Chlorine in PDB 8p1c: Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv

Enzymatic activity of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv

All present enzymatic activity of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv:
3.2.1.17;

Protein crystallography data

The structure of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv, PDB code: 8p1c was solved by J.Nan, F.Leonarski, A.Furrer, F.Dworkowski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 12.00 / 1.58
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.06, 79.06, 38.27, 90, 90, 90
R / Rfree (%) 16.1 / 19.7

Other elements in 8p1c:

The structure of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv (pdb code 8p1c). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv, PDB code: 8p1c:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 8p1c

Go back to Chlorine Binding Sites List in 8p1c
Chlorine binding site 1 out of 3 in the Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:30.4
occ:1.00
 ND2 A:ASN113 3.2 24.5 1.0
CB A:ASN113 3.6 19.3 1.0
CG A:ASN113 3.9 25.9 1.0
CA A:ALA110 3.9 20.9 1.0
O A:VAL109 4.0 20.4 1.0
CG2 A:VAL109 4.1 26.3 1.0
C A:VAL109 4.3 16.4 1.0
N A:ALA110 4.3 19.9 1.0
CD A:ARG114 4.4 23.7 1.0
CB A:ALA110 4.4 20.9 1.0
CG A:ARG114 4.5 26.0 1.0
CA A:ASN113 4.9 18.9 1.0
C A:ALA110 5.0 19.8 1.0
CG1 A:VAL109 5.0 34.4 1.0
CB A:VAL109 5.0 24.3 1.0

Chlorine binding site 2 out of 3 in 8p1c

Go back to Chlorine Binding Sites List in 8p1c
Chlorine binding site 2 out of 3 in the Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:37.9
occ:1.00
 N A:GLY26 3.0 20.6 1.0
OG A:SER24 3.0 26.8 1.0
O A:HOH397 3.1 46.2 1.0
O A:HOH385 3.2 51.2 1.0
CB A:SER24 3.5 23.5 1.0
CA A:GLY26 3.5 18.4 1.0
CA A:GLN121 3.6 28.5 1.0
CB A:GLN121 3.7 35.5 1.0
N A:LEU25 4.0 21.0 1.0
CD1 A:ILE124 4.0 42.0 1.0
N A:GLN121 4.1 27.7 1.0
C A:SER24 4.2 25.0 1.0
C A:LEU25 4.2 22.5 1.0
CG A:GLN121 4.3 50.3 1.0
CG1 A:ILE124 4.3 31.4 1.0
O A:VAL120 4.4 27.4 1.0
C A:VAL120 4.4 30.5 1.0
CG2 A:VAL120 4.4 25.3 1.0
CA A:SER24 4.5 22.1 1.0
CA A:LEU25 4.6 21.2 1.0
C A:GLY26 4.6 22.8 1.0
O A:SER24 4.7 22.7 1.0
N A:ASN27 4.7 19.8 1.0
C A:GLN121 4.8 26.9 1.0
CB A:LEU25 4.9 26.2 1.0

Chlorine binding site 3 out of 3 in 8p1c

Go back to Chlorine Binding Sites List in 8p1c
Chlorine binding site 3 out of 3 in the Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Lysozyme Structure Solved From Serial Crystallography Data Collected at 1 Khz with Jungfrau Detector at Maxiv within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:62.8
occ:1.00
 O A:HOH343 2.9 52.7 1.0
N A:ILE88 3.3 26.6 1.0
O A:HOH376 3.5 46.1 1.0
O A:HOH301 3.7 55.6 1.0
CG1 A:ILE88 3.7 24.0 1.0
OD1 A:ASP87 3.8 44.0 1.0
CA A:ASP87 3.8 27.5 1.0
O A:SER86 3.9 35.5 1.0
C A:ASP87 4.0 26.1 1.0
CZ A:PHE3 4.2 32.6 1.0
CG2 A:ILE88 4.2 24.7 1.0
CB A:ILE88 4.3 22.9 1.0
CA A:ILE88 4.3 25.6 1.0
CE1 A:HIS15 4.4 37.5 1.0
CB A:ALA11 4.4 28.9 1.0
CB A:ASP87 4.6 31.4 1.0
CD1 A:ILE88 4.6 29.9 1.0
CG A:ASP87 4.6 42.1 1.0
CE2 A:PHE3 4.7 29.4 1.0
C A:SER86 4.7 29.7 1.0
N A:ASP87 4.7 28.8 1.0
ND1 A:HIS15 5.0 35.1 1.0

Reference:

F.Leonarski, J.Nan, Z.Matej, Q.Bertrand, A.Furrer, I.Gorgisyan, M.Bjelcic, M.Kepa, H.Glover, V.Hinger, T.Eriksson, A.Cehovin, M.Eguiraun, P.Gasparotto, A.Mozzanica, T.Weinert, A.Gonzalez, J.Standfuss, M.Wang, T.Ursby, F.Dworkowski. Kilohertz Serial Crystallography with the Jungfrau Detector at A 4TH Generation Synchrotron Source To Be Published.
Page generated: Tue Jul 30 11:23:36 2024

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