Calcium in PDB 6qlb: Calpain Small Subunit 1, Rna-Binding Protein Hfq

Protein crystallography data

The structure of Calpain Small Subunit 1, Rna-Binding Protein Hfq, PDB code: 6qlb was solved by P.J.Rizkallah, J.O.Cresser-Brown, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 66.01 / 2.32
Space group P 21 3
Cell size a, b, c (Å), α, β, γ (°) 147.607, 147.607, 147.607, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 24.7

Calcium Binding Sites:

Pages:

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

Binding sites:

The binding sites of Calcium atom in the Calpain Small Subunit 1, Rna-Binding Protein Hfq (pdb code 6qlb). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 20 binding sites of Calcium where determined in the Calpain Small Subunit 1, Rna-Binding Protein Hfq, PDB code: 6qlb:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 20 in 6qlb

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Calcium binding site 1 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca201

b:49.7
occ:1.00
OD1 A:ASP59 2.2 53.6 1.0
O A:LYS63 2.3 52.0 1.0
OD1 A:ASP57 2.3 50.4 1.0
OE2 A:GLU68 2.4 65.7 1.0
O A:HOH301 2.5 46.6 1.0
OG1 A:THR61 2.5 52.7 1.0
OE1 A:GLU68 3.0 69.8 1.0
CD A:GLU68 3.1 64.4 1.0
CG A:ASP59 3.2 58.5 1.0
CG A:ASP57 3.5 47.6 1.0
C A:LYS63 3.5 51.1 1.0
OD2 A:ASP59 3.6 60.0 1.0
CB A:THR61 3.7 54.2 1.0
CG2 A:THR61 4.0 54.7 1.0
N A:THR61 4.0 50.8 1.0
OE1 A:GLU19 4.1 67.9 1.0
N A:GLY65 4.1 56.0 1.0
CA A:ASP57 4.2 49.6 1.0
OE2 A:GLU19 4.3 68.6 1.0
CA A:LEU64 4.3 50.2 1.0
N A:LYS63 4.3 51.1 1.0
CB A:ASP57 4.3 46.7 1.0
N A:LEU64 4.3 49.8 1.0
OD2 A:ASP57 4.4 44.2 1.0
CA A:THR61 4.4 51.7 1.0
CD A:GLU19 4.5 66.7 1.0
CA A:LYS63 4.5 50.5 1.0
CB A:ASP59 4.6 59.4 1.0
CG A:GLU68 4.6 61.4 1.0
C A:LEU64 4.6 54.8 1.0
N A:ASP59 4.6 56.0 1.0
N A:THR60 4.6 52.7 1.0
C A:ASP57 4.6 52.0 1.0
N A:GLY62 4.7 48.8 1.0
C A:ASP59 4.8 54.6 1.0
C A:THR61 4.9 50.9 1.0
CA A:ASP59 4.9 56.2 1.0

Calcium binding site 2 out of 20 in 6qlb

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Calcium binding site 2 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca202

b:57.4
occ:1.00
O A:HOH303 2.1 53.1 1.0
OD1 A:ASP87 2.2 63.0 1.0
O A:THR93 2.4 53.2 1.0
OG A:SER91 2.4 63.2 1.0
OD1 A:ASP89 2.4 69.3 1.0
OE1 A:GLU98 2.5 54.4 1.0
OE2 A:GLU98 2.6 57.7 1.0
CD A:GLU98 2.9 56.0 1.0
CG A:ASP87 3.4 62.2 1.0
CG A:ASP89 3.4 69.5 1.0
C A:THR93 3.6 49.6 1.0
CB A:SER91 3.6 65.8 1.0
OD2 A:ASP89 3.8 66.4 1.0
CA A:ASP87 4.0 61.1 1.0
N A:SER91 4.0 70.3 1.0
CB A:ASP87 4.1 61.0 1.0
OG1 A:THR93 4.2 54.7 1.0
N A:GLY95 4.2 51.5 1.0
OD2 A:ASP87 4.2 61.9 1.0
C A:ASP87 4.3 65.5 1.0
N A:ASP89 4.3 73.8 1.0
CA A:SER91 4.4 67.2 1.0
N A:ILE94 4.4 48.1 1.0
N A:THR93 4.4 52.4 1.0
CA A:ILE94 4.4 49.4 1.0
CG A:GLU98 4.4 55.7 1.0
ND2 A:ASN128 4.5 59.0 1.0
CA A:THR93 4.5 50.4 1.0
N A:THR88 4.6 68.0 1.0
N A:ARG90 4.6 77.4 1.0
CB A:ASP89 4.6 73.0 1.0
C A:ILE94 4.8 49.3 1.0
CA A:ASP89 4.8 74.5 1.0
O A:ASP87 4.8 65.8 1.0
C A:ASP89 4.8 74.6 1.0
N A:GLY92 4.9 61.2 1.0
C A:SER91 5.0 64.8 1.0

Calcium binding site 3 out of 20 in 6qlb

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Calcium binding site 3 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca203

b:44.0
occ:1.00
O A:HOH325 2.1 34.6 1.0
OD1 A:ASN133 2.2 35.9 1.0
OD2 A:ASP130 2.3 43.8 1.0
O A:HOH311 2.4 46.4 1.0
OD1 A:ASP130 2.6 44.3 1.0
OD1 A:ASP42 2.6 49.1 1.0
OD1 A:ASP132 2.6 45.9 1.0
OD2 A:ASP132 2.6 41.4 1.0
CG A:ASP130 2.7 43.2 1.0
CG A:ASP132 2.9 43.0 1.0
CG A:ASN133 3.3 35.6 1.0
CG A:ASP42 3.4 54.0 1.0
OD2 A:ASP42 3.7 63.2 1.0
ND2 A:ASN133 4.0 36.5 1.0
N A:ASN133 4.2 36.0 1.0
CB A:ASN133 4.2 35.3 1.0
CB A:ASP130 4.2 44.0 1.0
O A:HOH322 4.3 45.1 1.0
CB A:ASP132 4.4 42.0 1.0
N A:ASP42 4.6 52.0 1.0
CA A:ASN133 4.7 34.9 1.0
O A:GLY43 4.8 47.6 1.0
CB A:ASP42 4.8 53.5 1.0
OD1 B:ASP47 4.8 59.4 1.0
OG1 A:THR41 4.8 53.4 1.0
OD2 B:ASP47 4.8 64.3 1.0
C A:ASP132 4.9 36.4 1.0
O A:HOH319 5.0 46.4 1.0

Calcium binding site 4 out of 20 in 6qlb

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Calcium binding site 4 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca204

b:70.1
occ:1.00
OD1 A:ASP17 2.2 75.7 1.0
O A:HOH309 2.3 62.1 1.0
OE1 A:GLU24 2.3 57.7 1.0
O A:GLU19 2.4 58.4 1.0
O A:ALA14 2.4 71.0 1.0
O A:HOH318 2.4 52.5 1.0
OE2 A:GLU24 2.5 60.8 1.0
CD A:GLU24 2.8 57.8 1.0
CG A:ASP17 3.3 77.1 1.0
C A:ALA14 3.5 75.9 1.0
C A:GLU19 3.6 58.2 1.0
OD2 A:ASP17 3.7 76.4 1.0
CA A:ALA14 4.0 74.7 1.0
N A:SER21 4.2 50.2 1.0
CG A:GLU24 4.3 56.7 1.0
N A:GLU19 4.4 67.4 1.0
N A:VAL20 4.4 54.9 1.0
CA A:VAL20 4.4 53.4 1.0
N A:GLY15 4.6 80.7 1.0
CB A:ASP17 4.6 78.3 1.0
CA A:GLU19 4.6 63.1 1.0
N A:ASP17 4.7 84.9 1.0
CB A:ALA14 4.7 75.0 1.0
C A:VAL20 4.7 49.9 1.0
CB A:SER21 4.8 47.9 1.0
O A:LEU13 4.8 72.8 1.0
OG A:SER21 4.8 51.2 1.0
N A:MET18 4.9 80.7 1.0
CD A:LYS63 5.0 56.8 1.0
CA A:ASP17 5.0 81.3 1.0

Calcium binding site 5 out of 20 in 6qlb

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Calcium binding site 5 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca205

b:86.3
occ:1.00
O A:GLN158 2.3 51.2 1.0
OG1 A:THR156 2.3 43.4 1.0
OD1 A:ASN154 2.7 50.8 1.0
O A:HOH324 2.7 44.4 1.0
O A:HOH329 2.7 46.4 1.0
OD1 A:ASP152 2.8 49.7 1.0
C A:GLN158 3.4 47.0 1.0
CG A:ASN154 3.6 53.1 1.0
CB A:THR156 3.6 46.5 1.0
ND2 A:ASN154 3.8 53.6 1.0
CG2 A:THR156 3.9 49.1 1.0
CG A:ASP152 4.0 45.9 1.0
N A:GLN158 4.1 46.2 1.0
N A:THR156 4.1 46.4 1.0
CA A:GLN158 4.2 47.3 1.0
CB A:GLN158 4.2 51.8 1.0
CA A:THR156 4.3 46.6 1.0
N A:ILE159 4.4 44.9 1.0
CA A:ASP152 4.5 46.1 1.0
CA A:ILE159 4.6 45.1 1.0
CB A:ASP152 4.7 44.1 1.0
N A:GLY157 4.8 43.3 1.0
C A:THR156 4.8 44.7 1.0
OD2 A:ASP152 4.8 45.7 1.0
C A:ASP152 5.0 50.0 1.0
CB A:ASN154 5.0 55.6 1.0
N A:ASN154 5.0 55.6 1.0

Calcium binding site 6 out of 20 in 6qlb

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Calcium binding site 6 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca201

b:45.9
occ:1.00
O B:ALA14 2.2 55.6 1.0
OD1 B:ASP17 2.3 60.4 1.0
O B:HOH324 2.3 45.2 1.0
O B:GLU19 2.4 46.5 1.0
OE1 B:GLU24 2.4 43.4 1.0
OE2 B:GLU24 2.5 47.8 1.0
O B:HOH316 2.6 52.7 1.0
CD B:GLU24 2.8 43.8 1.0
C B:ALA14 3.3 55.4 1.0
CG B:ASP17 3.3 62.7 1.0
C B:GLU19 3.7 47.9 1.0
OD2 B:ASP17 3.8 62.4 1.0
CA B:ALA14 3.8 54.3 1.0
CG B:GLU24 4.3 42.3 1.0
N B:SER21 4.4 40.0 1.0
N B:GLU19 4.4 55.6 1.0
N B:GLY15 4.4 55.0 1.0
CA B:VAL20 4.5 42.9 1.0
N B:VAL20 4.6 44.0 1.0
CB B:ALA14 4.6 55.8 1.0
CB B:ASP17 4.6 65.8 1.0
N B:ASP17 4.6 68.6 1.0
CA B:GLU19 4.7 52.2 1.0
O B:LEU13 4.7 52.3 1.0
N B:MET18 4.8 67.4 1.0
CA B:GLY15 4.9 60.2 1.0
C B:VAL20 4.9 40.2 1.0
CB B:SER21 5.0 40.3 1.0
OG B:SER21 5.0 40.1 1.0
C B:GLY15 5.0 62.9 1.0
CA B:ASP17 5.0 66.2 1.0

Calcium binding site 7 out of 20 in 6qlb

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Calcium binding site 7 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca202

b:51.5
occ:1.00
OD1 B:ASP59 2.2 60.9 1.0
O B:LYS63 2.2 43.2 1.0
OD1 B:ASP57 2.4 49.3 1.0
OE1 B:GLU68 2.4 54.1 1.0
O B:HOH301 2.5 38.3 1.0
OG1 B:THR61 2.5 50.2 1.0
OE2 B:GLU68 2.9 56.7 1.0
CD B:GLU68 3.0 53.6 1.0
CG B:ASP59 3.2 57.7 1.0
OD2 B:ASP59 3.5 58.6 1.0
C B:LYS63 3.5 44.1 1.0
CG B:ASP57 3.6 48.0 1.0
CB B:THR61 3.7 50.5 1.0
CG2 B:THR61 4.0 53.7 1.0
N B:THR61 4.0 46.1 1.0
N B:GLY65 4.1 43.8 1.0
OE1 B:GLU19 4.1 59.0 1.0
OE2 B:GLU19 4.3 61.0 1.0
CA B:ASP57 4.3 50.8 1.0
N B:LYS63 4.3 45.6 1.0
CA B:LEU64 4.3 43.7 1.0
N B:LEU64 4.3 43.4 1.0
CB B:ASP57 4.4 49.3 1.0
CA B:THR61 4.4 47.9 1.0
OD2 B:ASP57 4.4 45.8 1.0
CG B:GLU68 4.5 49.9 1.0
CA B:LYS63 4.5 44.9 1.0
CB B:ASP59 4.5 56.2 1.0
CD B:GLU19 4.6 58.8 1.0
C B:LEU64 4.6 44.7 1.0
N B:ASP59 4.6 56.0 1.0
C B:ASP57 4.7 57.4 1.0
N B:THR60 4.7 49.9 1.0
N B:GLY62 4.8 45.2 1.0
C B:ASP59 4.8 53.3 1.0
C B:THR61 4.9 46.1 1.0
CA B:ASP59 4.9 56.4 1.0
N B:SER58 4.9 63.9 1.0

Calcium binding site 8 out of 20 in 6qlb

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Calcium binding site 8 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca203

b:37.3
occ:1.00
O B:HOH310 2.3 38.6 1.0
OD1 B:ASP87 2.4 36.2 1.0
O B:THR93 2.4 31.2 1.0
OG B:SER91 2.4 33.2 1.0
OD1 B:ASP89 2.4 45.2 1.0
OE1 B:GLU98 2.5 32.5 1.0
OE2 B:GLU98 2.6 33.6 1.0
CD B:GLU98 2.9 34.2 1.0
CG B:ASP89 3.4 42.4 1.0
CG B:ASP87 3.5 34.8 1.0
CB B:SER91 3.5 34.1 1.0
C B:THR93 3.6 32.4 1.0
OD2 B:ASP89 3.8 44.1 1.0
N B:SER91 4.0 34.9 1.0
CA B:ASP87 4.1 36.0 1.0
OG1 B:THR93 4.1 33.5 1.0
N B:GLY95 4.2 34.9 1.0
CB B:ASP87 4.3 35.1 1.0
OD2 B:ASP87 4.4 33.5 1.0
CA B:SER91 4.4 35.2 1.0
C B:ASP87 4.4 37.4 1.0
N B:ILE94 4.4 32.2 1.0
N B:THR93 4.4 33.2 1.0
N B:ASP89 4.4 40.5 1.0
CG B:GLU98 4.4 33.5 1.0
CA B:ILE94 4.4 33.7 1.0
CA B:THR93 4.5 32.4 1.0
OD1 B:ASN128 4.6 44.6 1.0
CB B:ASP89 4.6 41.7 1.0
N B:ARG90 4.6 37.7 1.0
N B:THR88 4.6 41.2 1.0
C B:ILE94 4.8 34.3 1.0
CA B:ASP89 4.8 40.7 1.0
O B:HOH308 4.8 42.2 1.0
C B:ASP89 4.9 38.1 1.0
O B:ASP87 4.9 37.8 1.0
N B:GLY92 5.0 32.6 1.0
CB B:THR93 5.0 32.5 1.0
C B:SER91 5.0 33.3 1.0

Calcium binding site 9 out of 20 in 6qlb

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Calcium binding site 9 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca204

b:37.7
occ:1.00
O A:HOH313 2.2 44.9 1.0
OD2 B:ASP130 2.3 39.4 1.0
ND2 B:ASN133 2.4 34.2 1.0
OD1 B:ASP42 2.4 44.9 1.0
OD1 B:ASP130 2.5 36.0 1.0
O B:HOH325 2.5 43.9 1.0
OD1 B:ASP132 2.5 37.5 1.0
OD2 B:ASP132 2.6 37.9 1.0
CG B:ASP130 2.8 35.2 1.0
CG B:ASP132 2.9 34.5 1.0
CG B:ASN133 3.3 35.3 1.0
CG B:ASP42 3.3 46.9 1.0
OD2 B:ASP42 3.7 54.7 1.0
OD1 B:ASN133 3.9 42.1 1.0
N B:ASN133 4.1 33.3 1.0
CB B:ASN133 4.2 34.8 1.0
CB B:ASP130 4.3 33.3 1.0
CB B:ASP132 4.3 33.1 1.0
O B:HOH321 4.4 39.4 1.0
N B:ASP42 4.4 38.8 1.0
CB B:ASP42 4.6 44.7 1.0
OD1 A:ASP47 4.6 58.7 1.0
NH1 A:ARG50 4.6 52.5 1.0
CA B:ASN133 4.7 32.7 1.0
O B:GLY43 4.7 40.6 1.0
OG1 B:THR41 4.8 37.3 1.0
O B:HOH323 4.8 40.4 1.0
C B:ASP132 4.9 34.5 1.0
N B:ASP132 5.0 34.1 1.0
CA B:ASP132 5.0 34.3 1.0

Calcium binding site 10 out of 20 in 6qlb

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Calcium binding site 10 out of 20 in the Calpain Small Subunit 1, Rna-Binding Protein Hfq


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Calpain Small Subunit 1, Rna-Binding Protein Hfq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca205

b:0.5
occ:1.00
OD1 B:ASN154 2.3 59.8 1.0
O B:HOH338 2.4 42.2 1.0
OG1 B:THR156 2.5 44.3 1.0
O B:GLN158 2.8 45.2 1.0
OD1 B:ASP152 3.0 43.5 1.0
CG B:ASN154 3.2 61.8 1.0
ND2 B:ASN154 3.3 60.2 1.0
CB B:THR156 3.7 47.5 1.0
OE1 B:GLN158 3.8 64.2 1.0
CG2 B:THR156 3.9 49.1 1.0
C B:GLN158 3.9 46.3 1.0
CG B:ASP152 4.2 42.4 1.0
N B:THR156 4.3 49.1 1.0
CG B:GLN158 4.3 57.4 1.0
CD B:GLN158 4.5 64.8 1.0
CA B:THR156 4.5 47.0 1.0
N B:GLN158 4.5 44.6 1.0
OE1 B:GLN160 4.6 79.2 1.0
CA B:ASP152 4.6 44.7 1.0
CB B:ASN154 4.6 62.9 1.0
CA B:GLN158 4.7 47.0 1.0
N B:ASN154 4.7 61.0 1.0
O B:HOH328 4.7 48.6 1.0
N B:ILE159 4.8 46.5 1.0
CB B:ASP152 4.9 42.5 1.0
CB B:GLN158 4.9 50.3 1.0
N B:GLY155 5.0 53.1 1.0
C B:ASP152 5.0 48.7 1.0

Reference:

P.J.Rizkallah, J.O.Cresser-Brown. Calpain Small Subunit 1, Rna-Binding Protein Hfq Acta Crystallogr.,Sect.F.
ISSN: ESSN 1744-3091
Page generated: Sat Dec 12 07:27:37 2020

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