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Mercury in PDB 1zi5: Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide

Enzymatic activity of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide

All present enzymatic activity of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide:
2.4.1.40;

Protein crystallography data

The structure of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide, PDB code: 1zi5 was solved by J.A.Letts, N.L.Rose, Y.R.Fang, C.H.Barry, S.N.Borisova, N.O.Seto, M.M.Palcic, S.V.Evans, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.55
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 52.550, 149.810, 79.930, 90.00, 90.00, 90.00
R / Rfree (%) 21.1 / 22.6

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide (pdb code 1zi5). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 6 binding sites of Mercury where determined in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide, PDB code: 1zi5:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6;

Mercury binding site 1 out of 6 in 1zi5

Go back to Mercury Binding Sites List in 1zi5
Mercury binding site 1 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg401

b:26.6
occ:0.35
 SG A:CYS284 2.4 26.4 1.0
CB A:CYS284 3.1 23.0 1.0
CD2 A:LEU280 3.1 20.1 1.0
CA A:LEU306 3.9 15.8 1.0
CB A:LEU306 4.0 17.5 1.0
N A:LEU306 4.0 16.1 1.0
O A:ASP302 4.1 22.4 1.0
CG A:LEU280 4.3 20.8 1.0
O A:LEU280 4.4 19.0 1.0
CD1 A:LEU306 4.4 21.3 1.0
CA A:CYS284 4.5 21.9 1.0
C A:HIS305 4.6 16.1 1.0
HG A:HG407 4.7 26.4 0.3
CB A:HIS305 4.8 19.6 1.0
CG A:LEU306 4.8 18.8 1.0
C A:LEU280 4.9 18.2 1.0
CA A:THR281 5.0 20.1 1.0
HG A:HG402 5.0 35.8 0.4
O A:HIS305 5.0 17.2 1.0

Mercury binding site 2 out of 6 in 1zi5

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Mercury binding site 2 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg402

b:35.8
occ:0.40
 SD A:MET288 2.9 38.7 1.0
C A:CYS284 3.7 22.2 1.0
CB A:CYS284 3.7 23.0 1.0
N A:HIS285 3.8 22.0 1.0
CG A:MET288 3.8 31.8 1.0
O A:CYS284 3.8 23.6 1.0
CA A:HIS285 3.9 24.4 1.0
CA A:CYS284 4.4 21.9 1.0
CB A:MET288 4.5 28.2 1.0
CE A:MET288 4.6 38.2 1.0
CB A:HIS285 4.7 25.9 1.0
CB A:ASP302 4.9 30.2 1.0
O A:THR281 4.9 21.6 1.0
HG A:HG401 5.0 26.6 0.3

Mercury binding site 3 out of 6 in 1zi5

Go back to Mercury Binding Sites List in 1zi5
Mercury binding site 3 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg403

b:25.9
occ:0.50
 SG A:CYS209 2.5 30.4 1.0
O A:HOH552 2.6 26.0 1.0
O A:HOH560 2.8 43.2 1.0
O A:VAL210 3.5 16.7 1.0
CB A:CYS209 3.6 19.6 1.0
N A:VAL210 3.6 15.5 1.0
C A:CYS209 3.6 14.7 1.0
C A:VAL210 3.8 15.9 1.0
O A:CYS209 4.0 14.7 1.0
CA A:VAL210 4.0 14.8 1.0
CA A:CYS209 4.1 17.0 1.0
O A:HOH530 4.1 22.7 1.0
CE2 A:PHE270 4.3 19.3 1.0
N A:ASP211 4.6 16.8 1.0
CD1 A:PHE121 4.6 27.4 1.0
O A:GLY267 4.7 21.4 1.0
CE1 A:PHE121 4.7 28.3 1.0
O A:THR119 4.7 17.2 1.0
CZ A:PHE270 4.7 18.2 1.0
OD2 A:ASP211 4.8 22.5 1.0
O A:HOH659 5.0 55.0 1.0

Mercury binding site 4 out of 6 in 1zi5

Go back to Mercury Binding Sites List in 1zi5
Mercury binding site 4 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg404

b:31.3
occ:0.60
 OG1 A:THR119 2.9 21.2 1.0
SG A:CYS209 3.2 30.4 1.0
CB A:CYS209 3.3 19.6 1.0
CB A:THR119 3.9 16.1 1.0
CG2 A:THR119 3.9 18.6 1.0
CA A:CYS209 4.2 17.0 1.0
CG1 A:VAL277 4.3 15.3 1.0
N A:CYS209 4.6 15.7 1.0
CD1 A:LEU207 4.6 21.6 1.0
CB A:LEU207 4.9 18.9 1.0
CE1 A:PHE270 5.0 18.4 1.0
CZ A:PHE270 5.0 18.2 1.0
C A:VAL208 5.0 16.7 1.0

Mercury binding site 5 out of 6 in 1zi5

Go back to Mercury Binding Sites List in 1zi5
Mercury binding site 5 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg405

b:24.8
occ:0.40
 SG A:CYS80 2.7 41.1 1.0
O A:GLY98 2.7 23.0 1.0
CB A:CYS80 3.1 38.0 1.0
CA A:CYS80 3.2 36.1 1.0
O A:HOH649 3.7 35.5 1.0
O A:HOH656 3.7 53.5 1.0
C A:GLY98 3.8 21.0 1.0
O A:CYS80 3.9 35.3 1.0
C A:CYS80 3.9 35.5 1.0
O A:HOH619 4.1 44.0 1.0
CA A:THR99 4.3 17.9 1.0
N A:CYS80 4.4 36.0 1.0
N A:THR99 4.5 18.3 1.0
O A:HOH589 4.5 35.0 1.0
CA A:GLY98 4.8 19.5 1.0
C A:THR99 4.9 18.2 1.0
O A:THR99 5.0 19.0 1.0
N A:ARG81 5.0 34.5 1.0

Mercury binding site 6 out of 6 in 1zi5

Go back to Mercury Binding Sites List in 1zi5
Mercury binding site 6 out of 6 in the Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Crystal Structure of Human N-Acetylgalactosaminyltransferase (Gta) Complexed with H Type I Trisaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg407

b:26.4
occ:0.30
 SG A:CYS284 2.4 26.4 1.0
O A:HOH712 2.7 36.1 1.0
CA A:CYS284 3.2 21.9 1.0
O A:HIS305 3.2 17.2 1.0
N A:CYS284 3.3 21.2 1.0
CB A:CYS284 3.4 23.0 1.0
CB A:TYR309 3.6 15.3 1.0
O A:HOH713 3.6 25.6 1.0
C A:ALA283 3.7 21.8 1.0
C A:HIS305 3.8 16.1 1.0
CB A:HIS305 3.9 19.6 1.0
O A:ALA283 4.0 22.2 1.0
CD1 A:TYR309 4.1 14.9 1.0
CB A:ALA283 4.2 19.5 1.0
CG A:TYR309 4.2 15.6 1.0
CA A:HIS305 4.3 18.1 1.0
N A:TYR309 4.4 15.5 1.0
CA A:TYR309 4.4 15.7 1.0
O A:LEU280 4.4 19.0 1.0
C A:CYS284 4.6 22.2 1.0
CA A:ALA283 4.6 20.2 1.0
N A:LEU306 4.7 16.1 1.0
HG A:HG401 4.7 26.6 0.3
CB A:ALA287 4.7 24.9 1.0
CG A:HIS305 4.8 21.3 1.0
CD2 A:HIS305 4.9 22.4 1.0

Reference:

J.A.Letts, N.L.Rose, Y.R.Fang, C.H.Barry, S.N.Borisova, N.O.Seto, M.M.Palcic, S.V.Evans. Differential Recognition of the Type I and II H Antigen Acceptors By the Human Abo(H) Blood Group A and B Glycosyltransferases. J.Biol.Chem. V. 281 3625 2006.
ISSN: ISSN 0021-9258
PubMed: 16326711
DOI: 10.1074/JBC.M507620200
Page generated: Sun Aug 11 02:09:48 2024

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