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Sodium in PDB 5mrr: Crystal Structure of L1 Protease of Lysobacter Sp. XL1

Protein crystallography data

The structure of Crystal Structure of L1 Protease of Lysobacter Sp. XL1, PDB code: 5mrr was solved by A.Gabdulkhakov, S.Tishchenko, A.Lisov, A.Leontievsky, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.99 / 1.35
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 63.710, 96.480, 118.180, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 19

Other elements in 5mrr:

The structure of Crystal Structure of L1 Protease of Lysobacter Sp. XL1 also contains other interesting chemical elements:

Chlorine (Cl) 11 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of L1 Protease of Lysobacter Sp. XL1 (pdb code 5mrr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of L1 Protease of Lysobacter Sp. XL1, PDB code: 5mrr:

Sodium binding site 1 out of 1 in 5mrr

Go back to Sodium Binding Sites List in 5mrr
Sodium binding site 1 out of 1 in the Crystal Structure of L1 Protease of Lysobacter Sp. XL1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of L1 Protease of Lysobacter Sp. XL1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na204

b:22.7
occ:1.00
O D:HOH329 2.5 24.6 1.0
OG D:SER83 2.6 22.8 1.0
O D:ASN81 2.6 14.2 1.0
O A:HOH393 2.8 24.3 1.0
O D:TYR82 2.9 16.5 1.0
CL D:CL202 3.0 26.4 1.0
C D:TYR82 3.1 13.1 1.0
CB D:TYR82 3.6 10.4 1.0
N D:SER83 3.6 13.9 1.0
CB D:SER83 3.7 18.8 1.0
C D:ASN81 3.7 11.2 1.0
CA D:TYR82 3.8 11.3 1.0
CA D:SER83 4.1 15.2 1.0
CB D:TYR110 4.1 10.8 1.0
N D:TYR82 4.2 10.4 1.0
C3 A:GOL206 4.2 29.8 1.0
O2 A:GOL206 4.5 30.1 1.0
CD2 D:TYR110 4.6 14.8 1.0
O3 A:GOL206 4.7 29.5 1.0
CG D:TYR110 4.7 12.3 1.0
N D:TYR110 4.9 8.8 1.0
C2 A:GOL206 4.9 30.6 1.0
O D:HOH337 4.9 16.9 1.0
O D:TYR110 5.0 10.9 1.0

Reference:

A.Gabdulkhakov, S.Tishchenko, A.Lisov, A.Leontievsky. Crystal Structure of L1 Protease of Lysobacter Sp. XL1 To Be Published.
Page generated: Tue Dec 15 11:19:06 2020

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