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Chlorine in PDB 2z19: Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution

Enzymatic activity of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution

All present enzymatic activity of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution:
3.2.1.17;

Protein crystallography data

The structure of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution, PDB code: 2z19 was solved by K.Harata, T.Akiba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.15
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 26.085, 59.055, 30.703, 90.00, 110.63, 90.00
R / Rfree (%) 17.8 / 20.3

Other elements in 2z19:

The structure of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution (pdb code 2z19). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution, PDB code: 2z19:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 2z19

Go back to Chlorine Binding Sites List in 2z19
Chlorine binding site 1 out of 5 in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl131

b:11.1
occ:1.00
 NE A:ARG14 3.1 27.1 1.0
NH2 A:ARG14 3.1 20.3 1.0
NE2 A:HIS15 3.3 12.8 1.0
CZ A:ARG14 3.5 15.5 1.0
CD2 A:HIS15 3.8 11.4 1.0
O A:HOH223 4.0 19.4 1.0
CB A:ALA11 4.1 10.2 1.0
CD A:ARG14 4.1 15.4 1.0
CE1 A:HIS15 4.4 15.9 1.0
CA A:ALA11 4.7 7.5 1.0
OG1 A:THR89 4.7 11.7 1.0
CG A:ARG14 4.7 12.2 1.0
CG1 A:ILE88 4.8 9.3 1.0
NH1 A:ARG14 4.8 17.1 1.0
O A:ALA11 4.9 7.9 1.0

Chlorine binding site 2 out of 5 in 2z19

Go back to Chlorine Binding Sites List in 2z19
Chlorine binding site 2 out of 5 in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl132

b:6.2
occ:0.52
 O A:HOH138 1.1 6.0 0.5
NE1 A:TRP63 3.1 8.9 1.0
O A:HOH175 3.1 12.2 1.0
O A:HOH156 3.3 8.3 1.0
O A:HOH143 3.4 5.6 1.0
CD1 A:TRP63 3.7 7.0 1.0
CB A:ASN59 4.2 7.4 1.0
CE2 A:TRP63 4.3 7.8 1.0
O A:HOH140 4.5 9.1 1.0
CB A:ALA107 4.6 11.5 1.0
O A:ALA107 4.7 9.0 1.0
CZ2 A:TRP63 4.8 12.2 1.0
CG A:ASN59 5.0 4.3 1.0
O A:HOH141 5.0 10.5 1.0

Chlorine binding site 3 out of 5 in 2z19

Go back to Chlorine Binding Sites List in 2z19
Chlorine binding site 3 out of 5 in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl133

b:12.2
occ:0.50
 O A:HOH139 2.5 9.4 0.5
N A:CYS6 3.3 6.2 1.0
N A:GLU7 3.4 6.7 1.0
CA A:GLY4 3.7 8.1 1.0
C A:GLY4 3.7 5.7 1.0
N A:ARG5 3.7 6.3 1.0
CB A:CYS6 3.8 5.4 1.0
CA A:CYS6 3.9 5.7 1.0
CB A:GLU7 4.0 6.8 1.0
O A:HOH178 4.1 12.8 1.0
C A:CYS6 4.1 5.5 1.0
C A:ARG5 4.3 6.4 1.0
CA A:GLU7 4.3 6.6 1.0
O A:GLY4 4.3 6.6 1.0
CA A:ARG5 4.5 8.1 1.0
N A:GLY4 4.8 7.9 1.0
SG A:CYS6 4.9 8.6 1.0

Chlorine binding site 4 out of 5 in 2z19

Go back to Chlorine Binding Sites List in 2z19
Chlorine binding site 4 out of 5 in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl136

b:13.0
occ:1.00
 O A:HOH279 2.7 16.3 0.5
OG A:SER24 3.0 6.3 1.0
N A:GLY26 3.1 3.9 1.0
OE1 A:GLN121 3.2 20.7 0.6
CG A:GLN121 3.4 17.1 0.6
CD A:GLN121 3.4 20.6 0.6
CB A:SER24 3.5 5.0 1.0
CA A:GLY26 3.6 3.2 1.0
CG A:GLN121 3.7 16.3 0.4
CA A:GLN121 3.8 8.7 1.0
N A:LEU25 3.9 5.9 1.0
N A:GLN121 4.1 7.3 1.0
C A:SER24 4.1 4.0 1.0
CB A:GLN121 4.1 11.0 0.4
C A:LEU25 4.2 2.8 1.0
CB A:GLN121 4.2 11.8 0.6
CG2 A:VAL120 4.2 8.8 1.0
NE2 A:GLN121 4.3 25.1 0.6
O A:VAL120 4.3 8.4 1.0
C A:VAL120 4.3 7.1 1.0
CD1 A:ILE124 4.3 20.6 1.0
CG1 A:ILE124 4.5 12.7 1.0
CA A:SER24 4.5 5.0 1.0
O A:SER24 4.5 5.8 1.0
CA A:LEU25 4.5 5.4 1.0
O A:HOH250 4.6 44.8 0.8
C A:GLY26 4.7 3.5 1.0
CB A:LEU25 4.7 4.8 1.0
N A:ASN27 4.8 4.3 1.0
CD A:GLN121 4.9 11.7 0.4
CB A:VAL120 5.0 6.9 1.0

Chlorine binding site 5 out of 5 in 2z19

Go back to Chlorine Binding Sites List in 2z19
Chlorine binding site 5 out of 5 in the Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Phase Transition of Monoclinic Lysozyme Crystal Soaked in A Saturated Nacl Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl137

b:14.5
occ:1.00
 O A:HOH242 3.1 20.6 0.9
N A:SER81 3.2 5.0 1.0
N A:CYS80 3.4 5.8 1.0
O A:ASN65 3.4 6.6 1.0
CB A:SER81 3.7 4.7 0.4
CB A:SER81 3.9 7.4 0.6
C A:CYS80 3.9 4.6 1.0
CA A:CYS80 3.9 4.6 1.0
CB A:PRO79 4.0 6.8 1.0
CA A:ASP66 4.0 6.6 1.0
C A:PRO79 4.0 4.8 1.0
CA A:SER81 4.0 8.1 1.0
CB A:CYS80 4.1 5.1 1.0
OG A:SER81 4.2 8.3 0.6
CA A:PRO79 4.2 5.0 1.0
C A:ASN65 4.4 4.5 1.0
CB A:ASP66 4.4 6.1 1.0
N A:ASP66 4.7 6.8 1.0
C A:ASP66 4.8 7.0 1.0
O A:PRO79 4.9 4.4 1.0
OG A:SER81 4.9 6.4 0.4
O A:ASP66 4.9 9.8 1.0

Reference:

K.Harata, T.Akiba. Effect of A Sodium Ion on the Dehydration-Induced Phase Transition of Monoclinic Lysozyme Crystals. Acta Crystallogr.,Sect.D V. 63 1016 2007.
ISSN: ISSN 0907-4449
PubMed: 17704571
DOI: 10.1107/S0907444907031319
Page generated: Sat Jul 20 15:23:16 2024

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