.0
|
|
OE22
|
L:CGU19
|
4.8
|
41.9
|
1.0
|
|
CA
|
L:CA205
|
4.8
|
25.6
|
1.0
|
|
HD2
|
L:ARG15
|
4.9
|
31.6
|
1.0
|
|
Calcium binding site 7 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 7 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca207
b:44.1
occ:1.00
|
OE12
|
L:CGU19
|
2.2
|
42.9
|
1.0
|
|
OE11
|
L:CGU14
|
2.3
|
42.9
|
1.0
|
|
OE21
|
L:CGU19
|
2.4
|
44.1
|
1.0
|
|
OE22
|
L:CGU14
|
2.6
|
43.4
|
1.0
|
|
CD1
|
L:CGU19
|
3.2
|
43.1
|
1.0
|
|
HG
|
L:CGU14
|
3.2
|
46.9
|
1.0
|
|
CD1
|
L:CGU14
|
3.2
|
41.7
|
1.0
|
|
CD2
|
L:CGU19
|
3.3
|
42.3
|
1.0
|
|
HG
|
L:CGU19
|
3.3
|
49.1
|
1.0
|
|
CD2
|
L:CGU14
|
3.3
|
41.0
|
1.0
|
|
CG
|
L:CGU14
|
3.4
|
39.1
|
1.0
|
|
CG
|
L:CGU19
|
3.5
|
40.9
|
1.0
|
|
OE11
|
L:CGU19
|
4.3
|
44.4
|
1.0
|
|
OE12
|
L:CGU14
|
4.4
|
42.4
|
1.0
|
|
OE22
|
L:CGU19
|
4.4
|
41.9
|
1.0
|
|
OE21
|
L:CGU14
|
4.4
|
39.5
|
1.0
|
|
CB
|
L:CGU19
|
5.0
|
38.5
|
1.0
|
|
CB
|
L:CGU14
|
5.0
|
33.8
|
1.0
|
|
Calcium binding site 8 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 8 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Ca208
b:27.2
occ:1.00
|
OE12
|
L:CGU25
|
2.1
|
26.5
|
1.0
|
|
O
|
L:HOH303
|
2.3
|
40.1
|
1.0
|
|
O
|
L:HOH394
|
2.4
|
33.2
|
1.0
|
|
O
|
L:HOH407
|
2.4
|
36.2
|
1.0
|
|
OE22
|
L:CGU25
|
2.4
|
28.6
|
1.0
|
|
OE11
|
L:CGU29
|
2.4
|
27.9
|
1.0
|
|
OE21
|
L:CGU29
|
2.4
|
24.9
|
1.0
|
|
HH21
|
L:ARG28
|
3.1
|
48.3
|
1.0
|
|
CD1
|
L:CGU25
|
3.2
|
31.0
|
1.0
|
|
CD1
|
L:CGU29
|
3.3
|
26.7
|
1.0
|
|
CD2
|
L:CGU29
|
3.4
|
22.8
|
1.0
|
|
CD2
|
L:CGU25
|
3.4
|
31.8
|
1.0
|
|
HG
|
L:CGU29
|
3.5
|
29.1
|
1.0
|
|
CG
|
L:CGU29
|
3.6
|
24.3
|
1.0
|
|
CG
|
L:CGU25
|
3.7
|
30.2
|
1.0
|
|
NH2
|
L:ARG28
|
3.9
|
40.2
|
1.0
|
|
O
|
L:HOH334
|
4.0
|
29.2
|
1.0
|
|
HH22
|
L:ARG28
|
4.1
|
48.3
|
1.0
|
|
O
|
L:HOH414
|
4.1
|
25.2
|
1.0
|
|
HG
|
L:CGU25
|
4.4
|
36.2
|
1.0
|
|
OE11
|
L:CGU25
|
4.4
|
34.2
|
1.0
|
|
O
|
L:HOH396
|
4.4
|
42.9
|
1.0
|
|
O
|
L:HOH381
|
4.4
|
34.8
|
1.0
|
|
OE12
|
L:CGU29
|
4.5
|
30.5
|
1.0
|
|
CA
|
L:CA202
|
4.5
|
23.0
|
1.0
|
|
OE22
|
L:CGU29
|
4.5
|
21.9
|
1.0
|
|
OE21
|
L:CGU25
|
4.6
|
36.2
|
1.0
|
|
HE
|
L:ARG28
|
4.9
|
46.3
|
1.0
|
|
CZ
|
L:ARG28
|
5.0
|
40.7
|
1.0
|
|
Calcium binding site 9 out
of 9 in 4ylq
Go back to
Calcium Binding Sites List in 4ylq
Calcium binding site 9 out
of 9 in the Crystal Structure of A Fviia-Trypsin Chimera (Ft) in Complex with Soluble 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 A Fviia-Trypsin Chimera (Ft) in Complex with Soluble Tissue Factor within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Ca502
b:13.1
occ:1.00
|
O
|
H:GLU75
|
2.3
|
13.9
|
1.0
|
|
OE1
|
H:GLU80
|
2.3
|
11.8
|
1.0
|
|
OE1
|
H:GLU70
|
2.3
|
11.7
|
1.0
|
|
O
|
H:ASP72
|
2.3
|
12.2
|
1.0
|
|
O
|
H:HOH648
|
2.3
|
13.5
|
1.0
|
|
O
|
H:HOH757
|
2.3
|
12.9
|
1.0
|
|
O
|
H:HOH602
|
2.7
|
35.3
|
1.0
|
|
HA
|
H:HIS76
|
3.2
|
15.7
|
1.0
|
|
CD
|
H:GLU70
|
3.3
|
10.9
|
1.0
|
|
H
|
H:ASP72
|
3.4
|
13.8
|
1.0
|
|
CD
|
H:GLU80
|
3.4
|
11.9
|
1.0
|
|
HG2
|
H:GLU80
|
3.4
|
13.7
|
1.0
|
|
C
|
H:ASP72
|
3.4
|
10.5
|
1.0
|
|
C
|
H:GLU75
|
3.4
|
13.9
|
1.0
|
|
H
|
H:HIS71
|
3.6
|
13.4
|
1.0
|
|
H
|
H:ASP77
|
3.7
|
15.7
|
1.0
|
|
OE2
|
H:GLU70
|
3.7
|
13.4
|
1.0
|
|
CG
|
H:GLU80
|
3.8
|
11.4
|
1.0
|
|
HB3
|
H:ASP72
|
3.9
|
15.8
|
1.0
|
|
N
|
H:ASP72
|
3.9
|
11.5
|
1.0
|
|
HG3
|
H:GLU80
|
3.9
|
13.7
|
1.0
|
|
HA
|
H:LEU73
|
4.0
|
15.9
|
1.0
|
|
CA
|
H:HIS76
|
4.0
|
13.1
|
1.0
|
|
N
|
H:HIS76
|
4.2
|
13.6
|
1.0
|
|
CA
|
H:ASP72
|
4.2
|
12.1
|
1.0
|
|
O
|
H:HOH663
|
4.2
|
13.7
|
1.0
|
|
HA
|
H:GLU70
|
4.3
|
13.1
|
1.0
|
|
N
|
H:ASP77
|
4.3
|
13.1
|
1.0
|
|
N
|
H:GLU75
|
4.4
|
16.2
|
1.0
|
|
N
|
H:LEU73
|
4.4
|
11.0
|
1.0
|
|
OE2
|
H:GLU80
|
4.5
|
12.5
|
1.0
|
|
N
|
H:HIS71
|
4.5
|
11.2
|
1.0
|
|
CA
|
H:GLU75
|
4.5
|
18.1
|
1.0
|
|
O
|
H:HOH715
|
4.5
|
18.4
|
1.0
|
|
CB
|
H:ASP72
|
4.5
|
13.2
|
1.0
|
|
ND1
|
H:HIS76
|
4.6
|
17.1
|
1.0
|
|
CA
|
H:LEU73
|
4.6
|
13.2
|
1.0
|
|
HB2
|
H:GLU75
|
4.6
|
26.3
|
1.0
|
|
C
|
H:HIS76
|
4.7
|
14.3
|
1.0
|
|
CG
|
H:GLU70
|
4.7
|
10.4
|
1.0
|
|
O
|
H:HOH612
|
4.7
|
41.0
|
1.0
|
|
HG3
|
H:GLU70
|
4.8
|
12.4
|
1.0
|
|
HD23
|
H:LEU73
|
4.8
|
16.8
|
1.0
|
|
C
|
H:LEU73
|
4.9
|
14.4
|
1.0
|
|
C
|
H:HIS71
|
4.9
|
10.7
|
1.0
|
|
HB3
|
H:HIS71
|
4.9
|
14.4
|
1.0
|
|
OD1
|
H:ASP77
|
4.9
|
14.4
|
1.0
|
|
H
|
H:HIS76
|
5.0
|
16.4
|
1.0
|
|
Reference:
A.B.Sorensen,
J.J.Madsen,
L.A.Svensson,
A.A.Pedersen,
H.Stergaard,
M.T.Overgaard,
O.H.Olsen,
P.S.Gandhi.
Molecular Basis of Enhanced Activity in Factor Viia-Trypsin Variants Conveys Insights Into Tissue Factor-Mediated Allosteric Regulation of Factor Viia Activity. J.Biol.Chem. V. 291 4671 2016.
ISSN: ESSN 1083-351X
PubMed: 26694616
DOI: 10.1074/JBC.M115.698613
Page generated: Wed Jul 9 03:13:25 2025
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