Atomistry » Calcium » PDB 2bw7-2c4x » 2c10
Atomistry »
  Calcium »
    PDB 2bw7-2c4x »
      2c10 »

Calcium in PDB 2c10: The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase

Enzymatic activity of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase

All present enzymatic activity of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase:
1.4.3.6;

Protein crystallography data

The structure of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase, PDB code: 2c10 was solved by E.Jakobsson, G.J.Kleywegt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.50
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 130.236, 130.236, 221.529, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 25.2

Other elements in 2c10:

The structure of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase also contains other interesting chemical elements:

Copper (Cu) 4 atoms
Chlorine (Cl) 8 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase (pdb code 2c10). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase, PDB code: 2c10:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 1 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1771

b:29.2
occ:1.00
 O A:LEU530 2.3 32.2 1.0
OD1 A:ASP529 2.3 35.2 1.0
OD1 A:ASP531 2.3 34.3 1.0
O A:LEU674 2.4 29.4 1.0
O A:HOH2105 2.5 24.4 1.0
OD1 A:ASP673 2.5 30.5 1.0
C A:LEU530 3.3 32.7 1.0
C A:LEU674 3.5 29.4 1.0
N A:LEU674 3.5 29.8 1.0
CG A:ASP531 3.6 34.4 1.0
CG A:ASP529 3.6 34.0 1.0
CG A:ASP673 3.7 30.4 1.0
NZ A:LYS106 3.9 28.9 1.0
CA A:ASP531 3.9 33.9 1.0
N A:ASP531 3.9 33.3 1.0
CA A:LEU674 4.1 29.1 1.0
N A:LEU530 4.2 32.8 1.0
C A:ASP529 4.2 32.4 1.0
C A:ASP673 4.2 30.5 1.0
OD2 A:ASP529 4.3 33.7 1.0
CB A:ASP531 4.3 34.0 1.0
CA A:LEU530 4.4 32.6 1.0
OD2 A:ASP673 4.4 30.3 1.0
CA A:ASP673 4.5 30.8 1.0
CA A:ASP529 4.5 32.1 1.0
OD2 A:ASP531 4.5 35.1 1.0
O A:LEU535 4.5 34.7 1.0
OD1 A:ASN537 4.6 31.3 1.0
O A:ASP529 4.6 32.5 1.0
N A:VAL675 4.6 29.6 1.0
CB A:ASP529 4.7 32.4 1.0
CB A:ASP673 4.7 30.6 1.0
CB A:LEU674 4.8 28.3 1.0

Calcium binding site 2 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 2 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1773

b:40.8
occ:1.00
 O A:PHE663 2.3 36.7 1.0
OD1 A:ASN665 2.4 39.4 1.0
OE2 A:GLU572 2.5 37.4 1.0
O A:HOH2125 2.5 24.5 1.0
OE1 A:GLU572 2.6 37.9 1.0
OE1 A:GLU667 2.6 37.7 1.0
CD A:GLU572 2.9 38.1 1.0
CD A:GLU667 3.5 38.9 1.0
C A:PHE663 3.5 36.4 1.0
CG A:ASN665 3.5 39.6 1.0
CG A:GLU667 3.9 38.6 1.0
ND2 A:ASN665 4.1 40.7 1.0
NZ A:LYS638 4.1 34.9 1.0
N A:ASN665 4.1 38.3 1.0
CA A:PHE663 4.3 36.3 1.0
OE2 A:GLU667 4.4 38.5 1.0
CB A:GLU667 4.4 38.4 1.0
N A:ILE664 4.4 36.5 1.0
CG A:GLU572 4.4 38.2 1.0
CA A:ILE664 4.5 36.4 1.0
OE1 A:GLU641 4.6 38.1 1.0
CE A:LYS638 4.6 35.1 1.0
OE2 A:GLU641 4.6 38.2 1.0
CB A:THR635 4.6 31.6 1.0
C A:ILE664 4.8 37.3 1.0
CB A:ASN665 4.8 39.2 1.0
N A:GLN636 4.8 32.4 1.0
CB A:PHE663 4.9 36.1 1.0
CG2 A:THR635 4.9 31.9 1.0
CA A:ASN665 5.0 39.1 1.0

Calcium binding site 3 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 3 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1775

b:27.3
occ:1.00
 OD1 B:ASP673 2.2 28.4 1.0
O B:LEU674 2.3 28.8 1.0
O B:HOH2095 2.3 24.6 1.0
O B:LEU530 2.3 29.5 1.0
OD1 B:ASP529 2.4 32.4 1.0
OD1 B:ASP531 2.4 30.9 1.0
N B:LEU674 3.3 28.2 1.0
C B:LEU674 3.4 28.7 1.0
C B:LEU530 3.4 29.4 1.0
CG B:ASP673 3.5 28.4 1.0
CG B:ASP529 3.6 30.6 1.0
CG B:ASP531 3.6 30.6 1.0
NZ B:LYS106 3.8 24.3 1.0
CA B:LEU674 3.9 28.1 1.0
C B:ASP673 4.0 28.1 1.0
N B:ASP531 4.1 29.4 1.0
CA B:ASP531 4.1 29.9 1.0
C B:ASP529 4.2 29.7 1.0
CA B:ASP673 4.2 28.1 1.0
N B:LEU530 4.2 29.7 1.0
OD2 B:ASP673 4.3 27.8 1.0
OD2 B:ASP529 4.3 31.0 1.0
O B:LEU535 4.3 31.1 1.0
CA B:LEU530 4.4 29.3 1.0
O B:ASP529 4.5 29.8 1.0
CB B:ASP531 4.5 29.7 1.0
CB B:ASP673 4.5 27.9 1.0
N B:VAL675 4.5 28.9 1.0
OD2 B:ASP531 4.5 31.7 1.0
CA B:ASP529 4.5 29.7 1.0
OD1 B:ASN537 4.6 26.7 1.0
CB B:LEU674 4.7 27.8 1.0
CB B:ASP529 4.7 29.7 1.0
O B:ASP673 4.9 28.4 1.0
CA B:VAL675 4.9 29.2 1.0

Calcium binding site 4 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 4 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1777

b:31.9
occ:1.00
 O B:PHE663 2.3 34.1 1.0
O B:HOH2120 2.3 32.7 1.0
OD1 B:ASN665 2.3 36.9 1.0
OE1 B:GLU667 2.3 39.4 1.0
O B:HOH2117 2.4 16.0 1.0
OE2 B:GLU572 2.6 36.8 1.0
OE1 B:GLU572 2.7 35.5 1.0
CD B:GLU572 3.0 35.1 1.0
CG B:ASN665 3.4 39.1 1.0
C B:PHE663 3.4 34.0 1.0
CD B:GLU667 3.5 38.9 1.0
ND2 B:ASN665 3.9 40.5 1.0
N B:ASN665 4.1 36.9 1.0
CB B:GLU667 4.2 36.7 1.0
NZ B:LYS638 4.2 35.1 1.0
OE2 B:GLU667 4.3 38.8 1.0
CA B:PHE663 4.3 33.9 1.0
CG B:GLU667 4.3 37.7 1.0
N B:ILE664 4.4 34.2 1.0
OE2 B:GLU641 4.5 36.0 1.0
CG B:GLU572 4.5 35.1 1.0
CB B:THR635 4.6 32.6 1.0
CA B:ILE664 4.6 34.7 1.0
CE B:LYS638 4.6 37.6 1.0
OE1 B:GLU641 4.6 34.5 1.0
CB B:ASN665 4.7 38.3 1.0
C B:ILE664 4.8 35.8 1.0
CG2 B:THR635 4.8 31.6 1.0
N B:GLN636 4.8 33.5 1.0
CA B:ASN665 4.8 38.3 1.0
CB B:GLN636 5.0 33.9 1.0
O B:GLN636 5.0 34.4 1.0
O B:ASP662 5.0 34.4 1.0

Calcium binding site 5 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 5 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1771

b:28.3
occ:1.00
 OD1 C:ASP529 2.2 32.7 1.0
O C:LEU530 2.3 27.8 1.0
OD1 C:ASP531 2.3 31.6 1.0
O C:LEU674 2.3 28.6 1.0
O C:HOH2121 2.4 23.9 1.0
OD1 C:ASP673 2.4 31.4 1.0
C C:LEU530 3.2 28.4 1.0
C C:LEU674 3.4 28.9 1.0
CG C:ASP529 3.5 29.6 1.0
CG C:ASP531 3.5 31.2 1.0
N C:LEU674 3.6 29.6 1.0
CG C:ASP673 3.7 30.5 1.0
NZ C:LYS106 3.9 31.7 1.0
N C:ASP531 3.9 29.5 1.0
CA C:ASP531 3.9 30.6 1.0
C C:ASP529 4.0 28.0 1.0
CA C:LEU674 4.1 28.9 1.0
N C:LEU530 4.1 28.1 1.0
OD2 C:ASP529 4.2 30.9 1.0
O C:ASP529 4.2 28.2 1.0
C C:ASP673 4.3 30.2 1.0
CB C:ASP531 4.3 30.5 1.0
CA C:ASP529 4.3 28.2 1.0
CA C:LEU530 4.3 28.2 1.0
OD2 C:ASP673 4.3 31.2 1.0
OD1 C:ASN537 4.4 31.7 1.0
OD2 C:ASP531 4.4 31.2 1.0
CB C:ASP529 4.5 27.9 1.0
N C:VAL675 4.5 28.6 1.0
CA C:ASP673 4.6 30.8 1.0
O C:LEU535 4.6 34.5 1.0
CB C:ASP673 4.7 30.4 1.0
CB C:LEU674 4.8 28.1 1.0
CA C:VAL675 4.9 28.8 1.0

Calcium binding site 6 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 6 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1773

b:42.4
occ:1.00
 OD1 C:ASN665 2.3 41.2 1.0
O C:PHE663 2.4 38.0 1.0
OE1 C:GLU572 2.6 36.2 1.0
OE1 C:GLU667 2.6 38.9 1.0
OE2 C:GLU572 2.6 35.2 1.0
CD C:GLU572 2.9 36.2 1.0
CD C:GLU667 3.4 39.7 1.0
CG C:ASN665 3.5 41.6 1.0
C C:PHE663 3.5 37.9 1.0
CG C:GLU667 4.0 39.7 1.0
N C:ASN665 4.1 40.5 1.0
ND2 C:ASN665 4.1 42.1 1.0
NZ C:LYS638 4.2 36.9 1.0
CA C:PHE663 4.3 37.5 1.0
OE2 C:GLU667 4.3 39.7 1.0
CB C:GLU667 4.4 39.9 1.0
CG C:GLU572 4.5 36.3 1.0
N C:ILE664 4.5 38.6 1.0
CB C:THR635 4.5 28.9 1.0
OE1 C:GLU641 4.5 36.1 1.0
CE C:LYS638 4.6 35.4 1.0
CA C:ILE664 4.6 39.0 1.0
OE2 C:GLU641 4.7 38.7 1.0
CG2 C:THR635 4.7 28.3 1.0
CB C:ASN665 4.7 41.0 1.0
N C:GLN636 4.8 30.7 1.0
CA C:ASN665 4.9 41.0 1.0
C C:ILE664 4.9 39.9 1.0
O C:ASN665 5.0 42.0 1.0
CB C:PHE663 5.0 36.8 1.0

Calcium binding site 7 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 7 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1776

b:25.0
occ:1.00
 OD1 D:ASP673 2.2 28.4 1.0
OD1 D:ASP531 2.2 31.5 1.0
O D:LEU530 2.3 28.2 1.0
OD1 D:ASP529 2.3 29.4 1.0
O D:LEU674 2.4 29.7 1.0
O D:HOH2092 2.4 14.3 1.0
N D:LEU674 3.3 28.9 1.0
C D:LEU530 3.4 28.0 1.0
CG D:ASP673 3.4 29.4 1.0
C D:LEU674 3.4 29.4 1.0
CG D:ASP531 3.5 30.5 1.0
CG D:ASP529 3.5 28.3 1.0
NZ D:LYS106 3.9 29.8 1.0
CA D:LEU674 4.0 29.1 1.0
CA D:ASP531 4.0 28.9 1.0
N D:ASP531 4.0 28.3 1.0
C D:ASP673 4.0 29.1 1.0
OD2 D:ASP673 4.1 29.1 1.0
OD2 D:ASP529 4.2 28.6 1.0
C D:ASP529 4.2 27.7 1.0
CA D:ASP673 4.3 29.4 1.0
CB D:ASP531 4.3 28.9 1.0
OD2 D:ASP531 4.4 33.0 1.0
N D:LEU530 4.4 27.9 1.0
O D:LEU535 4.4 30.7 1.0
CB D:ASP673 4.4 29.5 1.0
O D:ASP529 4.4 27.4 1.0
CA D:LEU530 4.5 27.6 1.0
CA D:ASP529 4.6 27.6 1.0
N D:VAL675 4.6 29.4 1.0
OD1 D:ASN537 4.7 28.6 1.0
CB D:ASP529 4.7 27.8 1.0
CB D:LEU674 4.8 28.6 1.0
CD2 D:LEU535 4.9 32.4 1.0
O D:ASP673 4.9 28.3 1.0
CA D:VAL675 5.0 29.6 1.0

Calcium binding site 8 out of 8 in 2c10

Go back to Calcium Binding Sites List in 2c10
Calcium binding site 8 out of 8 in the The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of The Structure of A Truncated, Soluble Version of Semicarbazide- Sensitive Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1778

b:29.1
occ:1.00
 O D:PHE663 2.2 34.9 1.0
O D:HOH2114 2.4 19.1 1.0
OE1 D:GLU667 2.4 37.4 1.0
O D:HOH2113 2.5 25.1 1.0
OE2 D:GLU572 2.5 36.9 1.0
OD1 D:ASN665 2.7 40.9 1.0
OE1 D:GLU572 2.8 37.0 1.0
CD D:GLU572 3.0 36.2 1.0
C D:PHE663 3.3 34.7 1.0
CG D:ASN665 3.4 40.1 1.0
CD D:GLU667 3.4 37.1 1.0
ND2 D:ASN665 3.6 41.0 1.0
N D:ASN665 3.8 37.6 1.0
CG D:GLU667 4.1 36.5 1.0
CA D:PHE663 4.2 34.8 1.0
CB D:GLU667 4.2 36.0 1.0
N D:ILE664 4.3 35.2 1.0
OE2 D:GLU667 4.4 37.3 1.0
CA D:ILE664 4.5 35.6 1.0
NZ D:LYS638 4.5 34.2 1.0
OE2 D:GLU641 4.5 35.7 1.0
CG D:GLU572 4.5 36.0 1.0
CB D:ASN665 4.6 39.2 1.0
CA D:ASN665 4.6 38.8 1.0
C D:ILE664 4.6 36.7 1.0
CB D:THR635 4.7 30.0 1.0
O D:ASP662 4.7 35.7 1.0
CE D:LYS638 4.7 34.6 1.0
OE1 D:GLU641 4.8 36.2 1.0
CG2 D:THR635 4.9 28.8 1.0
N D:GLN636 5.0 30.9 1.0
C D:ASN665 5.0 39.3 1.0

Reference:

E.Jakobsson, J.Nilsson, D.Ogg, G.J.Kleywegt. Structure of Human Semicarbazide-Sensitive Amine Oxidase/Vascular Adhesion Protein-1. Acta Crystallogr. D Biol. V. 61 1550 2005CRYSTALLOGR..
ISSN: ISSN 0907-4449
PubMed: 16239734
DOI: 10.1107/S0907444905028805
Page generated: Fri Jul 12 09:16:34 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