Atomistry » Mercury » PDB 3kbc-3wa8 » 3ldi
Atomistry »
  Mercury »
    PDB 3kbc-3wa8 »
      3ldi »

Mercury in PDB 3ldi: Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding

Protein crystallography data

The structure of Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding, PDB code: 3ldi was solved by I.S.Yang, T.G.Kim, B.S.Park, K.H.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.77 / 2.20
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 119.080, 119.080, 110.794, 90.00, 90.00, 120.00
R / Rfree (%) 20.6 / 23.4

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding (pdb code 3ldi). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 5 binding sites of Mercury where determined in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding, PDB code: 3ldi:
Jump to Mercury binding site number: 1; 2; 3; 4; 5;

Mercury binding site 1 out of 5 in 3ldi

Go back to Mercury Binding Sites List in 3ldi
Mercury binding site 1 out of 5 in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding


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 Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg63

b:29.3
occ:0.50
O A:CYS30 2.8 17.4 1.0
C A:CYS30 4.0 17.6 1.0
CD1 A:LEU29 4.1 27.7 1.0
CA A:GLN31 4.3 16.4 1.0
CG A:LEU29 4.4 26.0 1.0
CG A:GLN31 4.5 16.7 1.0
N A:GLN31 4.6 16.8 1.0
O E:HOH71 4.7 31.6 1.0
O E:HOH102 4.8 22.5 1.0
CB A:GLN31 4.9 16.4 1.0

Mercury binding site 2 out of 5 in 3ldi

Go back to Mercury Binding Sites List in 3ldi
Mercury binding site 2 out of 5 in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding


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 Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg64

b:38.7
occ:0.50
O B:CYS30 2.8 14.5 1.0
O B:HOH92 3.9 21.1 1.0
C B:CYS30 4.0 14.6 1.0
CD1 B:LEU29 4.0 18.6 1.0
CA B:GLN31 4.2 14.3 1.0
CG B:GLN31 4.3 13.8 1.0
N B:GLN31 4.5 14.2 1.0
CD2 B:LEU29 4.5 17.7 1.0
CB B:GLN31 4.7 14.1 1.0
CG B:LEU29 4.8 18.1 1.0

Mercury binding site 3 out of 5 in 3ldi

Go back to Mercury Binding Sites List in 3ldi
Mercury binding site 3 out of 5 in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding


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 Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg62

b:31.8
occ:0.50
O B:HOH84 2.8 21.8 1.0
O C:CYS30 2.9 22.5 1.0
C C:CYS30 4.1 22.6 1.0
CA C:GLN31 4.3 21.1 1.0
CG C:GLN31 4.4 21.2 1.0
CD1 C:LEU29 4.5 30.5 1.0
O C:HOH90 4.6 26.3 1.0
N C:GLN31 4.7 21.8 1.0
CD2 C:LEU29 4.8 29.6 1.0
CB C:GLN31 4.9 21.2 1.0

Mercury binding site 4 out of 5 in 3ldi

Go back to Mercury Binding Sites List in 3ldi
Mercury binding site 4 out of 5 in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding


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 Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Hg63

b:31.4
occ:0.50
O D:CYS30 2.9 17.7 1.0
CD1 D:LEU29 3.6 25.5 1.0
C D:CYS30 4.0 17.6 1.0
CA D:GLN31 4.2 17.1 1.0
CG D:GLN31 4.2 17.9 1.0
O C:HOH76 4.4 27.5 1.0
N D:GLN31 4.6 17.1 1.0
CB D:GLN31 4.7 17.1 1.0
O C:HOH65 4.8 25.9 1.0
CG D:LEU29 5.0 23.4 1.0

Mercury binding site 5 out of 5 in 3ldi

Go back to Mercury Binding Sites List in 3ldi
Mercury binding site 5 out of 5 in the Crystal Structure of Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding


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 Aprotinin in Complex with Sucrose Octasulfate: Unusual Interactions and Implication For Heparin Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Hg63

b:12.7
occ:0.50
O E:CYS30 2.8 15.9 1.0
O E:HOH100 3.0 27.3 1.0
C E:CYS30 4.0 16.1 1.0
CA E:GLN31 4.1 15.2 1.0
CG E:GLN31 4.3 15.8 1.0
N E:GLN31 4.5 15.6 1.0
CB E:GLN31 4.7 15.0 1.0

Reference:

I.S.Yang, T.G.Kim, B.S.Park, K.J.Cho, J.-H.Lee, Y.Park, K.H.Kim. Crystal Structures of Aprotinin and Its Complex with Sucrose Octasulfate Reveal Multiple Modes of Interactions with Implications For Heparin Binding Biochem.Biophys.Res.Commun. V. 397 429 2010.
ISSN: ISSN 0006-291X
PubMed: 20529698
DOI: 10.1016/J.BBRC.2010.05.113
Page generated: Wed Oct 28 18:42:49 2020

Last articles

Xe in 6AYK
Xe in 6QII
Xe in 6ASM
Xe in 5NSW
Xe in 6FY9
Xe in 5O1K
Xe in 5O27
Xe in 5M69
Xe in 5KPU
Xe in 5I63
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy