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Calcium in PDB 9mov: Cryo-Em Structure of Factor Va Bound to Activated Protein C

Enzymatic activity of Cryo-Em Structure of Factor Va Bound to Activated Protein C

All present enzymatic activity of Cryo-Em Structure of Factor Va Bound to Activated Protein C:
3.4.21.69;

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of Factor Va Bound to Activated Protein C (pdb code 9mov). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Cryo-Em Structure of Factor Va Bound to Activated Protein C, PDB code: 9mov:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 1 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca202

b:20.3
occ:1.00
 OE11 C:CGU7 2.3 21.0 1.0
OE22 C:CGU29 2.3 19.0 1.0
OE22 C:CGU7 2.4 21.9 1.0
OE12 C:CGU26 2.4 21.9 1.0
CD2 C:CGU29 2.9 17.3 1.0
OE21 C:CGU29 2.9 22.9 1.0
CD1 C:CGU7 3.1 20.0 1.0
CD1 C:CGU26 3.3 20.6 1.0
CD2 C:CGU7 3.3 21.5 1.0
OE11 C:CGU26 3.5 20.1 1.0
CG C:CGU7 3.6 21.2 1.0
CA C:CA206 3.8 20.5 1.0
CA C:CA205 4.1 32.6 1.0
OE12 C:CGU7 4.1 21.4 1.0
OE22 C:CGU25 4.3 20.9 1.0
CG C:CGU29 4.3 23.2 1.0
CB C:CGU7 4.4 23.1 1.0
OE21 C:CGU7 4.5 25.6 1.0
CD1 C:CGU29 4.7 25.6 1.0
ND2 C:ASN2 4.7 25.7 1.0
CG C:CGU26 4.7 18.4 1.0
OD1 C:ASN2 4.8 22.2 1.0
CD2 C:CGU25 4.8 21.5 1.0
OE12 C:CGU29 5.0 20.1 1.0

Calcium binding site 2 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 2 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca203

b:21.7
occ:1.00
 O C:ALA1 2.3 22.9 1.0
OE21 C:CGU20 2.3 26.1 1.0
OE21 C:CGU16 2.4 21.0 1.0
OE22 C:CGU6 2.4 24.9 1.0
OE11 C:CGU6 2.4 22.4 1.0
OE22 C:CGU16 2.5 21.4 1.0
OE22 C:CGU20 2.7 24.3 1.0
CD2 C:CGU16 2.7 21.4 1.0
CD2 C:CGU20 2.8 21.5 1.0
CD1 C:CGU6 3.1 29.2 1.0
CD2 C:CGU6 3.4 32.9 1.0
C C:ALA1 3.4 21.1 1.0
CG C:CGU6 3.6 26.9 1.0
CA C:CA208 3.7 20.1 1.0
OE12 C:CGU6 3.8 26.9 1.0
N C:ALA1 4.1 19.4 1.0
CG C:CGU16 4.2 21.6 1.0
CA C:ALA1 4.3 18.2 1.0
CG C:CGU20 4.3 23.5 1.0
N C:ASN2 4.3 21.0 1.0
CA C:ASN2 4.4 22.2 1.0
OE21 C:CGU6 4.6 28.6 1.0
CA C:CA207 4.6 36.5 1.0
O C:ARG15 4.7 27.3 1.0
CB C:CGU6 4.7 22.6 1.0
NE C:ARG15 4.7 27.3 1.0
CB C:ALA1 4.7 24.0 1.0
CA C:CGU16 4.8 21.7 1.0
OE22 C:CGU26 4.8 19.9 1.0
N C:SER3 4.9 21.9 1.0
OE12 C:CGU16 4.9 22.4 1.0
OD1 C:ASN2 4.9 22.2 1.0
CB C:CGU16 5.0 19.3 1.0

Calcium binding site 3 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 3 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca204

b:26.7
occ:0.40
 OE22 C:CGU14 2.0 29.5 1.0
OE11 C:CGU14 2.1 32.4 1.0
OE21 C:CGU19 2.1 39.2 1.0
OE11 C:CGU19 2.2 39.1 1.0
CD2 C:CGU14 2.9 26.9 1.0
CD1 C:CGU14 2.9 31.8 1.0
CD2 C:CGU19 3.0 37.9 1.0
CG C:CGU14 3.1 30.3 1.0
CD1 C:CGU19 3.1 38.0 1.0
CG C:CGU19 3.3 36.5 1.0
OE21 C:CGU14 4.1 31.8 1.0
OE12 C:CGU14 4.1 28.5 1.0
OE22 C:CGU19 4.2 30.4 1.0
OE12 C:CGU19 4.3 35.1 1.0
CB C:CGU14 4.6 24.4 1.0
CB C:CGU19 4.8 35.6 1.0
O C:CGU14 4.9 27.8 1.0

Calcium binding site 4 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 4 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca205

b:32.6
occ:1.00
 OE11 C:CGU25 2.1 20.9 1.0
OE22 C:CGU25 2.1 20.9 1.0
OE12 C:CGU29 2.3 20.1 1.0
OE22 C:CGU29 2.6 19.0 1.0
CD1 C:CGU25 3.0 24.6 1.0
CD2 C:CGU25 3.0 21.5 1.0
CD1 C:CGU29 3.1 25.6 1.0
CG C:CGU25 3.2 22.4 1.0
CD2 C:CGU29 3.3 17.3 1.0
CG C:CGU29 3.3 23.2 1.0
CA C:CA202 4.1 20.3 1.0
OE12 C:CGU25 4.1 23.8 1.0
OE11 C:CGU29 4.2 24.4 1.0
OE21 C:CGU25 4.2 25.7 1.0
OE21 C:CGU29 4.5 22.9 1.0
O C:CGU25 4.6 22.7 1.0
CB C:CGU25 4.7 20.7 1.0
CB C:CGU29 4.9 21.5 1.0

Calcium binding site 5 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 5 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca206

b:20.5
occ:1.00
 OE21 C:CGU29 2.3 22.9 1.0
OE11 C:CGU7 2.4 21.0 1.0
OE11 C:CGU26 2.4 20.1 1.0
OE12 C:CGU16 2.5 22.4 1.0
OE12 C:CGU7 2.6 21.4 1.0
CD1 C:CGU7 2.8 20.0 1.0
CD1 C:CGU16 3.4 23.8 1.0
CD1 C:CGU26 3.5 20.6 1.0
CD2 C:CGU29 3.6 17.3 1.0
OE11 C:CGU16 3.6 21.9 1.0
CA C:CA208 3.7 20.1 1.0
CA C:CA202 3.8 20.3 1.0
OE12 C:CGU26 4.0 21.9 1.0
CB C:CGU29 4.3 21.5 1.0
CG C:CGU7 4.3 21.2 1.0
OE22 C:CGU29 4.3 19.0 1.0
CB C:SER11 4.5 25.7 1.0
CG C:CGU29 4.5 23.2 1.0
OE12 C:CGU6 4.5 26.9 1.0
CG C:CGU26 4.7 18.4 1.0
CA C:SER11 4.7 21.6 1.0
CA C:CGU26 4.7 18.8 1.0
O C:CGU26 4.7 22.9 1.0
CB C:CGU26 4.8 17.9 1.0
CG C:CGU16 4.8 21.6 1.0
OD1 C:ASN2 4.9 22.2 1.0
OE11 C:CGU29 4.9 24.4 1.0
OE22 C:CGU26 5.0 19.9 1.0
CB C:CGU7 5.0 23.1 1.0

Calcium binding site 6 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 6 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca207

b:36.5
occ:1.00
 OE22 C:CGU20 2.1 24.3 1.0
OE12 C:CGU20 2.3 28.9 1.0
CD2 C:CGU20 3.1 21.5 1.0
CD1 C:CGU20 3.2 21.6 1.0
CG C:CGU20 3.4 23.5 1.0
O C:ARG15 4.3 27.3 1.0
OE21 C:CGU20 4.3 26.1 1.0
OE22 C:CGU6 4.3 24.9 1.0
OE11 C:CGU20 4.3 29.9 1.0
CG C:ARG15 4.5 28.8 1.0
CA C:CA203 4.6 21.7 1.0
OE22 C:CGU19 4.6 30.4 1.0
CB C:CGU20 4.9 27.9 1.0

Calcium binding site 7 out of 7 in 9mov

Go back to Calcium Binding Sites List in 9mov
Calcium binding site 7 out of 7 in the Cryo-Em Structure of Factor Va Bound to Activated Protein C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cryo-Em Structure of Factor Va Bound to Activated Protein C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca208

b:20.1
occ:1.00
 OE12 C:CGU7 2.3 21.4 1.0
OD1 C:ASN2 2.3 22.2 1.0
OE21 C:CGU16 2.3 21.0 1.0
OE22 C:CGU26 2.4 19.9 1.0
OE12 C:CGU16 2.5 22.4 1.0
OE11 C:CGU6 2.5 22.4 1.0
OE11 C:CGU26 2.6 20.1 1.0
O C:ALA1 2.8 22.9 1.0
CD2 C:CGU16 3.2 21.4 1.0
CD1 C:CGU6 3.3 29.2 1.0
CD1 C:CGU26 3.3 20.6 1.0
CD1 C:CGU7 3.4 20.0 1.0
OE12 C:CGU6 3.4 26.9 1.0
CD2 C:CGU26 3.5 21.2 1.0
CD1 C:CGU16 3.5 23.8 1.0
CG C:ASN2 3.5 25.5 1.0
C C:ALA1 3.6 21.1 1.0
CA C:CA206 3.7 20.5 1.0
CA C:CA203 3.7 21.7 1.0
CG C:CGU16 3.7 21.6 1.0
CG C:CGU26 3.9 18.4 1.0
OE22 C:CGU16 4.1 21.4 1.0
OE11 C:CGU7 4.2 21.0 1.0
N C:ALA1 4.2 19.4 1.0
CA C:ASN2 4.2 22.2 1.0
N C:ASN2 4.2 21.0 1.0
OE12 C:CGU26 4.2 21.9 1.0
CG C:CGU7 4.3 21.2 1.0
ND2 C:ASN2 4.4 25.7 1.0
CB C:ASN2 4.4 21.1 1.0
CA C:ALA1 4.5 18.2 1.0
CB C:CGU16 4.5 19.3 1.0
OE21 C:CGU26 4.6 21.8 1.0
OE11 C:CGU16 4.6 21.9 1.0
CB C:CGU26 4.7 17.9 1.0
CG C:CGU6 4.8 26.9 1.0
CD2 C:CGU7 4.8 21.5 1.0
OE21 C:CGU20 4.8 26.1 1.0

Reference:

B.M.Mohammed, K.Basore, E.Di Cera. Cryo-Em Structure of Coagulation Factor Va Bound to Activated Protein C. Blood 2025.
ISSN: ESSN 1528-0020
PubMed: 40324068
DOI: 10.1182/BLOOD.2025028476
Page generated: Thu Jul 10 10:17:08 2025

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