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Chlorine in PDB 5ne0: Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes

Enzymatic activity of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes

All present enzymatic activity of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes:
3.2.1.17;

Protein crystallography data

The structure of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes, PDB code: 5ne0 was solved by I.Martiel, N.Opara, S.A.Arnold, T.Braun, H.Stahlberg, M.Makita, C.David, C.Padeste, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.75 / 1.57
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.500, 79.500, 37.810, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 18.4

Other elements in 5ne0:

The structure of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes (pdb code 5ne0). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes, PDB code: 5ne0:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 5ne0

Go back to Chlorine Binding Sites List in 5ne0
Chlorine binding site 1 out of 4 in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:33.5
occ:1.00
 OH A:TYR23 3.0 23.3 1.0
CZ A:TYR23 3.7 24.8 1.0
CE1 A:TYR23 3.7 22.3 1.0
CA A:GLY104 4.1 21.4 1.0
O A:HOH314 4.6 39.9 1.0
O A:ARG21 4.7 29.6 1.0
N A:GLY104 4.7 23.9 1.0
CE2 A:TYR23 4.9 21.2 1.0
CD1 A:TYR23 5.0 21.8 1.0

Chlorine binding site 2 out of 4 in 5ne0

Go back to Chlorine Binding Sites List in 5ne0
Chlorine binding site 2 out of 4 in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:43.4
occ:1.00
 OG A:SER24 2.9 30.7 1.0
N A:GLY26 3.1 21.7 1.0
CB A:SER24 3.4 29.6 1.0
CA A:GLY26 3.5 21.2 1.0
CA A:GLN121 3.8 27.9 1.0
CD1 A:ILE124 3.9 44.2 1.0
N A:LEU25 4.0 24.0 1.0
CB A:GLN121 4.1 33.9 1.0
N A:GLN121 4.1 31.6 1.0
C A:SER24 4.2 25.0 1.0
C A:LEU25 4.3 25.9 1.0
CG1 A:ILE124 4.4 31.8 1.0
O A:VAL120 4.4 29.4 1.0
CA A:SER24 4.4 26.0 1.0
C A:VAL120 4.4 31.0 1.0
CG2 A:VAL120 4.5 29.8 1.0
CA A:LEU25 4.6 23.4 1.0
C A:GLY26 4.6 20.8 1.0
O A:SER24 4.7 25.1 1.0
N A:ASN27 4.8 18.8 1.0
CB A:LEU25 4.9 25.6 1.0
C A:GLN121 5.0 29.6 1.0

Chlorine binding site 3 out of 4 in 5ne0

Go back to Chlorine Binding Sites List in 5ne0
Chlorine binding site 3 out of 4 in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:35.1
occ:0.56
 CL A:CL203 0.0 35.1 0.6
CL A:CL203 1.9 47.0 0.4
N A:ASN59 3.0 21.4 1.0
CB A:ASN59 3.5 27.2 1.0
CA A:ILE58 3.6 19.7 1.0
CD1 A:TRP63 3.6 25.8 1.0
O A:HOH365 3.7 52.5 1.0
O A:GLN57 3.7 23.8 1.0
C A:ILE58 3.8 23.4 1.0
NE1 A:TRP63 3.8 26.1 1.0
CA A:ASN59 3.9 22.9 1.0
CD1 A:ILE98 4.4 25.2 1.0
CB A:ILE58 4.5 21.6 1.0
CG2 A:ILE58 4.5 25.9 1.0
C A:GLN57 4.5 20.6 1.0
N A:ILE58 4.5 19.6 1.0
CG1 A:ILE58 4.7 24.9 1.0
CG A:TRP63 4.7 25.1 1.0
O A:ASN59 4.9 25.6 1.0
CG A:ASN59 4.9 33.1 1.0
C A:ASN59 5.0 23.4 1.0
O A:ILE58 5.0 21.5 1.0

Chlorine binding site 4 out of 4 in 5ne0

Go back to Chlorine Binding Sites List in 5ne0
Chlorine binding site 4 out of 4 in the Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Room Temperature in-Situ Structure of Hen Egg-White Lysozyme From Crystals Enclosed Between Ultrathin Silicon Nitride Membranes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:47.0
occ:0.44
 CL A:CL203 0.0 47.0 0.4
CL A:CL203 1.9 35.1 0.6
O A:ALA107 3.6 28.1 1.0
NE1 A:TRP108 3.8 22.3 1.0
O A:HOH365 3.8 52.5 1.0
CD1 A:TRP108 4.0 21.9 1.0
CE2 A:TRP108 4.1 22.5 1.0
O A:GLN57 4.2 23.8 1.0
C A:ALA107 4.2 28.4 1.0
CG A:TRP108 4.4 20.4 1.0
O A:HOH335 4.4 36.8 1.0
CD2 A:TRP108 4.5 19.5 1.0
CB A:ALA107 4.5 24.4 1.0
CG2 A:ILE98 4.6 26.4 1.0
CD1 A:ILE98 4.6 25.2 1.0
CA A:ILE58 4.7 19.7 1.0
CZ2 A:TRP108 4.7 23.3 1.0
N A:TRP108 4.8 20.6 1.0
NE1 A:TRP63 4.8 26.1 1.0
CA A:TRP108 4.8 19.3 1.0
N A:ASN59 4.8 21.4 1.0
O A:LEU56 5.0 23.0 1.0

Reference:

N.Opara, I.Martiel, S.A.Arnold, T.Braun, H.Stahlberg, M.Makita, C.David, C.Padeste. Direct Protein Crystallization on Ultrathin Membranes For Diffraction Measurements at X-Ray Free-Electron Lasers. J.Appl.Crystallogr. V. 50 909 2017.
ISSN: ISSN 0021-8898
DOI: 10.1107/S1600576717005799
Page generated: Fri Jul 26 13:31:35 2024

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