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Calcium in PDB 6tfl: Lsm Protein (Smap) From Halobacterium Salinarum

Protein crystallography data

The structure of Lsm Protein (Smap) From Halobacterium Salinarum, PDB code: 6tfl was solved by A.D.Nikulin, M.S.Fando, N.V.Lekontseva, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.40
Space group P 41 21 2 1
Cell size a, b, c (Å), α, β, γ (°) 156.450, 156.450, 106.630, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 23.1

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 28;

Binding sites:

The binding sites of Calcium atom in the Lsm Protein (Smap) From Halobacterium Salinarum (pdb code 6tfl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 28 binding sites of Calcium where determined in the Lsm Protein (Smap) From Halobacterium Salinarum, PDB code: 6tfl:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 28 in 6tfl

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Calcium binding site 1 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca101

b:81.6
occ:1.00
 O A:HOH204 3.0 51.5 1.0
OE2 A:GLU43 3.2 80.7 1.0
OE1 A:GLU43 3.4 70.1 1.0
CD A:GLU43 3.7 78.0 1.0
OG1 A:THR47 4.7 47.4 1.0

Calcium binding site 2 out of 28 in 6tfl

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Calcium binding site 2 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca102

b:89.5
occ:1.00
 O A:GLU11 2.4 54.8 1.0
O A:HOH211 2.6 61.9 1.0
OE2 A:GLU15 2.8 69.6 1.0
O A:HOH201 3.2 47.9 1.0
C A:GLU11 3.5 48.0 1.0
CD A:GLU15 3.7 60.9 1.0
OE1 A:GLU15 3.9 67.5 1.0
CB A:GLU11 4.0 45.6 1.0
CA A:GLU11 4.0 48.0 1.0
O A:HOH215 4.3 41.8 1.0
N A:SER12 4.7 44.7 1.0
CA A:SER12 5.0 41.6 1.0

Calcium binding site 3 out of 28 in 6tfl

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Calcium binding site 3 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca101

b:45.7
occ:1.00
 OE2 B:GLU15 2.2 47.3 1.0
O B:GLU11 2.4 40.9 1.0
O B:HOH213 2.5 39.5 1.0
CD B:GLU15 3.4 52.2 1.0
C B:GLU11 3.5 41.7 1.0
CG B:GLU15 4.2 44.3 1.0
OE1 B:GLU15 4.3 70.3 1.0
CA B:GLU11 4.4 42.8 1.0
N B:SER12 4.5 44.0 1.0
CA B:SER12 4.5 38.9 1.0
CB B:GLU11 4.7 36.9 1.0
O B:LEU13 4.8 47.1 1.0
OE2 B:GLU11 4.8 61.7 1.0

Calcium binding site 4 out of 28 in 6tfl

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Calcium binding site 4 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca102

b:90.4
occ:1.00
 O B:HOH216 2.3 54.0 1.0
O B:HOH217 2.4 58.8 1.0
OE2 B:GLU11 2.7 61.7 1.0
OE1 B:GLU11 3.5 62.9 1.0
CD B:GLU11 3.5 61.6 1.0
CG B:GLU11 5.0 39.7 1.0

Calcium binding site 5 out of 28 in 6tfl

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Calcium binding site 5 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca101

b:38.6
occ:1.00
 OXT D:PRO60 2.2 49.1 1.0
O D:THR16 2.3 38.0 1.0
O D:HOH209 2.3 42.4 1.0
O D:HOH222 2.4 37.7 1.0
C D:PRO60 3.5 48.7 1.0
C D:THR16 3.5 41.6 1.0
O D:PRO60 4.1 49.2 1.0
CA D:THR16 4.2 34.9 1.0
N D:THR16 4.3 33.6 1.0
CB D:THR16 4.3 34.1 1.0
CA D:PRO60 4.5 46.8 1.0
N D:VAL17 4.5 38.3 1.0
CA D:VAL17 4.7 38.2 1.0

Calcium binding site 6 out of 28 in 6tfl

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Calcium binding site 6 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca102

b:70.9
occ:1.00
 O D:HOH221 2.4 49.8 1.0
O D:HOH223 2.4 51.2 1.0
O A:HOH218 2.6 50.7 1.0
O A:HOH217 2.6 53.8 1.0
O D:HOH203 2.6 53.4 1.0
OG1 D:THR47 3.1 50.5 1.0
OXT A:PRO60 3.6 67.7 1.0
CB D:THR47 3.7 42.5 1.0
N D:THR47 4.2 43.1 1.0
C A:PRO60 4.4 59.9 1.0
OE2 D:GLU43 4.5 55.0 1.0
CA D:THR47 4.6 46.2 1.0
O A:PRO60 4.6 71.2 1.0
CG2 D:THR47 4.9 44.6 1.0
OE1 D:GLU43 5.0 56.9 1.0

Calcium binding site 7 out of 28 in 6tfl

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Calcium binding site 7 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca103

b:56.4
occ:0.70
 OE1 D:GLU15 2.3 57.6 1.0
O D:GLU11 2.5 47.2 1.0
CD D:GLU15 3.1 50.9 1.0
OE2 D:GLU15 3.2 55.9 1.0
O D:HOH227 3.3 55.2 1.0
O D:HOH219 3.7 53.5 1.0
C D:GLU11 3.7 39.6 1.0
CA D:GLU11 4.4 41.2 1.0
CB D:GLU11 4.5 42.5 1.0
O D:HOH214 4.5 53.4 1.0
CG D:GLU15 4.6 44.6 1.0
N D:SER12 4.7 36.0 1.0
O D:HOH211 4.8 61.3 1.0
CA D:SER12 4.9 35.0 1.0

Calcium binding site 8 out of 28 in 6tfl

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Calcium binding site 8 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca104

b:81.3
occ:1.00
 O D:HOH225 2.4 57.2 1.0
O D:HOH226 2.6 54.8 1.0
O D:HOH206 4.5 49.3 1.0
O D:HOH202 4.7 39.4 1.0

Calcium binding site 9 out of 28 in 6tfl

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Calcium binding site 9 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca101

b:67.4
occ:1.00
 O J:HOH213 2.4 65.7 1.0
O J:HOH212 2.5 49.4 1.0
O E:HOH206 4.2 45.9 1.0
O E:HOH220 4.6 43.7 1.0
O E:SER2 4.7 34.9 1.0
O J:HOH207 4.7 45.6 1.0
O J:HOH201 4.8 47.4 1.0
OD2 E:ASP7 4.9 57.0 1.0

Calcium binding site 10 out of 28 in 6tfl

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Calcium binding site 10 out of 28 in the Lsm Protein (Smap) From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Lsm Protein (Smap) From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca102

b:84.2
occ:1.00
 OE2 E:GLU15 2.5 81.9 1.0
O E:HOH216 2.6 59.5 1.0
O E:GLU11 2.7 59.9 1.0
CD E:GLU15 3.5 69.7 1.0
C E:GLU11 3.8 48.0 1.0
OE1 E:GLU11 3.8 71.4 1.0
OE1 E:GLU15 3.9 72.2 1.0
CA E:GLU11 4.4 46.5 1.0
CB E:GLU11 4.4 46.4 1.0
CG E:GLU15 4.8 55.5 1.0
N E:SER12 4.9 45.0 1.0
CD E:GLU11 4.9 68.5 1.0

Reference:

A.D.Nikulin, M.S.Fando. Lsm Protein (Smap) From Halobacterium Salinarum To Be Published.
Page generated: Tue Jul 16 15:14:39 2024

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