Atomistry » Chlorine » PDB 4v3k-4wcj » 4w94
Atomistry »
  Chlorine »
    PDB 4v3k-4wcj »
      4w94 »

Chlorine in PDB 4w94: Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2

Enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2

All present enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2, PDB code: 4w94 was solved by H.Tabe, K.Fujita, S.Abe, M.Tsujimoto, T.Kuchimaru, S.Kizaka-Kondo, M.Takano, S.Kitagawa, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.80 / 1.55
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.034, 79.034, 36.920, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.2

Other elements in 4w94:

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 also contains other interesting chemical elements:

Ruthenium (Ru) 9 atoms
Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 (pdb code 4w94). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 9 binding sites of Chlorine where determined in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2, PDB code: 4w94:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Chlorine binding site 1 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 1 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:25.4
occ:1.00
 OH A:TYR23 2.9 19.6 1.0
O A:HOH332 3.3 25.0 1.0
CZ A:TYR23 3.6 17.8 1.0
CE2 A:TYR23 3.6 15.4 1.0
CA A:GLY104 4.1 18.8 1.0
N A:GLY104 4.7 18.9 1.0
O A:ARG21 4.8 23.0 1.0
CE1 A:TYR23 4.8 15.9 1.0
CD2 A:TYR23 4.9 16.2 1.0
O A:HOH314 5.0 27.6 1.0

Chlorine binding site 2 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 2 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:30.7
occ:1.00
 OG A:SER24 2.9 25.2 1.0
N A:GLY26 3.1 19.6 1.0
CB A:SER24 3.4 21.7 1.0
CA A:GLN121 3.5 24.5 1.0
CA A:GLY26 3.5 19.2 1.0
N A:GLN121 3.8 24.2 1.0
CB A:GLN121 3.9 26.1 1.0
C A:VAL120 4.1 23.1 1.0
CG2 A:VAL120 4.2 21.3 1.0
CG A:GLN121 4.2 36.5 1.0
O A:VAL120 4.2 23.2 1.0
CD1 A:ILE124 4.2 30.9 1.0
C A:LEU25 4.3 19.3 1.0
N A:LEU25 4.3 20.4 1.0
C A:SER24 4.4 20.5 1.0
CG1 A:ILE124 4.4 27.4 1.0
C A:GLY26 4.4 17.9 1.0
CA A:SER24 4.5 19.7 1.0
N A:ASN27 4.6 16.9 1.0
C A:GLN121 4.7 23.1 1.0
O A:SER24 4.8 20.4 1.0
CA A:LEU25 4.8 20.6 1.0
CL A:CL211 4.9 26.5 0.5
CB A:VAL120 5.0 20.9 1.0
O A:GLN121 5.0 25.8 1.0

Chlorine binding site 3 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 3 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:27.4
occ:1.00
 N A:THR69 3.1 19.8 1.0
O A:HOH351 3.1 43.1 1.0
O A:HOH383 3.2 20.7 1.0
O A:HOH354 3.2 35.1 1.0
O A:THR69 3.3 22.7 1.0
O A:HOH396 3.4 44.0 1.0
N A:ARG68 3.5 20.3 1.0
OG A:SER72 3.6 26.6 1.0
OD1 A:ASN65 3.6 23.8 1.0
C A:GLY67 3.6 23.3 1.0
CA A:GLY67 3.6 22.3 1.0
N A:GLY67 3.6 19.2 1.0
C A:THR69 3.6 19.9 1.0
CA A:THR69 3.8 20.2 1.0
O A:HOH382 4.0 28.1 1.0
C A:ARG68 4.1 23.2 1.0
CB A:THR69 4.2 19.9 1.0
OD1 A:ASP66 4.2 17.8 1.0
CA A:ARG68 4.3 20.8 1.0
O A:GLY67 4.3 24.5 1.0
N A:PRO70 4.6 21.5 1.0
NA A:NA205 4.6 24.0 1.0
C A:ASP66 4.7 20.0 1.0
O A:HOH309 4.8 27.8 0.5
CG A:ASN65 4.8 20.1 1.0
CB A:SER72 4.8 26.1 1.0
OG1 A:THR69 4.9 18.7 1.0
N A:ASP66 4.9 16.3 1.0

Chlorine binding site 4 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 4 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl207

b:50.8
occ:0.75
 RU A:RU1206 2.5 39.4 0.8
C2 A:RU1206 2.9 35.2 0.8
C1 A:RU1206 3.0 39.5 0.8
O A:HOH301 3.3 38.4 0.8
NE A:ARG14 3.7 52.7 1.0
O2 A:RU1206 3.7 35.1 0.8
O1 A:RU1206 3.7 40.1 0.8
NE2 A:HIS15 3.8 39.7 1.0
NH2 A:ARG14 3.9 58.1 1.0
CZ A:ARG14 4.3 56.1 1.0
CD2 A:HIS15 4.5 32.3 1.0
CE1 A:HIS15 4.5 38.6 1.0
CG A:ARG14 4.7 41.9 1.0
CD A:ARG14 4.7 46.6 1.0
CL A:CL208 4.7 46.3 0.8
CB A:ARG14 5.0 32.6 1.0

Chlorine binding site 5 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 5 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl208

b:46.3
occ:0.75
 RU A:RU1206 2.3 39.4 0.8
NE2 A:HIS15 2.9 39.7 1.0
C1 A:RU1206 2.9 39.5 0.8
O A:HOH301 3.0 38.4 0.8
C2 A:RU1206 3.1 35.2 0.8
N A:ILE88 3.5 24.6 1.0
CE1 A:HIS15 3.6 38.6 1.0
OD2 A:ASP87 3.6 46.8 1.0
CG1 A:ILE88 3.8 24.2 1.0
O1 A:RU1206 3.8 40.1 0.8
O2 A:RU1206 3.9 35.1 0.8
CD2 A:HIS15 3.9 32.3 1.0
CA A:ASP87 4.0 29.5 1.0
CG A:ASP87 4.0 38.1 1.0
C A:ASP87 4.2 27.2 1.0
OD1 A:ASP87 4.5 37.5 1.0
CA A:ILE88 4.5 25.2 1.0
CB A:ILE88 4.5 23.7 1.0
CB A:ASP87 4.6 32.3 1.0
O A:SER86 4.6 30.1 1.0
ND1 A:HIS15 4.7 38.8 1.0
CG2 A:ILE88 4.7 25.4 1.0
CD1 A:ILE88 4.7 26.0 1.0
CL A:CL207 4.7 50.8 0.8
CB A:ALA11 4.8 25.8 1.0
N A:THR89 4.8 24.4 1.0
CG A:HIS15 4.9 35.8 1.0

Chlorine binding site 6 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 6 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl210

b:41.0
occ:0.50
 RU A:RU1209 2.5 25.7 0.5
CL A:CL213 3.0 43.3 0.5
C2 A:RU1209 3.3 25.3 0.5
OD1 A:ASP18 3.4 32.1 1.0
CD1 A:ILE124 3.4 30.9 1.0
RU A:RU1212 3.7 27.9 0.5
CD2 A:LEU25 3.7 25.5 1.0
CL A:CL211 3.7 26.5 0.5
CB A:LEU25 4.0 21.1 1.0
CG A:ASP18 4.1 36.6 1.0
O2 A:RU1209 4.1 28.9 0.5
CD2 A:LEU129 4.2 36.3 1.0
OD2 A:ASP18 4.2 37.6 1.0
C1 A:RU1212 4.2 27.8 0.5
C1 A:RU1209 4.3 24.2 0.5
CG A:LEU25 4.6 20.6 1.0
CG1 A:ILE124 4.9 27.4 1.0
C2 A:RU1212 4.9 28.2 0.5
CG A:LEU129 4.9 41.1 1.0
O1 A:RU1212 5.0 27.8 0.5

Chlorine binding site 7 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 7 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl211

b:26.5
occ:0.50
 RU A:RU1209 2.4 25.7 0.5
C1 A:RU1209 2.7 24.2 0.5
OD1 A:ASP18 2.8 32.1 1.0
C2 A:RU1209 3.3 25.3 0.5
O1 A:RU1209 3.3 33.9 0.5
N A:LEU25 3.4 20.4 1.0
CB A:SER24 3.5 21.7 1.0
CA A:SER24 3.5 19.7 1.0
CL A:CL210 3.7 41.0 0.5
C A:SER24 3.9 20.5 1.0
CG A:ASP18 4.1 36.6 1.0
N A:ASN19 4.2 27.9 1.0
O2 A:RU1209 4.2 28.9 0.5
CB A:ASN19 4.2 29.7 1.0
CB A:LEU25 4.3 21.1 1.0
OD1 A:ASN19 4.5 36.1 1.0
CA A:LEU25 4.5 20.6 1.0
CG A:ASN19 4.6 33.0 1.0
CA A:ASN19 4.7 27.7 1.0
C A:ASP18 4.7 30.9 1.0
OG A:SER24 4.7 25.2 1.0
C2 A:RU1212 4.7 28.2 0.5
CA A:ASP18 4.8 30.2 1.0
N A:SER24 4.8 19.3 1.0
OD2 A:ASP18 4.9 37.6 1.0
O2 A:RU1212 4.9 34.5 0.5
CL A:CL203 4.9 30.7 1.0
RU A:RU1212 4.9 27.9 0.5
O A:HOH303 4.9 37.6 1.0

Chlorine binding site 8 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 8 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl213

b:43.3
occ:0.50
 RU A:RU1212 1.9 27.9 0.5
C1 A:RU1212 2.7 27.8 0.5
CL A:CL210 3.0 41.0 0.5
OD2 A:ASP18 3.0 37.6 1.0
NZ A:LYS13 3.2 51.7 1.0
O A:HOH330 3.3 31.4 1.0
CE A:LYS13 3.4 45.9 1.0
RU A:RU1209 3.4 25.7 0.5
CD A:LYS13 3.6 39.2 1.0
O1 A:RU1212 3.6 27.8 0.5
C2 A:RU1212 3.8 28.2 0.5
RU A:RU220 3.9 29.3 0.3
CG A:ASP18 3.9 36.6 1.0
OD1 A:ASP18 4.1 32.1 1.0
C2 A:RU1209 4.1 25.3 0.5
CB A:LEU129 4.2 41.6 1.0
O A:LEU129 4.4 48.0 1.0
CG A:LYS13 4.7 34.6 1.0
CG A:LEU129 4.7 41.1 1.0
C1 A:RU1209 4.8 24.2 0.5
O2 A:RU1209 4.8 28.9 0.5
CD2 A:LEU129 4.8 36.3 1.0
C A:LEU129 4.9 45.2 1.0
O2 A:RU1212 4.9 34.5 0.5

Chlorine binding site 9 out of 9 in 4w94

Go back to Chlorine Binding Sites List in 4w94
Chlorine binding site 9 out of 9 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl218

b:33.9
occ:0.30
 RU A:RU217 2.4 42.4 0.5
OE1 A:GLN121 2.6 54.8 1.0
OD2 A:ASP119 3.2 40.8 1.0
N A:ALA122 3.5 22.4 1.0
CA A:ALA122 3.7 22.3 1.0
OD1 A:ASP119 3.8 37.6 1.0
CG A:ASP119 3.8 35.9 1.0
CD A:GLN121 3.9 48.2 1.0
CB A:ALA122 3.9 24.9 1.0
C A:GLN121 4.0 23.1 1.0
CB A:GLN121 4.4 26.1 1.0
O A:GLN121 4.4 25.8 1.0
CG A:GLN121 4.7 36.5 1.0
CA A:GLN121 4.7 24.5 1.0
CB A:ARG125 4.8 28.4 1.0
NE2 A:GLN121 4.8 49.9 1.0

Reference:

H.Tabe, K.Fujita, S.Abe, M.Tsujimoto, T.Kuchimaru, S.Kizaka-Kondoh, M.Takano, S.Kitagawa, T.Ueno. Preparation of A Cross-Linked Porous Protein Crystal Containing Ru Carbonyl Complexes As A Co-Releasing Extracellular Scaffold Inorg.Chem. V. 54 215 2015.
ISSN: ISSN 0020-1669
PubMed: 25494847
DOI: 10.1021/IC502159X
Page generated: Fri Jul 26 02:43:20 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy