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Sodium in PDB 5jxh: Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.

Enzymatic activity of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.

All present enzymatic activity of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.:
3.4.21.75;

Protein crystallography data

The structure of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution., PDB code: 5jxh was solved by S.O.Dahms, M.Arciniega, T.Steinmetzer, R.Huber, M.E.Than, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.14 / 2.00
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 131.790, 131.790, 155.578, 90.00, 90.00, 120.00
R / Rfree (%) 15.7 / 18.5

Other elements in 5jxh:

The structure of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. (pdb code 5jxh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution., PDB code: 5jxh:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 5jxh

Go back to Sodium Binding Sites List in 5jxh
Sodium binding site 1 out of 4 in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na604

b:14.5
occ:1.00
 O A:SER311 2.3 13.2 1.0
O A:HOH830 2.4 14.5 1.0
O A:THR309 2.4 17.2 1.0
O A:THR314 2.4 13.6 1.0
OG1 A:THR314 2.5 13.7 1.0
C A:THR314 3.2 14.8 1.0
C A:SER311 3.4 15.2 1.0
C A:THR309 3.5 16.9 1.0
CB A:THR314 3.7 13.4 1.0
O A:HOH855 3.7 22.7 1.0
CA A:THR314 3.8 16.1 1.0
N A:SER311 3.8 14.0 1.0
N A:THR314 3.9 10.8 1.0
N A:SER316 3.9 14.7 1.0
CB A:SER316 4.0 15.7 1.0
CE A:MET534 4.1 13.3 1.0
CA A:SER311 4.1 14.0 1.0
O A:TYR308 4.2 15.4 1.0
C A:ASN310 4.2 18.1 1.0
N A:LEU315 4.2 12.6 1.0
CA A:THR309 4.3 13.7 1.0
N A:ASN310 4.4 13.4 1.0
O A:SER335 4.4 14.2 1.0
N A:ILE312 4.5 12.0 1.0
CA A:LEU315 4.5 16.1 1.0
CA A:SER316 4.5 15.4 1.0
C A:LEU315 4.5 17.8 1.0
CB A:SER311 4.6 12.8 1.0
CA A:ASN310 4.6 13.1 1.0
CA A:ILE312 4.7 11.1 1.0
O A:ASN310 4.7 16.5 1.0
CG2 A:THR314 4.8 11.8 1.0
C A:ILE312 4.8 15.9 1.0

Sodium binding site 2 out of 4 in 5jxh

Go back to Sodium Binding Sites List in 5jxh
Sodium binding site 2 out of 4 in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na605

b:26.3
occ:1.00
 O A:HOH1135 2.4 29.4 1.0
O A:HOH848 2.4 20.4 1.0
O A:SER279 2.4 18.1 1.0
O A:HOH1155 2.5 34.1 1.0
O A:GLY284 2.6 20.8 1.0
C A:SER279 3.5 20.4 1.0
C A:GLY284 3.5 22.6 1.0
CA A:GLY284 3.8 20.9 1.0
CA A:SER279 3.9 21.4 1.0
O A:HOH1122 4.0 30.3 1.0
O A:VAL278 4.3 16.5 1.0
O A:HOH726 4.4 28.8 1.0
O A:HOH1136 4.4 33.9 1.0
O A:HOH1170 4.5 32.8 1.0
N A:GLN280 4.6 19.9 1.0
CB A:SER279 4.7 17.2 1.0
N A:LEU285 4.8 17.1 1.0
N A:SER279 5.0 17.1 1.0

Sodium binding site 3 out of 4 in 5jxh

Go back to Sodium Binding Sites List in 5jxh
Sodium binding site 3 out of 4 in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na606

b:25.6
occ:0.50
 O A:SER544 2.2 17.3 1.0
O A:HOH781 2.4 18.7 1.0
C A:SER544 3.2 17.2 1.0
CA A:GLY545 3.9 17.7 1.0
N A:GLY545 3.9 18.0 1.0
CB A:PRO508 3.9 16.8 1.0
CB A:SER544 4.1 18.2 1.0
CA A:SER544 4.1 16.9 1.0
OG A:SER544 4.1 30.4 1.0
N A:SER544 4.4 16.2 1.0
O A:ASP542 4.6 16.9 1.0
O A:HOH724 4.8 28.3 1.0
CG A:PRO508 4.8 17.2 1.0
OD1 A:ASP542 5.0 19.6 1.0

Sodium binding site 4 out of 4 in 5jxh

Go back to Sodium Binding Sites List in 5jxh
Sodium binding site 4 out of 4 in the Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Structure the Proprotein Convertase Furin in Complex with Meta- Guanidinomethyl-Phac-Rvr-Amba at 2.0 Angstrom Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na607

b:30.0
occ:1.00
 OD1 A:ASP264 2.3 20.1 1.0
O A:HOH1210 2.4 30.9 1.0
O A:HOH1138 2.4 22.3 1.0
O A:HOH907 2.5 29.2 1.0
O A:HOH898 2.5 23.8 1.0
O A:HOH1012 2.6 22.3 1.0
CG A:ASP264 3.1 20.3 1.0
OD2 A:ASP264 3.7 23.9 1.0
O H:HOH104 3.9 20.5 1.0
CA A:ASP264 4.0 15.1 1.0
N A:GLY265 4.1 17.6 1.0
CB A:ASP264 4.1 15.5 1.0
O A:GLY265 4.2 14.9 1.0
O A:HOH1180 4.2 29.3 1.0
O A:HOH1039 4.5 23.6 1.0
O A:VAL263 4.6 18.8 1.0
C A:ASP264 4.6 16.7 1.0
O A:HOH1175 4.7 43.5 1.0
O A:HOH1218 4.9 30.9 1.0

Reference:

S.O.Dahms, M.Arciniega, T.Steinmetzer, R.Huber, M.E.Than. Structure of the Unliganded Form of the Proprotein Convertase Furin Suggests Activation By A Substrate-Induced Mechanism. Proc.Natl.Acad.Sci.Usa V. 113 11196 2016.
ISSN: ESSN 1091-6490
PubMed: 27647913
DOI: 10.1073/PNAS.1613630113
Page generated: Mon Oct 7 21:58:05 2024

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