Atomistry » Calcium » PDB 2z8x-2zp4 » 2zfd
Atomistry »
  Calcium »
    PDB 2z8x-2zp4 »
      2zfd »

Calcium in PDB 2zfd: The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14

Protein crystallography data

The structure of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14, PDB code: 2zfd was solved by M.Akaboshi, H.Hashimoto, H.Ishida, N.Koizumi, M.Sato, T.Shimizu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 34.092, 45.481, 92.390, 90.00, 92.64, 90.00
R / Rfree (%) 18 / 19.2

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 (pdb code 2zfd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14, PDB code: 2zfd:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 1 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca227

b:6.5
occ:1.00
O A:SER58 2.3 9.0 1.0
O A:LEU66 2.3 7.2 1.0
O A:HOH267 2.4 7.7 1.0
OD2 A:ASP64 2.4 7.8 1.0
O A:ILE62 2.4 8.1 1.0
OE1 A:GLU71 2.4 6.2 1.0
OE2 A:GLU71 2.5 6.7 1.0
CD A:GLU71 2.8 5.6 1.0
C A:SER58 3.4 9.1 1.0
CG A:ASP64 3.4 9.1 1.0
C A:LEU66 3.5 7.1 1.0
C A:ILE62 3.6 9.6 1.0
OD1 A:ASP64 3.8 10.4 1.0
CA A:SER58 4.0 9.5 1.0
N A:ILE62 4.1 9.5 1.0
N A:LEU66 4.1 7.9 1.0
CA A:ILE62 4.2 9.9 1.0
CB A:ILE62 4.2 9.9 1.0
N A:ASP64 4.3 10.0 1.0
CG A:GLU71 4.3 6.6 1.0
CA A:LEU66 4.4 7.4 1.0
N A:ILE67 4.4 6.4 1.0
CB A:SER58 4.5 9.6 1.0
N A:SER59 4.5 10.1 1.0
CA A:ILE67 4.5 6.3 1.0
N A:ASN68 4.5 5.3 1.0
N A:ASP63 4.7 10.2 1.0
CB A:ASP64 4.7 9.7 1.0
CA A:SER59 4.8 10.6 1.0
N A:GLY65 4.8 9.2 1.0
CA A:ASP64 4.9 9.7 1.0
CB A:LEU66 4.9 7.2 1.0
O A:HOH334 4.9 16.0 1.0
CG A:ASN68 4.9 5.7 1.0
ND2 A:ASN68 4.9 7.0 1.0
C A:ILE67 5.0 5.8 1.0

Calcium binding site 2 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 2 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca228

b:9.9
occ:1.00
OD1 A:ASP95 2.3 11.0 1.0
O A:ILE101 2.3 9.3 1.0
O A:HOH324 2.3 14.4 1.0
OD1 A:ASN99 2.4 12.9 1.0
OE2 A:GLU106 2.5 9.6 1.0
O A:LYS97 2.5 13.5 1.0
OE1 A:GLU106 2.5 11.2 1.0
CD A:GLU106 2.9 8.9 1.0
CG A:ASN99 3.4 12.9 1.0
CG A:ASP95 3.5 9.7 1.0
C A:ILE101 3.5 8.0 1.0
C A:LYS97 3.6 13.2 1.0
ND2 A:ASN99 3.8 15.8 1.0
CB A:LYS97 4.0 13.5 1.0
N A:ASN99 4.2 11.9 1.0
N A:ILE101 4.2 9.0 1.0
CA A:LEU102 4.3 7.6 1.0
CA A:LYS97 4.3 13.0 1.0
OD2 A:ASP95 4.3 11.3 1.0
N A:LEU102 4.3 7.7 1.0
CA A:ASP95 4.4 7.7 1.0
N A:LYS97 4.4 11.9 1.0
CG A:GLU106 4.4 7.8 1.0
CB A:ASP95 4.5 8.1 1.0
CA A:ILE101 4.5 8.6 1.0
CG A:LYS97 4.6 13.8 1.0
CB A:ASN99 4.7 12.0 1.0
CD2 A:LEU102 4.7 8.9 1.0
C A:ASP95 4.7 8.5 1.0
N A:HIS98 4.7 13.6 1.0
CG2 A:ILE101 4.8 10.7 1.0
N A:GLY103 4.8 7.3 1.0
CA A:ASN99 4.8 11.7 1.0
N A:GLY100 4.8 10.4 1.0
N A:THR96 5.0 8.6 1.0

Calcium binding site 3 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 3 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca229

b:5.0
occ:1.00
OD1 A:ASP176 2.3 9.2 1.0
O A:LYS182 2.3 7.0 1.0
O A:HOH325 2.3 7.5 1.0
OD1 A:ASP180 2.4 6.0 1.0
O A:LYS178 2.4 7.4 1.0
OE2 A:GLU187 2.4 5.3 1.0
OE1 A:GLU187 2.5 5.1 1.0
CD A:GLU187 2.8 4.8 1.0
CG A:ASP180 3.3 6.8 1.0
CG A:ASP176 3.5 6.8 1.0
C A:LYS182 3.5 6.0 1.0
C A:LYS178 3.6 7.3 1.0
OD2 A:ASP180 3.7 9.7 1.0
N A:ASP180 4.1 6.5 1.0
N A:LYS182 4.1 6.1 1.0
CB A:LYS178 4.2 7.9 1.0
CA A:ASP176 4.2 6.2 1.0
CA A:LYS178 4.3 7.3 1.0
N A:LYS178 4.3 6.4 1.0
CG A:GLU187 4.3 4.8 1.0
OD2 A:ASP176 4.3 7.8 1.0
CB A:ASP176 4.4 6.3 1.0
CA A:LYS182 4.4 6.5 1.0
N A:ILE183 4.4 5.4 1.0
CA A:ILE183 4.5 5.5 1.0
N A:ASP184 4.5 5.0 1.0
CB A:ASP180 4.5 6.7 1.0
C A:ASP176 4.6 6.3 1.0
OD2 A:ASP184 4.6 6.7 1.0
N A:HIS179 4.6 7.8 1.0
N A:GLY181 4.7 5.9 1.0
CA A:ASP180 4.7 6.2 1.0
CG A:LYS178 4.8 11.2 1.0
CA A:HIS179 4.8 8.5 1.0
CB A:LYS182 4.8 7.9 1.0
N A:THR177 4.9 6.1 1.0
CG A:ASP184 4.9 5.9 1.0
C A:ASP180 4.9 6.3 1.0
C A:HIS179 4.9 7.6 1.0
C A:ILE183 5.0 5.3 1.0

Calcium binding site 4 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 4 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca230

b:7.2
occ:1.00
OD1 A:ASP132 2.3 7.5 1.0
OE1 A:GLU140 2.4 11.6 1.0
O A:PHE138 2.4 7.7 1.0
OE1 A:GLN136 2.4 10.4 1.0
O A:GLY137 2.5 8.5 1.0
OE2 A:GLU143 2.5 6.9 1.0
OE1 A:GLU143 2.5 7.6 1.0
CD A:GLU143 2.9 6.4 1.0
CG A:ASP132 3.4 7.9 1.0
C A:GLY137 3.4 8.5 1.0
CD A:GLN136 3.4 12.4 1.0
C A:PHE138 3.5 6.3 1.0
CD A:GLU140 3.5 12.7 1.0
NE2 A:GLN136 3.8 14.9 1.0
CG A:GLU140 4.1 10.3 1.0
N A:GLY137 4.1 9.9 1.0
N A:PHE138 4.1 7.5 1.0
CA A:ASP132 4.2 6.6 1.0
OD2 A:ASP132 4.2 10.2 1.0
CB A:ASP132 4.2 7.2 1.0
CA A:PHE138 4.2 7.0 1.0
CA A:GLY137 4.4 9.5 1.0
CG A:GLU143 4.4 6.8 1.0
C A:ASP132 4.4 6.0 1.0
N A:GLU140 4.4 6.5 1.0
N A:ILE139 4.5 5.8 1.0
OE2 A:GLU140 4.5 17.2 1.0
CB A:PHE138 4.5 7.5 1.0
N A:GLN136 4.6 10.6 1.0
C A:GLN136 4.6 10.4 1.0
CB A:GLU140 4.6 7.9 1.0
N A:LYS134 4.6 8.7 1.0
CA A:ILE139 4.6 6.4 1.0
CE A:LYS134 4.7 17.4 1.0
CB A:LYS134 4.7 9.9 1.0
N A:LEU133 4.7 6.5 1.0
CG A:GLN136 4.8 11.9 1.0
N A:GLN135 4.8 9.7 1.0
O A:ASP132 4.9 7.3 1.0
C A:ILE139 5.0 6.8 1.0

Calcium binding site 5 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 5 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca231

b:6.1
occ:1.00
OE2 A:GLU83 2.3 6.6 1.0
O A:ASN80 2.3 6.7 1.0
O A:HOH258 2.3 7.4 1.0
CD A:GLU83 3.5 6.4 1.0
C A:ASN80 3.5 6.2 1.0
CB A:ASN80 4.2 6.6 1.0
NE2 A:GLN73 4.2 8.1 1.0
CG A:GLU83 4.2 7.9 1.0
CA A:ASN80 4.3 6.4 1.0
OE1 A:GLU83 4.4 7.1 1.0
OE1 A:GLN73 4.5 7.2 1.0
N A:LYS81 4.5 6.4 1.0
O A:HOH271 4.6 9.6 1.0
CA A:LYS81 4.6 7.1 1.0
CG A:ASN80 4.6 6.6 1.0
CD A:GLN73 4.8 6.5 1.0
OD1 A:ASN80 4.8 7.7 1.0

Calcium binding site 6 out of 6 in 2zfd

Go back to Calcium Binding Sites List in 2zfd
Calcium binding site 6 out of 6 in the The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Crystal Structure of Plant Specific Calcium Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca232

b:10.3
occ:1.00
OE1 A:GLN135 2.4 10.9 1.0
OD2 A:ASP92 2.4 10.3 1.0
O A:HOH381 2.4 17.6 1.0
O A:HOH346 2.4 16.0 1.0
O A:HOH347 2.4 16.4 1.0
OD1 A:ASP92 2.5 10.0 1.0
CG A:ASP92 2.9 7.9 1.0
CD A:GLN135 3.4 10.4 1.0
NE2 A:GLN135 3.7 11.1 1.0
O A:HOH385 3.9 14.7 1.0
O A:HOH359 4.1 13.7 1.0
CB A:ASP92 4.4 6.7 1.0
O A:HOH354 4.5 16.4 1.0
O A:HOH357 4.6 16.0 1.0
CG A:GLN135 4.8 10.1 1.0
NH1 A:ARG89 4.9 8.2 1.0

Reference:

M.Akaboshi, H.Hashimoto, H.Ishida, S.Saijo, N.Koizumi, M.Sato, T.Shimizu. The Crystal Structure of Plant-Specific Calcium-Binding Protein ATCBL2 in Complex with the Regulatory Domain of ATCIPK14 J.Mol.Biol. V. 377 246 2008.
ISSN: ISSN 0022-2836
PubMed: 18237745
DOI: 10.1016/J.JMB.2008.01.006
Page generated: Sat Dec 12 04:01:36 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