Calcium in PDB 8y6b: Structure of Human LGI1-ADAM22 Complex in Space Group P212121

Protein crystallography data

The structure of Structure of Human LGI1-ADAM22 Complex in Space Group P212121, PDB code: 8y6b was solved by H.Liu, F.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.46 / 3.49
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.448, 196.078, 420.75, 90, 90, 90
R / Rfree (%) 23.6 / 27.7

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121 (pdb code 8y6b). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121, PDB code: 8y6b:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in 8y6b

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Calcium binding site 1 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca804

b:169.3
occ:1.00
OD1 A:ASP325 2.3 126.8 1.0
OD1 A:ASN436 2.4 144.4 1.0
O A:CYS433 2.4 132.0 1.0
ND2 A:ASN436 2.6 139.9 1.0
CG A:ASN436 2.7 143.6 1.0
OE2 A:GLU242 2.8 153.9 1.0
OD2 A:ASP325 2.8 145.3 1.0
CG A:ASP325 2.9 137.2 1.0
C A:CYS433 3.5 144.2 1.0
CD A:GLU242 3.6 155.6 1.0
CB A:CYS433 3.9 166.6 1.0
CB A:ASN436 4.1 146.5 1.0
CA A:CYS433 4.1 147.4 1.0
CG A:GLU242 4.2 154.3 1.0
CB A:ASP325 4.4 137.9 1.0
OE1 A:GLU242 4.5 150.7 1.0
SG A:CYS433 4.5 188.1 1.0
N A:LEU434 4.6 144.2 1.0
CB A:GLU242 4.8 149.9 1.0
N A:ASN436 4.8 149.8 1.0
CA A:LEU434 4.8 152.2 1.0
O A:ASN436 5.0 174.0 1.0

Calcium binding site 2 out of 12 in 8y6b

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Calcium binding site 2 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca805

b:181.8
occ:1.00
OD1 A:ASN526 2.3 174.3 1.0
O A:ILE512 2.4 180.1 1.0
OD1 A:ASP511 2.4 153.0 1.0
OE1 A:GLU514 2.5 203.8 1.0
O A:ILE527 2.5 161.6 1.0
OE2 A:GLU514 2.7 202.7 1.0
CD A:GLU514 2.9 204.8 1.0
CG A:ASP511 3.1 155.8 1.0
OD2 A:ASP511 3.2 152.6 1.0
CG A:ASN526 3.5 176.2 1.0
NH2 A:ARG504 3.5 173.0 1.0
C A:ILE512 3.6 175.9 1.0
C A:ILE527 3.6 163.4 1.0
N A:ILE527 3.7 161.5 1.0
NE A:ARG504 4.0 178.2 1.0
N A:ILE512 4.0 175.7 1.0
CZ A:ARG504 4.2 175.6 1.0
ND2 A:ASN526 4.2 175.9 1.0
CA A:ILE527 4.3 159.2 1.0
CA A:ILE512 4.3 175.9 1.0
CG A:GLU514 4.4 205.8 1.0
C A:ASN526 4.5 155.8 1.0
CB A:ASP511 4.5 162.4 1.0
CA A:ASN526 4.5 174.3 1.0
N A:ARG513 4.6 184.9 1.0
CB A:ASN526 4.6 176.4 1.0
CA A:ARG513 4.7 180.8 1.0
N A:HIS528 4.7 149.4 1.0
C A:ASP511 4.8 178.8 1.0
CA A:ASP511 4.9 171.3 1.0
CB A:ILE512 4.9 172.0 1.0
CA A:HIS528 5.0 152.7 1.0
N A:GLU514 5.0 190.2 1.0

Calcium binding site 3 out of 12 in 8y6b

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Calcium binding site 3 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca806

b:281.8
occ:1.00
OD2 A:ASP459 2.2 225.9 1.0
OE2 A:GLU456 2.2 282.2 1.0
OE1 A:GLU456 2.3 282.5 1.0
O A:PHE451 2.3 246.7 1.0
CD A:GLU456 2.5 281.1 1.0
O A:GLU446 2.5 251.3 1.0
O A:HOH901 2.5 233.4 1.0
OD1 A:ASN449 2.8 235.1 1.0
CG A:ASP459 3.2 231.4 1.0
C A:PHE451 3.6 245.2 1.0
C A:GLU446 3.6 249.5 1.0
CG A:ASN449 3.7 234.3 1.0
CB A:ASP459 3.8 243.9 1.0
CG A:GLU456 4.0 276.9 1.0
CA A:CYS447 4.0 249.8 1.0
ND2 A:ASN449 4.1 233.8 1.0
N A:GLU453 4.2 261.8 1.0
OD1 A:ASP459 4.2 231.1 1.0
N A:CYS447 4.3 244.3 1.0
N A:GLY448 4.4 247.4 1.0
CA A:ILE452 4.4 253.8 1.0
N A:PHE451 4.4 235.9 1.0
N A:ILE452 4.4 257.4 1.0
CA A:PHE451 4.6 240.0 1.0
CB A:GLU453 4.6 238.4 1.0
C A:CYS447 4.6 233.0 1.0
N A:GLU446 4.6 233.6 1.0
CG A:GLU453 4.6 222.7 1.0
SG A:CYS477 4.6 267.4 1.0
N A:ASN449 4.7 217.1 1.0
C A:ILE452 4.7 250.5 1.0
CA A:GLU446 4.8 224.6 1.0
CB A:GLU456 4.9 270.2 1.0

Calcium binding site 4 out of 12 in 8y6b

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Calcium binding site 4 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca604

b:82.1
occ:1.00
OE2 D:GLU336 2.5 135.4 1.0
OD2 D:ASP334 2.6 110.5 1.0
O D:VAL382 2.7 96.6 1.0
OD1 D:ASP381 2.8 112.5 1.0
OE1 D:GLU383 3.3 124.6 1.0
CD D:GLU336 3.4 128.0 1.0
CG D:ASP334 3.5 114.5 1.0
CG D:GLU336 3.5 120.8 1.0
OD1 D:ASP334 3.6 108.8 1.0
CG D:ASP381 3.7 109.5 1.0
NZ D:LYS436 3.8 104.6 1.0
C D:VAL382 3.9 91.6 1.0
OD2 D:ASP381 4.0 113.0 1.0
CE D:LYS436 4.3 95.7 1.0
N D:VAL382 4.4 93.9 1.0
OE1 D:GLU336 4.5 124.1 1.0
CD D:GLU383 4.6 127.4 1.0
O D:ILE335 4.8 128.0 1.0
CA D:VAL382 4.8 91.8 1.0
N D:GLU383 4.8 91.2 1.0
CA D:GLU383 4.8 104.7 1.0
CB D:ASP334 4.9 113.6 1.0
CD D:LYS436 4.9 107.4 1.0
CB D:GLU336 5.0 119.1 1.0

Calcium binding site 5 out of 12 in 8y6b

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Calcium binding site 5 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca804

b:82.4
occ:1.00
O B:GLU446 2.0 115.1 1.0
OE2 B:GLU456 2.2 126.8 1.0
OE1 B:GLU456 2.5 107.4 1.0
OD1 B:ASN449 2.6 83.0 1.0
OE1 B:GLU453 2.6 91.9 1.0
CD B:GLU456 2.6 106.5 1.0
OD2 B:ASP459 2.6 64.7 1.0
O B:PHE451 2.9 69.3 1.0
CG B:ASN449 3.1 78.4 1.0
C B:GLU446 3.2 112.6 1.0
ND2 B:ASN449 3.3 72.7 1.0
CD B:GLU453 3.8 111.8 1.0
CG B:ASP459 3.8 93.8 1.0
N B:GLU446 3.9 84.8 1.0
CB B:GLU453 4.0 109.8 1.0
N B:CYS447 4.1 104.7 1.0
C B:PHE451 4.1 73.9 1.0
CA B:CYS447 4.1 101.1 1.0
CG B:GLU456 4.1 86.7 1.0
CA B:GLU446 4.1 94.1 1.0
CB B:ASN449 4.2 76.0 1.0
N B:GLU453 4.3 95.0 1.0
CG B:GLU453 4.5 113.5 1.0
N B:ASN449 4.5 96.2 1.0
N B:PHE451 4.6 47.0 1.0
CB B:ASP459 4.6 89.5 1.0
N B:GLY448 4.6 96.0 1.0
C B:CYS447 4.7 88.4 1.0
OD1 B:ASP459 4.7 109.6 1.0
OE2 B:GLU453 4.7 131.1 1.0
C B:ILE452 4.8 94.5 1.0
CA B:GLU453 4.8 109.1 1.0
CB B:GLU446 4.9 106.0 1.0
CA B:PHE451 4.9 66.7 1.0
CA B:ILE452 4.9 75.5 1.0
CA B:ASN449 4.9 84.4 1.0
CB B:GLU456 4.9 87.7 1.0
N B:ILE452 5.0 87.8 1.0

Calcium binding site 6 out of 12 in 8y6b

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Calcium binding site 6 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca805

b:36.2
occ:1.00
OD1 B:ASN436 2.3 59.0 1.0
OD1 B:ASP325 2.4 50.4 1.0
O B:CYS433 2.4 57.6 1.0
OD2 B:ASP325 2.5 59.7 1.0
O B:HOH903 2.5 60.4 1.0
OE2 B:GLU242 2.5 77.3 1.0
O B:HOH931 2.6 60.7 1.0
CG B:ASP325 2.7 34.7 1.0
CG B:ASN436 3.2 56.8 1.0
CD B:GLU242 3.3 75.6 1.0
ND2 B:ASN436 3.4 57.3 1.0
C B:CYS433 3.6 52.9 1.0
CG B:GLU242 3.6 35.3 1.0
CB B:GLU242 4.1 35.1 1.0
CB B:ASP325 4.2 34.6 1.0
OE1 B:GLU242 4.3 99.2 1.0
N B:LEU434 4.4 43.3 1.0
CA B:CYS433 4.5 49.3 1.0
CB B:CYS433 4.5 58.0 1.0
O B:TYR240 4.5 62.8 1.0
CA B:LEU434 4.5 37.2 1.0
O B:ASN436 4.5 66.7 1.0
CB B:ASN436 4.6 37.5 1.0
N B:GLU242 4.6 35.1 1.0
SG B:CYS433 4.8 70.1 1.0
N B:ASP325 4.8 40.5 1.0
N B:ASN436 4.8 35.7 1.0
C B:LEU434 4.9 36.1 1.0
CA B:ASP325 4.9 40.9 1.0

Calcium binding site 7 out of 12 in 8y6b

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Calcium binding site 7 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca806

b:34.7
occ:1.00
OD1 B:ASN526 2.4 69.6 1.0
OE2 B:GLU514 2.4 49.5 1.0
OD1 B:ASP511 2.4 72.2 1.0
OE1 B:GLU514 2.4 92.2 1.0
O B:ILE512 2.4 55.8 1.0
O B:ILE527 2.6 34.5 1.0
CD B:GLU514 2.7 74.4 1.0
OD2 B:ASP511 2.9 56.1 1.0
CG B:ASP511 3.0 60.0 1.0
CG B:ASN526 3.5 57.0 1.0
C B:ILE512 3.6 34.8 1.0
C B:ILE527 3.7 46.2 1.0
N B:ILE527 3.7 34.6 1.0
N B:ILE512 3.9 56.7 1.0
ND2 B:ASN526 4.2 36.2 1.0
CG B:GLU514 4.2 69.8 1.0
CA B:ILE512 4.3 34.7 1.0
CB B:ASP511 4.4 49.2 1.0
CA B:ILE527 4.4 34.5 1.0
C B:ASN526 4.6 34.6 1.0
N B:ARG513 4.6 50.2 1.0
CD B:ARG504 4.6 62.7 1.0
CA B:ASN526 4.6 52.7 1.0
CB B:ASN526 4.7 50.1 1.0
C B:ASP511 4.7 48.8 1.0
O B:GLU505 4.7 56.5 1.0
N B:HIS528 4.8 34.3 1.0
CA B:ARG513 4.8 35.1 1.0
C B:ARG513 4.8 35.2 1.0
CA B:ASP511 4.8 45.9 1.0
N B:GLU514 4.8 44.5 1.0

Calcium binding site 8 out of 12 in 8y6b

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Calcium binding site 8 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca804

b:72.7
occ:1.00
OD1 C:ASN436 2.3 75.1 1.0
OD1 C:ASP325 2.3 73.4 1.0
OE2 C:GLU242 2.5 82.1 1.0
O C:HOH901 2.6 66.7 1.0
O C:CYS433 2.6 48.8 1.0
OD2 C:ASP325 2.6 81.7 1.0
CG C:ASP325 2.8 72.7 1.0
O C:HOH916 2.8 65.0 1.0
CG C:ASN436 3.0 70.2 1.0
ND2 C:ASN436 3.1 73.5 1.0
CD C:GLU242 3.3 85.0 1.0
CG C:GLU242 3.7 76.0 1.0
C C:CYS433 3.7 60.6 1.0
CB C:GLU242 4.1 67.2 1.0
OE1 C:GLU242 4.3 90.2 1.0
CB C:CYS433 4.3 87.5 1.0
CB C:ASP325 4.3 54.7 1.0
CA C:CYS433 4.4 67.2 1.0
CB C:ASN436 4.4 54.6 1.0
O C:ASN436 4.7 104.2 1.0
N C:LEU434 4.7 50.2 1.0
SG C:CYS433 4.7 102.7 1.0
CA C:LEU434 4.8 53.2 1.0
N C:ASP325 4.8 60.1 1.0
N C:GLU242 4.9 54.7 1.0
CA C:ASP325 4.9 51.3 1.0
O C:TYR240 5.0 75.2 1.0

Calcium binding site 9 out of 12 in 8y6b

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Calcium binding site 9 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca805

b:44.3
occ:1.00
OD1 C:ASN526 2.3 68.4 1.0
OD1 C:ASP511 2.4 65.7 1.0
O C:ILE512 2.5 87.7 1.0
OE1 C:GLU514 2.5 73.2 1.0
OE2 C:GLU514 2.6 69.4 1.0
O C:ILE527 2.7 48.9 1.0
CD C:GLU514 2.9 62.3 1.0
CG C:ASP511 3.0 66.5 1.0
OD2 C:ASP511 3.0 67.7 1.0
CG C:ASN526 3.5 55.9 1.0
C C:ILE512 3.6 59.4 1.0
C C:ILE527 3.8 47.2 1.0
N C:ILE527 3.8 47.8 1.0
N C:ILE512 4.0 67.7 1.0
ND2 C:ASN526 4.2 51.4 1.0
CG C:GLU514 4.3 65.2 1.0
O C:HOH929 4.4 52.4 1.0
CA C:ILE512 4.4 58.6 1.0
CB C:ASP511 4.4 72.5 1.0
CD C:ARG504 4.4 50.9 1.0
CA C:ILE527 4.4 49.0 1.0
N C:ARG513 4.5 55.4 1.0
CA C:ASN526 4.6 49.4 1.0
C C:ASN526 4.6 48.2 1.0
CB C:ASN526 4.6 54.5 1.0
CA C:ARG513 4.6 67.8 1.0
O C:GLU505 4.7 74.4 1.0
N C:GLU514 4.7 86.5 1.0
C C:ASP511 4.7 91.6 1.0
C C:ARG513 4.8 74.8 1.0
N C:HIS528 4.8 49.6 1.0
CA C:ASP511 4.8 78.9 1.0
NH1 C:ARG504 4.8 82.4 1.0
CB C:GLU514 4.9 70.2 1.0
CG C:ARG504 4.9 69.0 1.0
CG1 C:ILE527 5.0 57.8 1.0

Calcium binding site 10 out of 12 in 8y6b

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Calcium binding site 10 out of 12 in the Structure of Human LGI1-ADAM22 Complex in Space Group P212121


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Structure of Human LGI1-ADAM22 Complex in Space Group P212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca806

b:129.5
occ:1.00
O C:PHE451 2.3 111.7 1.0
O C:GLU446 2.3 139.7 1.0
OE2 C:GLU456 2.4 157.3 1.0
OD1 C:ASN449 2.4 112.4 1.0
O C:HOH906 2.4 110.5 1.0
OD2 C:ASP459 2.5 123.0 1.0
CD C:GLU456 3.0 159.5 1.0
OE1 C:GLU456 3.1 155.1 1.0
CG C:ASN449 3.3 116.4 1.0
C C:PHE451 3.5 114.5 1.0
C C:GLU446 3.5 143.6 1.0
ND2 C:ASN449 3.5 104.8 1.0
CG C:ASP459 3.7 129.5 1.0
N C:GLU453 4.2 145.6 1.0
CA C:CYS447 4.2 156.0 1.0
N C:PHE451 4.2 118.2 1.0
CB C:GLU453 4.3 155.3 1.0
N C:CYS447 4.3 141.6 1.0
N C:GLU446 4.3 157.7 1.0
CB C:ASP459 4.3 131.9 1.0
CG C:GLU456 4.3 153.5 1.0
CA C:PHE451 4.4 100.9 1.0
N C:ILE452 4.4 118.9 1.0
CA C:ILE452 4.4 121.6 1.0
CA C:GLU446 4.5 147.8 1.0
CG C:GLU453 4.6 148.5 1.0
N C:ASN449 4.6 150.7 1.0
C C:ILE452 4.6 136.0 1.0
N C:GLY448 4.6 159.4 1.0
CB C:ASN449 4.6 127.5 1.0
OD1 C:ASP459 4.7 124.0 1.0
C C:CYS447 4.8 152.7 1.0
CB C:PHE451 4.8 89.3 1.0
CA C:GLU453 4.9 156.7 1.0

Reference:

H.Liu, F.Xu. Structure of Human LGI1-ADAM22 Complex in Space Group P212121 To Be Published.
Page generated: Fri Jul 19 12:47:33 2024

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