Atomistry » Calcium » PDB 2zp5-3a4h » 2zrs
Atomistry »
  Calcium »
    PDB 2zp5-3a4h »
      2zrs »

Calcium in PDB 2zrs: Crystal Structure of CA2+-Bound Form of DES3-23ALG-2

Protein crystallography data

The structure of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2, PDB code: 2zrs was solved by H.Suzuki, M.Kawasaki, T.Kakiuchi, H.Shibata, S.Wakatsuki, M.Maki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 54.780, 154.425, 237.676, 90.00, 90.00, 90.00
R / Rfree (%) 22.2 / 28

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 25;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 (pdb code 2zrs). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 25 binding sites of Calcium where determined in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2, PDB code: 2zrs:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 1 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca990

b:50.7
occ:1.00
O A:MET109 2.8 59.2 1.0
OD1 A:ASP103 2.9 48.5 1.0
OE2 A:GLU114 3.0 58.9 1.0
N A:ARG104 3.1 52.2 1.0
N A:ASP105 3.2 53.9 1.0
OD2 A:ASP105 3.4 54.7 1.0
CA A:ASP103 3.5 51.1 1.0
CD A:GLU114 3.6 59.7 1.0
CB A:ASP105 3.7 54.4 1.0
C A:ASP103 3.7 51.6 1.0
CG A:ASP103 3.9 49.9 1.0
CG A:ASP105 3.9 54.5 1.0
C A:MET109 4.0 59.1 1.0
CA A:ASP105 4.0 54.4 1.0
CA A:ARG104 4.0 52.9 1.0
C A:ARG104 4.1 53.3 1.0
CG A:GLU114 4.1 60.1 1.0
CB A:ASP103 4.1 50.9 1.0
N A:ASN106 4.1 55.2 1.0
CB A:ARG104 4.3 53.0 1.0
OE1 A:GLU114 4.4 60.0 1.0
OD2 A:ASP111 4.4 59.5 1.0
C A:ASP105 4.5 54.8 1.0
CA A:ILE110 4.6 59.5 1.0
N A:ASP103 4.7 51.0 1.0
N A:ILE110 4.7 59.3 1.0
N A:MET109 4.8 58.5 1.0
O A:TYR102 4.8 50.8 1.0
N A:SER107 4.9 56.5 1.0
O A:ASP103 4.9 51.5 1.0
CA A:MET109 5.0 58.9 1.0

Calcium binding site 2 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 2 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca991

b:48.5
occ:1.00
OE1 A:GLU47 2.2 51.7 1.0
CD A:GLU47 2.6 51.6 1.0
O A:VAL42 2.7 53.5 1.0
N A:GLY41 2.8 55.0 1.0
OE2 A:GLU47 2.9 52.0 1.0
O A:VAL35 3.2 57.4 1.0
CB A:SER40 3.2 55.5 1.0
C A:VAL42 3.4 53.4 1.0
C A:GLY41 3.5 54.4 1.0
CA A:GLY41 3.5 54.5 1.0
N A:VAL42 3.6 54.0 1.0
CG A:GLU47 3.6 50.8 1.0
C A:SER40 3.6 55.3 1.0
CA A:SER40 3.9 55.4 1.0
O A:GLY41 4.0 54.3 1.0
CG2 A:VAL35 4.1 57.6 1.0
N A:ILE43 4.2 53.1 1.0
CA A:VAL42 4.2 53.6 1.0
C A:VAL35 4.2 57.6 1.0
CA A:ILE43 4.3 52.6 1.0
OG A:SER40 4.3 55.7 1.0
CB A:GLU47 4.4 50.1 1.0
N A:SER40 4.5 55.5 1.0
CB A:VAL35 4.5 57.8 1.0
O A:SER40 4.6 55.5 1.0
CG1 A:ILE43 4.7 52.6 1.0
CA A:VAL35 5.0 57.7 1.0

Calcium binding site 3 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 3 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca990

b:33.8
occ:1.00
OD1 B:ASP105 2.2 49.6 1.0
OD2 B:ASP105 2.3 50.4 1.0
CG B:ASP105 2.5 50.5 1.0
OD1 B:ASP103 2.5 50.0 1.0
OE1 B:GLU114 2.9 51.5 1.0
O B:MET109 3.0 51.7 1.0
OG B:SER107 3.2 51.7 1.0
CG B:ASP103 3.3 49.2 1.0
OE2 B:GLU114 3.4 51.7 1.0
N B:SER107 3.4 51.5 1.0
CD B:GLU114 3.5 51.6 1.0
N B:ASN106 3.5 51.2 1.0
CB B:SER107 3.8 51.7 1.0
CB B:ASP105 3.8 50.8 1.0
OD2 B:ASP103 3.8 48.9 1.0
C B:ASP105 4.1 51.0 1.0
CA B:ASN106 4.1 51.3 1.0
CA B:SER107 4.2 51.7 1.0
C B:ASN106 4.2 51.4 1.0
C B:MET109 4.2 51.8 1.0
N B:ASP105 4.2 50.5 1.0
CA B:ASP105 4.2 50.8 1.0
O B:ASP103 4.3 49.0 1.0
CA B:ASP103 4.3 48.8 1.0
C B:ASP103 4.3 49.0 1.0
CB B:ASP103 4.4 48.9 1.0
OD2 B:ASP111 4.5 51.8 1.0
CA B:ILE110 4.7 52.0 1.0
C B:SER107 4.9 51.8 1.0
N B:ILE110 5.0 51.8 1.0
CG B:GLU114 5.0 51.6 1.0
N B:MET109 5.0 52.0 1.0
O B:ASP105 5.0 51.2 1.0

Calcium binding site 4 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 4 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca991

b:66.2
occ:1.00
OD1 B:ASP171 2.4 57.1 1.0
OD1 B:ASP169 2.9 57.6 1.0
N B:THR170 3.2 57.7 1.0
O B:TRP175 3.4 58.9 1.0
CG B:ASP171 3.4 57.2 1.0
N B:ASP171 3.6 57.8 1.0
OD2 B:ASP171 3.8 56.7 1.0
CG B:ASP169 3.9 57.7 1.0
CB B:THR170 3.9 57.7 1.0
CA B:THR170 3.9 57.7 1.0
C B:ASP169 4.0 57.8 1.0
CA B:ASP169 4.1 57.8 1.0
OD2 B:ASP173 4.1 56.9 1.0
OG1 B:THR170 4.2 57.7 1.0
C B:THR170 4.2 57.8 1.0
CB B:ASP169 4.4 57.7 1.0
CB B:ASP171 4.6 57.6 1.0
C B:TRP175 4.6 58.8 1.0
CA B:ASP171 4.6 57.6 1.0
OD2 B:ASP169 4.8 57.4 1.0
NE1 B:TRP175 4.8 59.0 1.0
CG1 B:ILE176 4.9 58.5 1.0
CD1 B:TRP175 5.0 58.8 1.0
CG B:ASP173 5.0 57.8 1.0

Calcium binding site 5 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 5 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca992

b:40.6
occ:1.00
OD2 B:ASP36 2.4 49.5 1.0
O B:VAL42 2.6 50.6 1.0
OE2 B:GLU47 3.1 49.5 1.0
CB B:SER40 3.3 50.9 1.0
OD1 B:ASP38 3.3 50.8 1.0
OE1 B:GLU47 3.5 49.4 1.0
OG B:SER44 3.6 50.4 1.0
CG B:ASP36 3.6 49.5 1.0
CD B:GLU47 3.7 49.4 1.0
OG B:SER40 3.8 50.8 1.0
C B:VAL42 3.9 50.5 1.0
O B:ASP38 4.2 51.1 1.0
N B:SER44 4.2 50.2 1.0
CG B:ASP38 4.2 51.1 1.0
CA B:ASP36 4.3 49.7 1.0
CB B:ASP36 4.5 49.6 1.0
OD1 B:ASP36 4.5 49.1 1.0
CA B:ILE43 4.5 50.3 1.0
N B:LYS37 4.5 50.5 1.0
OD2 B:ASP38 4.6 51.0 1.0
CA B:SER40 4.6 50.9 1.0
N B:ILE43 4.6 50.4 1.0
N B:VAL42 4.7 50.6 1.0
C B:ASP36 4.7 50.0 1.0
C B:ILE43 4.7 50.3 1.0
N B:SER40 4.8 50.9 1.0
CB B:SER44 4.8 50.3 1.0
CA B:VAL42 4.9 50.6 1.0
N B:GLY41 4.9 50.8 1.0
N B:ASP38 5.0 51.0 1.0
C B:SER40 5.0 50.8 1.0

Calcium binding site 6 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 6 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca2

b:31.1
occ:1.00
ND2 B:ASN106 3.1 50.5 1.0
OD1 C:ASN106 3.2 45.7 1.0
OD1 B:ASN106 3.3 51.0 1.0
CG B:ASN106 3.6 51.1 1.0
O C:ARG100 3.8 42.0 1.0
O C:ASP103 4.1 44.3 1.0
CG C:ASN106 4.3 45.3 1.0
O B:ARG100 4.3 45.0 1.0
CA C:ARG104 4.5 45.1 1.0
CG C:ARG104 4.6 46.2 1.0
C C:ASP103 4.6 44.3 1.0
ND2 C:ASN106 4.7 44.8 1.0
O B:ARG104 4.8 50.2 1.0
N C:ARG104 4.8 44.7 1.0
O B:ASP103 4.9 49.0 1.0
C C:ARG100 5.0 42.1 1.0

Calcium binding site 7 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 7 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca990

b:33.2
occ:1.00
O C:VAL42 2.6 43.3 1.0
OD1 C:ASP36 2.9 43.3 1.0
OE2 C:GLU47 3.0 46.5 1.0
OD1 C:ASP38 3.2 44.7 1.0
OD2 C:ASP38 3.2 44.9 1.0
C C:VAL42 3.4 43.5 1.0
CD C:GLU47 3.5 46.1 1.0
CG C:ASP38 3.6 44.5 1.0
CG C:ASP36 3.6 43.5 1.0
CG C:GLU47 3.6 45.1 1.0
CA C:ILE43 3.7 43.3 1.0
N C:SER44 3.8 43.2 1.0
N C:ILE43 4.0 43.4 1.0
OG C:SER44 4.0 43.7 1.0
CB C:ASP36 4.2 43.2 1.0
C C:ILE43 4.3 43.3 1.0
OD2 C:ASP36 4.3 43.9 1.0
OE1 C:GLU47 4.3 46.4 1.0
CB C:GLU47 4.4 44.4 1.0
CB C:SER40 4.5 44.1 1.0
CB C:SER44 4.5 43.4 1.0
CA C:VAL42 4.6 43.5 1.0
CB C:VAL42 4.7 43.5 1.0
CA C:SER44 4.8 43.4 1.0
CA C:ASP36 4.8 43.2 1.0
CB C:ILE43 4.9 43.3 1.0
CG2 C:VAL42 5.0 43.2 1.0
CG2 C:ILE43 5.0 43.3 1.0

Calcium binding site 8 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 8 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca991

b:52.4
occ:1.00
OG C:SER107 2.3 44.9 1.0
CB C:SER107 3.1 44.9 1.0
OD1 C:ASP105 3.2 44.4 1.0
N C:MET109 3.3 44.2 1.0
O C:MET109 3.3 43.7 1.0
CB C:MET109 3.7 43.9 1.0
C C:SER107 3.7 44.8 1.0
CA C:MET109 3.8 43.9 1.0
N C:GLY108 3.9 44.8 1.0
CA C:SER107 3.9 44.9 1.0
C C:MET109 3.9 43.8 1.0
O C:SER107 4.0 44.7 1.0
OD2 C:ASP103 4.0 42.5 1.0
CG C:ASP105 4.3 44.6 1.0
OE1 C:GLN145 4.4 33.5 1.0
C C:GLY108 4.4 44.4 1.0
N C:SER107 4.4 45.0 1.0
CA C:GLY108 4.6 44.6 1.0
CG C:MET109 4.6 43.7 1.0
OE1 C:GLU114 4.7 40.8 1.0

Calcium binding site 9 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 9 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca992

b:51.4
occ:1.00
OD2 C:ASP173 2.8 45.1 1.0
CB C:ASP173 2.9 45.0 1.0
OD1 C:ASP169 3.1 43.3 1.0
CG C:ASP173 3.2 45.4 1.0
O C:TRP175 3.4 45.5 1.0
CG C:ASP169 3.8 43.0 1.0
N C:THR170 4.2 43.0 1.0
CA C:ASP173 4.2 45.0 1.0
OD1 C:ASP173 4.3 46.1 1.0
OD2 C:ASP169 4.4 43.5 1.0
N C:ASP173 4.4 44.6 1.0
CA C:ASP169 4.5 42.7 1.0
C C:TRP175 4.6 45.5 1.0
N C:ASP171 4.6 43.6 1.0
CB C:ASP169 4.7 42.7 1.0
C C:ASP169 4.8 42.8 1.0
C C:ASP173 4.9 45.2 1.0
N C:GLY174 5.0 45.3 1.0
OG1 C:THR170 5.0 43.0 1.0

Calcium binding site 10 out of 25 in 2zrs

Go back to Calcium Binding Sites List in 2zrs
Calcium binding site 10 out of 25 in the Crystal Structure of CA2+-Bound Form of DES3-23ALG-2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Crystal Structure of CA2+-Bound Form of DES3-23ALG-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca990

b:13.4
occ:1.00
OE1 D:GLU47 2.0 16.5 1.0
OE2 D:GLU47 2.5 17.0 1.0
CD D:GLU47 2.6 17.6 1.0
OD2 D:ASP38 2.8 24.8 1.0
O D:VAL42 2.8 26.6 1.0
OG D:SER40 2.9 27.1 1.0
OG D:SER44 3.1 25.7 1.0
OD1 D:ASP36 3.3 25.2 1.0
OD1 D:ASP38 3.4 25.8 1.0
N D:SER44 3.5 25.5 1.0
CG D:ASP38 3.5 25.6 1.0
C D:VAL42 3.9 26.5 1.0
CB D:SER40 4.0 27.3 1.0
CB D:SER44 4.0 25.4 1.0
CG D:GLU47 4.0 19.1 1.0
CA D:ILE43 4.1 25.9 1.0
C D:ILE43 4.2 25.8 1.0
CA D:SER44 4.3 25.3 1.0
N D:ILE43 4.5 26.1 1.0
CG D:ASP36 4.5 25.0 1.0
CA D:ASP36 4.5 24.7 1.0
N D:SER40 4.7 27.1 1.0
CB D:GLU47 4.7 19.9 1.0
N D:LYS37 4.8 24.9 1.0
C D:ASP36 4.9 24.7 1.0
CA D:SER40 4.9 27.2 1.0
N D:ASP38 4.9 25.7 1.0
CB D:ASP38 5.0 26.0 1.0
O D:VAL35 5.0 24.3 1.0

Reference:

H.Suzuki, M.Kawasaki, T.Kakiuchi, H.Shibata, S.Wakatsuki, M.Maki. Crystallization and X-Ray Diffraction Analysis of N-Terminally Truncated Human Alg-2 Acta Crystallogr.,Sect.F V. 64 974 2008.
ISSN: ESSN 1744-3091
PubMed: 18997320
DOI: 10.1107/S1744309108030297
Page generated: Sat Dec 12 04:02:04 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy