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Ytterbium in PDB 4l2l: Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine

Enzymatic activity of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine

All present enzymatic activity of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine:
3.3.2.6;

Protein crystallography data

The structure of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine, PDB code: 4l2l was solved by A.Stsiapanava, A.Rinaldo-Matthis, J.Z.Haeggstrom, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.18 / 1.65
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 66.171, 76.701, 67.215, 90.00, 98.43, 90.00
R / Rfree (%) 14.2 / 17.5

Other elements in 4l2l:

The structure of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Ytterbium Binding Sites:

The binding sites of Ytterbium atom in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine (pdb code 4l2l). This binding sites where shown within 5.0 Angstroms radius around Ytterbium atom.
In total 6 binding sites of Ytterbium where determined in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine, PDB code: 4l2l:
Jump to Ytterbium binding site number: 1; 2; 3; 4; 5; 6;

Ytterbium binding site 1 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 1 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 1 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb703

b:10.2
occ:0.50
 O A:ACT708 2.2 10.0 1.0
OD2 A:ASP47 2.4 13.0 1.0
OD1 A:ASP47 2.5 11.8 1.0
OXT A:ACT708 2.6 11.1 1.0
C A:ACT708 2.6 11.2 1.0
O A:HOH913 2.6 2.3 0.5
CG A:ASP47 2.8 11.3 1.0
CH3 A:ACT708 4.0 12.5 1.0
O A:HOH852 4.2 9.1 1.0
CB A:ASP47 4.3 11.5 1.0
N A:ASN48 4.3 10.1 1.0
OG A:SER95 4.4 14.3 0.5
CB A:ASN48 4.6 10.0 1.0
O A:HOH1111 4.8 22.4 1.0
CA A:ASN48 4.9 11.0 1.0
O A:HOH976 4.9 16.3 1.0
CA A:ASP47 4.9 11.7 1.0

Ytterbium binding site 2 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 2 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 2 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb704

b:31.4
occ:0.40
 YB A:YB704 0.0 31.4 0.4
OD2 A:ASP175 2.1 26.0 1.0
YB A:YB704 2.6 27.8 0.3
CG A:ASP175 3.0 25.7 1.0
OD1 A:ASP175 3.4 31.5 1.0
CB A:ASP175 4.4 17.4 1.0
CA A:ASP175 4.7 13.8 1.0

Ytterbium binding site 3 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 3 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 3 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb704

b:27.8
occ:0.30
 YB A:YB704 0.0 27.8 0.3
YB A:YB704 2.6 31.4 0.4
OD2 A:ASP175 2.8 26.0 1.0
CG A:ASP175 3.7 25.7 1.0
O A:ASP175 3.9 22.3 1.0
OD1 A:ASP175 4.2 31.5 1.0
C A:ASP175 4.3 15.8 1.0
CA A:ASP175 4.5 13.8 1.0
CB A:ASP175 4.7 17.4 1.0

Ytterbium binding site 4 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 4 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 4 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb705

b:29.0
occ:0.30
 YB A:YB705 0.0 29.0 0.3
YB A:YB705 1.9 58.6 0.3
OD1 A:ASP426 2.5 17.8 1.0
OD2 A:ASP426 2.6 17.6 1.0
CG A:ASP426 2.9 14.8 1.0
O A:HOH1261 3.1 22.5 0.7
O A:ASP422 4.3 8.9 1.0
CB A:ASP426 4.4 12.0 1.0
CB A:ASP422 4.4 11.9 1.0
O A:HOH1256 4.6 28.6 1.0
CG A:ASP422 4.7 18.4 1.0
OD2 A:ASP422 4.8 25.9 1.0
C A:ASP422 4.9 9.6 1.0

Ytterbium binding site 5 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 5 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 5 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb705

b:58.6
occ:0.30
 YB A:YB705 0.0 58.6 0.3
YB A:YB705 1.9 29.0 0.3
O A:HOH1261 2.1 22.5 0.7
OD1 A:ASP426 2.3 17.8 1.0
O A:HOH1256 3.1 28.6 1.0
CG A:ASP426 3.3 14.8 1.0
OD2 A:ASP426 3.8 17.6 1.0
OD2 A:ASP422 4.5 25.9 1.0
O A:ASP422 4.6 8.9 1.0
CB A:ASP426 4.7 12.0 1.0
CG A:ASP422 4.9 18.4 1.0
CB A:ASP422 5.0 11.9 1.0
CA A:ASP426 5.0 10.3 1.0

Ytterbium binding site 6 out of 6 in 4l2l

Go back to Ytterbium Binding Sites List in 4l2l
Ytterbium binding site 6 out of 6 in the Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 6 of Human Leukotriene A4 Hydrolase Complexed with Ligand 4-(4- Benzylphenyl)Thiazol-2-Amine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb706

b:7.2
occ:0.50
 O A:HOH825 2.3 8.2 1.0
O A:HOH868 2.4 12.8 1.0
OD2 A:ASP481 2.6 10.1 1.0
OD1 A:ASP481 2.7 7.9 1.0
CG A:ASP481 3.1 8.8 1.0
OD1 A:ASP482 4.4 12.3 1.0
OD2 A:ASP482 4.4 11.8 1.0
CB A:ASP481 4.5 8.8 1.0
CG A:ASP482 4.8 11.0 1.0
CB A:LYS479 4.8 9.9 1.0
CG A:LYS479 4.8 12.9 1.0

Reference:

A.Stsiapanava, U.Olsson, M.Wan, T.Kleinschmidt, D.Rutishauser, R.A.Zubarev, B.Samuelsson, A.Rinaldo-Matthis, J.Z.Haeggstrom. Binding of Pro-Gly-Pro at the Active Site of Leukotriene A4 Hydrolase/Aminopeptidase and Development of An Epoxide Hydrolase Selective Inhibitor. Proc.Natl.Acad.Sci.Usa V. 111 4227 2014.
ISSN: ISSN 0027-8424
PubMed: 24591641
DOI: 10.1073/PNAS.1402136111
Page generated: Sat Oct 12 21:10:23 2024

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