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Calcium in PDB 4bz4: Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition

Protein crystallography data

The structure of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition, PDB code: 4bz4 was solved by K.A.Johnson, T.Ve, R.B.Pedersen, J.R.Lillehaug, H.B.Jensen, R.Helland, O.A.Karlsen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30 / 1.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 73.840, 113.170, 81.490, 90.00, 104.51, 90.00
R / Rfree (%) 15.753 / 18.809

Other elements in 4bz4:

The structure of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition also contains other interesting chemical elements:

Copper (Cu) 6 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition (pdb code 4bz4). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition, PDB code: 4bz4:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 1 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1233

b:15.0
occ:1.00
 O A:LYS179 2.3 11.5 1.0
OD2 A:ASP154 2.3 11.7 1.0
OD1 A:ASP152 2.3 9.7 1.0
OD1 A:ASP174 2.3 12.7 1.0
O A:VAL176 2.3 13.6 1.0
O A:HOH2134 2.4 9.0 1.0
CG A:ASP174 3.1 13.3 1.0
CG A:ASP154 3.3 12.8 1.0
CG A:ASP152 3.3 12.1 1.0
C A:VAL176 3.4 14.1 1.0
C A:LYS179 3.4 11.5 1.0
OD2 A:ASP174 3.5 18.6 1.0
CB A:ASP154 3.7 11.2 1.0
N A:LYS179 3.9 13.7 1.0
N A:VAL176 3.9 14.7 1.0
N A:ASP174 4.0 11.1 1.0
CA A:LYS179 4.1 14.3 1.0
CB A:ASP152 4.1 10.5 1.0
CA A:VAL176 4.2 13.5 1.0
CB A:LYS179 4.2 16.9 1.0
OD2 A:ASP152 4.2 10.7 1.0
CB A:ASP174 4.3 12.0 1.0
N A:PRO177 4.4 14.3 1.0
CA A:ASP152 4.4 9.9 1.0
OD1 A:ASP154 4.4 12.9 1.0
N A:ASP154 4.4 10.5 1.0
CA A:PRO177 4.5 12.7 1.0
N A:LEU180 4.5 11.8 1.0
CB A:VAL176 4.5 15.6 1.0
O A:VAL172 4.5 9.7 1.0
O A:HOH2163 4.6 10.9 1.0
CA A:ASP174 4.6 11.2 1.0
N A:GLY178 4.7 12.7 1.0
CA A:ASP154 4.7 10.9 1.0
C A:PRO177 4.7 12.5 1.0
CA A:LEU180 4.8 12.4 1.0
N A:GLY175 4.8 13.5 1.0
C A:ASP174 4.9 11.8 1.0
C A:MET173 4.9 11.7 1.0
N A:ARG153 4.9 10.2 1.0
CA A:MET173 5.0 10.6 1.0
C A:ASP152 5.0 11.1 1.0

Calcium binding site 2 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 2 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1233

b:16.1
occ:1.00
 O B:LYS179 2.3 12.2 1.0
OD1 B:ASP152 2.3 11.3 1.0
OD2 B:ASP154 2.4 12.2 1.0
O B:HOH2121 2.4 9.4 1.0
OD1 B:ASP174 2.4 15.3 1.0
O B:VAL176 2.5 12.3 1.0
CG B:ASP174 3.2 16.9 1.0
OD2 B:ASP174 3.3 22.4 1.0
CG B:ASP152 3.3 10.1 1.0
C B:LYS179 3.4 12.9 1.0
C B:VAL176 3.4 13.7 1.0
CG B:ASP154 3.4 13.2 1.0
CB B:ASP154 3.8 10.9 1.0
N B:LYS179 4.0 12.8 1.0
CB B:ASP152 4.0 9.4 1.0
N B:ASP174 4.1 11.4 1.0
N B:VAL176 4.1 13.8 1.0
CA B:LYS179 4.1 13.5 1.0
CB B:LYS179 4.2 16.7 1.0
CA B:VAL176 4.2 14.1 1.0
OD2 B:ASP152 4.3 11.4 1.0
N B:PRO177 4.3 13.5 1.0
CA B:ASP152 4.3 9.4 1.0
CB B:ASP174 4.4 15.2 1.0
O B:HOH2141 4.5 10.1 1.0
N B:LEU180 4.5 11.8 1.0
CA B:PRO177 4.5 12.9 1.0
OD1 B:ASP154 4.5 13.6 1.0
N B:ASP154 4.5 11.0 1.0
CB B:VAL176 4.6 15.0 1.0
O B:VAL172 4.6 8.8 1.0
CA B:ASP174 4.7 13.1 1.0
N B:GLY178 4.7 12.2 1.0
CA B:LEU180 4.8 10.8 1.0
C B:PRO177 4.8 13.7 1.0
CA B:ASP154 4.8 11.7 1.0
N B:GLY175 4.8 14.9 1.0
C B:ASP152 4.9 9.6 1.0
C B:ASP174 5.0 12.5 1.0
N B:ARG153 5.0 9.7 1.0
C B:MET173 5.0 11.7 1.0

Calcium binding site 3 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 3 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1233

b:14.3
occ:1.00
 O C:LYS179 2.3 11.7 1.0
OD2 C:ASP154 2.3 13.6 1.0
OD1 C:ASP174 2.3 14.6 1.0
O C:VAL176 2.3 12.7 1.0
OD1 C:ASP152 2.3 10.8 1.0
O C:HOH2119 2.4 11.2 1.0
CG C:ASP174 3.1 17.4 1.0
C C:VAL176 3.3 14.6 1.0
CG C:ASP154 3.4 11.6 1.0
CG C:ASP152 3.4 9.9 1.0
OD2 C:ASP174 3.4 22.7 1.0
C C:LYS179 3.4 11.8 1.0
CB C:ASP154 3.7 10.9 1.0
N C:VAL176 4.0 13.6 1.0
N C:ASP174 4.0 11.0 1.0
N C:LYS179 4.0 13.0 1.0
CB C:ASP152 4.1 9.5 1.0
CA C:VAL176 4.1 13.8 1.0
CA C:LYS179 4.1 13.7 1.0
N C:PRO177 4.3 14.1 1.0
OD2 C:ASP152 4.3 12.2 1.0
CB C:ASP174 4.4 13.8 1.0
CB C:LYS179 4.4 17.5 1.0
CA C:ASP152 4.4 9.9 1.0
CB C:VAL176 4.4 14.6 1.0
OD1 C:ASP154 4.5 13.0 1.0
O C:HOH2138 4.5 11.4 1.0
N C:LEU180 4.5 11.7 1.0
CA C:PRO177 4.5 13.2 1.0
N C:ASP154 4.5 11.7 1.0
O C:VAL172 4.6 11.3 1.0
CA C:ASP174 4.6 12.7 1.0
N C:GLY178 4.7 12.8 1.0
C C:PRO177 4.8 14.6 1.0
CA C:ASP154 4.8 11.5 1.0
CA C:LEU180 4.8 11.4 1.0
N C:GLY175 4.8 13.1 1.0
C C:ASP174 4.9 13.1 1.0
C C:MET173 4.9 11.2 1.0
CA C:MET173 4.9 12.2 1.0
C C:ASP152 5.0 10.5 1.0
N C:ARG153 5.0 10.3 1.0

Calcium binding site 4 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 4 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1233

b:13.2
occ:1.00
 O D:LYS179 2.3 13.0 1.0
OD1 D:ASP152 2.3 9.5 1.0
OD2 D:ASP154 2.3 8.9 1.0
OD1 D:ASP174 2.4 11.9 1.0
O D:HOH2128 2.4 9.3 1.0
O D:VAL176 2.4 11.9 1.0
CG D:ASP174 3.2 13.8 1.0
CG D:ASP152 3.3 9.0 1.0
CG D:ASP154 3.4 8.7 1.0
C D:LYS179 3.4 12.2 1.0
C D:VAL176 3.4 10.5 1.0
OD2 D:ASP174 3.6 21.0 1.0
CB D:ASP154 3.8 8.3 1.0
N D:LYS179 4.0 12.1 1.0
N D:VAL176 4.0 11.7 1.0
N D:ASP174 4.0 10.2 1.0
CA D:LYS179 4.1 13.4 1.0
CB D:ASP152 4.1 7.5 1.0
CA D:VAL176 4.2 12.2 1.0
OD2 D:ASP152 4.2 10.3 1.0
CB D:LYS179 4.2 15.8 1.0
N D:PRO177 4.3 11.2 1.0
CB D:ASP174 4.4 11.2 1.0
CA D:ASP152 4.4 7.9 1.0
CA D:PRO177 4.5 11.3 1.0
N D:LEU180 4.5 12.3 1.0
OD1 D:ASP154 4.5 10.7 1.0
N D:ASP154 4.5 8.7 1.0
O D:HOH2160 4.5 9.1 1.0
O D:VAL172 4.6 7.3 1.0
CB D:VAL176 4.6 12.3 1.0
CA D:ASP174 4.6 11.0 1.0
N D:GLY178 4.7 12.2 1.0
C D:PRO177 4.8 11.8 1.0
CA D:LEU180 4.8 12.0 1.0
CA D:ASP154 4.8 8.8 1.0
N D:GLY175 4.8 10.5 1.0
C D:ASP174 4.8 10.2 1.0
CA D:MET173 4.9 9.8 1.0
C D:MET173 4.9 11.8 1.0
C D:ASP152 5.0 7.8 1.0
N D:ARG153 5.0 7.8 1.0

Calcium binding site 5 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 5 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca1233

b:13.6
occ:1.00
 OD2 E:ASP154 2.3 9.6 1.0
OD1 E:ASP152 2.3 7.0 1.0
O E:LYS179 2.4 9.3 1.0
O E:VAL176 2.4 9.9 1.0
OD1 E:ASP174 2.4 10.0 0.3
O E:HOH2148 2.4 8.1 1.0
OD1 E:ASP174 2.4 11.7 0.7
CG E:ASP174 3.2 11.3 0.7
CG E:ASP154 3.3 9.6 1.0
CG E:ASP152 3.4 8.3 1.0
C E:VAL176 3.4 11.1 1.0
CG E:ASP174 3.4 9.5 0.3
C E:LYS179 3.5 9.4 1.0
OD2 E:ASP174 3.5 12.2 0.7
CB E:ASP154 3.7 9.2 1.0
N E:VAL176 3.9 10.6 1.0
N E:LYS179 4.0 10.0 1.0
N E:ASP174 4.0 9.2 1.0
OD2 E:ASP174 4.1 9.4 0.3
CA E:VAL176 4.1 10.9 1.0
CB E:ASP152 4.1 7.3 1.0
CA E:LYS179 4.2 9.3 1.0
OD2 E:ASP152 4.3 9.0 1.0
CB E:LYS179 4.3 13.4 1.0
N E:PRO177 4.3 11.1 1.0
CB E:ASP174 4.4 9.6 0.3
CA E:ASP152 4.4 7.5 1.0
N E:ASP154 4.4 8.2 1.0
OD1 E:ASP154 4.4 10.6 1.0
CB E:ASP174 4.4 10.4 0.7
CB E:VAL176 4.5 12.8 1.0
CA E:PRO177 4.5 10.7 1.0
O E:VAL172 4.5 8.2 1.0
N E:LEU180 4.5 8.7 1.0
O E:HOH2175 4.5 9.5 1.0
CA E:ASP174 4.7 9.5 1.0
CA E:ASP154 4.7 9.3 1.0
CA E:LEU180 4.8 8.6 1.0
N E:GLY178 4.8 10.4 1.0
C E:PRO177 4.8 10.7 1.0
N E:GLY175 4.8 10.8 1.0
N E:ARG153 4.9 7.3 1.0
C E:MET173 4.9 9.4 1.0
C E:ASP152 4.9 7.4 1.0
CA E:MET173 5.0 8.9 1.0
C E:ASP174 5.0 10.4 1.0

Calcium binding site 6 out of 6 in 4bz4

Go back to Calcium Binding Sites List in 4bz4
Calcium binding site 6 out of 6 in the Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cora Is A Surface-Associated Copper-Binding Protein Important in Methylomicrobium Album BG8 Copper Acquisition within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca1233

b:11.2
occ:1.00
 OD2 F:ASP154 2.2 8.5 1.0
O F:LYS179 2.3 9.0 1.0
OD1 F:ASP174 2.3 9.8 1.0
OD1 F:ASP152 2.4 9.0 1.0
O F:VAL176 2.4 9.0 1.0
O F:HOH2122 2.5 7.2 1.0
CG F:ASP174 3.1 13.4 1.0
CG F:ASP154 3.3 9.0 1.0
C F:VAL176 3.4 9.4 1.0
CG F:ASP152 3.4 8.3 1.0
C F:LYS179 3.4 9.4 1.0
OD2 F:ASP174 3.4 19.7 1.0
CB F:ASP154 3.8 8.5 1.0
N F:VAL176 4.0 10.9 1.0
N F:ASP174 4.0 8.7 1.0
N F:LYS179 4.0 9.4 1.0
CB F:ASP152 4.1 7.3 1.0
CA F:VAL176 4.1 9.8 1.0
CA F:LYS179 4.1 9.7 1.0
N F:PRO177 4.3 9.5 1.0
CB F:LYS179 4.3 12.0 1.0
OD2 F:ASP152 4.3 8.4 1.0
CB F:ASP174 4.4 10.8 1.0
OD1 F:ASP154 4.4 9.3 1.0
CA F:ASP152 4.5 6.7 1.0
CB F:VAL176 4.5 12.3 1.0
CA F:PRO177 4.5 9.3 1.0
N F:LEU180 4.5 9.2 1.0
O F:VAL172 4.5 6.3 1.0
O F:HOH2144 4.6 7.7 1.0
N F:ASP154 4.6 8.0 1.0
CA F:ASP174 4.6 9.5 1.0
N F:GLY178 4.7 8.8 1.0
C F:PRO177 4.8 9.8 1.0
CA F:LEU180 4.8 9.4 1.0
CA F:ASP154 4.8 8.2 1.0
N F:GLY175 4.9 10.8 1.0
C F:ASP174 4.9 10.2 1.0
C F:MET173 4.9 8.8 1.0
CA F:MET173 4.9 8.6 1.0
N F:ARG153 5.0 7.6 1.0

Reference:

K.A.Johnson, T.Ve, O.Larsen, R.B.Pedersen, J.R.Lillehaug, H.B.Jensen, R.Helland, O.A.Karlsen. Cora Is A Copper Repressible Surface-Associated Copper(I)- Binding Protein Produced in Methylomicrobium Album BG8. Plos One V. 9 87750 2014.
ISSN: ISSN 1932-6203
PubMed: 24498370
DOI: 10.1371/JOURNAL.PONE.0087750
Page generated: Sat Jul 13 22:54:14 2024

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