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Calcium in PDB 5sy1: Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin (pdb code 5sy1). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin, PDB code: 5sy1:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 5sy1

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Calcium binding site 1 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


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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 the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca201

b:0.3
occ:1.00
 O C:PHE100 2.3 0.5 1.0
OE2 C:GLU105 2.4 1.0 1.0
OD1 C:ASP94 2.4 0.1 1.0
OD1 C:ASN98 2.4 0.1 1.0
OE1 C:GLU105 2.4 1.0 1.0
OD2 C:ASP96 2.5 0.1 1.0
CD C:GLU105 2.7 1.0 1.0
CG C:ASP96 3.1 0.1 1.0
CG C:ASP94 3.2 0.1 1.0
CG C:ASN98 3.2 0.1 1.0
CB C:ASP96 3.3 0.1 1.0
ND2 C:ASN98 3.4 0.1 1.0
OD2 C:ASP94 3.5 0.1 1.0
C C:PHE100 3.5 0.5 1.0
N C:PHE100 4.2 0.5 1.0
OD1 C:ASP96 4.2 0.1 1.0
CG C:GLU105 4.2 1.0 1.0
N C:ASP96 4.3 0.4 1.0
CA C:PHE100 4.3 0.5 1.0
CA C:ASP96 4.4 0.4 1.0
CB C:ASP94 4.5 0.1 1.0
N C:ILE101 4.5 0.3 1.0
CB C:PHE100 4.6 0.8 1.0
CA C:ILE101 4.7 0.3 1.0
CB C:ASN98 4.7 0.1 1.0
CA C:ASP94 4.8 0.3 1.0
N C:ASN98 4.8 0.3 1.0
N C:SER102 5.0 0.9 1.0
N C:GLY99 5.0 0.8 1.0

Calcium binding site 2 out of 8 in 5sy1

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Calcium binding site 2 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca202

b:0.3
occ:1.00
 O C:GLN136 2.4 0.4 1.0
OD1 C:ASP134 2.4 0.7 1.0
CB C:ASP132 2.5 0.3 1.0
O C:ALA129 3.0 0.8 1.0
C C:GLN136 3.4 0.4 1.0
CG C:ASP134 3.5 0.7 1.0
N C:ASP132 3.5 0.5 1.0
CA C:ASP132 3.6 0.5 1.0
N C:GLN136 3.6 0.4 1.0
CG C:ASP132 3.7 0.3 1.0
OD2 C:ASP132 3.7 0.3 1.0
OD2 C:ASP134 3.8 0.7 1.0
CA C:ASP130 3.9 0.9 1.0
C C:ALA129 4.1 0.8 1.0
CA C:GLN136 4.2 0.4 1.0
OD1 C:ASP130 4.2 0.1 1.0
N C:GLY135 4.3 0.4 1.0
CG C:GLU141 4.3 0.6 1.0
OE2 C:GLU141 4.3 0.6 1.0
C C:ASP132 4.3 0.5 1.0
C C:ASP130 4.4 0.9 1.0
N C:VAL137 4.4 0.7 1.0
CD C:GLU141 4.4 0.6 1.0
N C:ASP130 4.5 0.9 1.0
N C:ILE131 4.5 0.6 1.0
N C:GLY133 4.5 0.9 1.0
CA C:VAL137 4.6 0.7 1.0
N C:ASP134 4.6 0.1 1.0
C C:GLY135 4.6 0.4 1.0
N C:ASN138 4.6 0.5 1.0
CA C:GLY135 4.8 0.4 1.0
C C:ILE131 4.8 0.6 1.0
OD1 C:ASP132 4.8 0.3 1.0
CB C:ASP134 4.8 0.7 1.0
CB C:ASP130 4.9 0.1 1.0
C C:VAL137 5.0 0.7 1.0

Calcium binding site 3 out of 8 in 5sy1

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Calcium binding site 3 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca203

b:0.3
occ:1.00
 OD1 C:ASP21 2.3 0.7 1.0
OD2 C:ASP21 2.3 0.7 1.0
OD2 C:ASP25 2.3 0.9 1.0
O C:THR27 2.3 0.1 1.0
OE2 C:GLU32 2.3 0.8 1.0
OE1 C:GLU32 2.4 0.8 1.0
OD2 C:ASP23 2.5 0.7 1.0
OD1 C:ASP25 2.5 0.9 1.0
CG C:ASP21 2.6 0.7 1.0
CD C:GLU32 2.7 0.8 1.0
CG C:ASP25 2.7 0.9 1.0
CG C:ASP23 3.4 0.7 1.0
C C:THR27 3.5 0.1 1.0
CB C:ASP23 3.7 0.7 1.0
CG2 C:THR27 3.9 0.4 1.0
CB C:ASP21 4.1 0.7 1.0
N C:THR27 4.2 0.1 1.0
CB C:ASP25 4.2 0.9 1.0
CG C:GLU32 4.2 0.8 1.0
CA C:THR27 4.3 0.1 1.0
N C:ILE28 4.4 0.2 1.0
OD1 C:ASP23 4.5 0.7 1.0
CA C:ILE28 4.6 0.2 1.0
CG2 C:THR29 4.6 0.2 1.0
N C:THR29 4.8 0.6 1.0
CB C:THR27 4.8 0.4 1.0
CA C:ASP21 4.8 0.0 1.0
N C:ASP23 4.9 0.2 1.0
CA C:ASP23 4.9 0.2 1.0
N C:ASP25 5.0 0.3 1.0

Calcium binding site 4 out of 8 in 5sy1

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Calcium binding site 4 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca204

b:0.3
occ:1.00
 OD2 C:ASP59 2.2 0.0 1.0
O C:THR63 2.2 0.9 1.0
OE1 C:GLU68 2.4 0.4 1.0
OD1 C:ASP59 2.4 0.0 1.0
OE2 C:GLU68 2.4 0.4 1.0
OD1 C:ASP57 2.4 0.9 1.0
CG C:ASP59 2.6 0.0 1.0
OD1 C:ASN61 2.6 1.0 1.0
CD C:GLU68 2.7 0.4 1.0
CG C:ASP57 3.2 0.9 1.0
C C:THR63 3.3 0.9 1.0
CG C:ASN61 3.4 1.0 1.0
OD2 C:ASP57 3.5 0.9 1.0
ND2 C:ASN61 3.6 1.0 1.0
N C:ASP65 3.9 0.3 1.0
CB C:ASP59 4.1 0.0 1.0
CA C:ILE64 4.1 0.5 1.0
N C:ILE64 4.1 0.5 1.0
OG1 C:THR63 4.2 0.2 1.0
CG C:GLU68 4.2 0.4 1.0
C C:ILE64 4.3 0.5 1.0
CA C:THR63 4.4 0.9 1.0
CB C:ASP57 4.4 0.9 1.0
N C:THR63 4.4 0.9 1.0
CB C:ASP65 4.5 0.4 1.0
N C:ASP59 4.7 0.3 1.0
CA C:ASP57 4.8 0.4 1.0
CA C:ASP65 4.8 0.3 1.0
CB C:THR63 4.8 0.2 1.0
CB C:ASN61 4.9 1.0 1.0
CA C:ASP59 4.9 0.3 1.0
N C:ASN61 4.9 0.8 1.0
CB C:GLU68 5.0 0.4 1.0

Calcium binding site 5 out of 8 in 5sy1

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Calcium binding site 5 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca201

b:0.3
occ:1.00
 O D:PHE100 2.3 0.5 1.0
OE2 D:GLU105 2.4 1.0 1.0
OD1 D:ASP94 2.4 0.1 1.0
OE1 D:GLU105 2.4 1.0 1.0
OD1 D:ASN98 2.4 0.1 1.0
OD2 D:ASP96 2.5 0.1 1.0
CD D:GLU105 2.7 1.0 1.0
CG D:ASP96 3.1 0.1 1.0
CG D:ASP94 3.2 0.1 1.0
CG D:ASN98 3.3 0.1 1.0
CB D:ASP96 3.3 0.1 1.0
ND2 D:ASN98 3.4 0.1 1.0
C D:PHE100 3.5 0.5 1.0
OD2 D:ASP94 3.5 0.1 1.0
N D:PHE100 4.2 0.5 1.0
CG D:GLU105 4.2 1.0 1.0
OD1 D:ASP96 4.2 0.1 1.0
N D:ASP96 4.3 0.4 1.0
CA D:PHE100 4.3 0.5 1.0
CA D:ASP96 4.4 0.4 1.0
CB D:ASP94 4.5 0.1 1.0
N D:ILE101 4.5 0.3 1.0
CB D:PHE100 4.6 0.8 1.0
CA D:ILE101 4.7 0.3 1.0
CB D:ASN98 4.7 0.1 1.0
CA D:ASP94 4.8 0.3 1.0
N D:ASN98 4.8 0.3 1.0
N D:SER102 4.9 0.9 1.0
N D:GLY99 5.0 0.8 1.0

Calcium binding site 6 out of 8 in 5sy1

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Calcium binding site 6 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca202

b:0.3
occ:1.00
 O D:GLN136 2.4 0.4 1.0
OD1 D:ASP134 2.4 0.7 1.0
CB D:ASP132 2.5 0.3 1.0
O D:ALA129 3.0 0.8 1.0
C D:GLN136 3.4 0.4 1.0
CG D:ASP134 3.5 0.7 1.0
N D:ASP132 3.5 0.5 1.0
CA D:ASP132 3.6 0.5 1.0
CG D:ASP132 3.6 0.3 1.0
N D:GLN136 3.6 0.4 1.0
OD2 D:ASP132 3.7 0.3 1.0
OD2 D:ASP134 3.8 0.7 1.0
CA D:ASP130 4.0 0.9 1.0
C D:ALA129 4.1 0.8 1.0
CA D:GLN136 4.2 0.4 1.0
CG D:GLU141 4.2 0.6 1.0
OD1 D:ASP130 4.2 0.1 1.0
OE2 D:GLU141 4.3 0.6 1.0
C D:ASP132 4.3 0.5 1.0
N D:GLY135 4.3 0.4 1.0
CD D:GLU141 4.3 0.6 1.0
N D:VAL137 4.4 0.7 1.0
C D:ASP130 4.4 0.9 1.0
N D:ASP130 4.5 0.9 1.0
N D:ILE131 4.5 0.6 1.0
CA D:VAL137 4.5 0.7 1.0
N D:GLY133 4.6 0.9 1.0
N D:ASN138 4.6 0.5 1.0
N D:ASP134 4.6 0.1 1.0
C D:GLY135 4.6 0.4 1.0
C D:ILE131 4.8 0.6 1.0
OD1 D:ASP132 4.8 0.3 1.0
CA D:GLY135 4.8 0.4 1.0
CB D:ASP134 4.8 0.7 1.0
C D:VAL137 4.9 0.7 1.0
CB D:ASP130 5.0 0.1 1.0

Calcium binding site 7 out of 8 in 5sy1

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Calcium binding site 7 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca203

b:0.3
occ:1.00
 OD1 D:ASP21 2.3 0.7 1.0
OD2 D:ASP21 2.3 0.7 1.0
OD2 D:ASP25 2.3 0.9 1.0
O D:THR27 2.3 0.1 1.0
OE2 D:GLU32 2.3 0.8 1.0
OE1 D:GLU32 2.4 0.8 1.0
OD2 D:ASP23 2.5 0.7 1.0
OD1 D:ASP25 2.5 0.9 1.0
CG D:ASP21 2.6 0.7 1.0
CD D:GLU32 2.7 0.8 1.0
CG D:ASP25 2.7 0.9 1.0
CG D:ASP23 3.4 0.7 1.0
C D:THR27 3.4 0.1 1.0
CB D:ASP23 3.7 0.7 1.0
CG2 D:THR27 3.9 0.4 1.0
CB D:ASP21 4.1 0.7 1.0
N D:THR27 4.2 0.1 1.0
CG D:GLU32 4.2 0.8 1.0
CB D:ASP25 4.2 0.9 1.0
CA D:THR27 4.3 0.1 1.0
N D:ILE28 4.4 0.2 1.0
CA D:ILE28 4.5 0.2 1.0
OD1 D:ASP23 4.6 0.7 1.0
CG2 D:THR29 4.6 0.2 1.0
N D:THR29 4.7 0.6 1.0
CB D:THR27 4.8 0.4 1.0
CA D:ASP21 4.8 0.0 1.0
N D:ASP23 4.9 0.2 1.0
CA D:ASP23 4.9 0.2 1.0
N D:ASP25 5.0 0.3 1.0

Calcium binding site 8 out of 8 in 5sy1

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Calcium binding site 8 out of 8 in the Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structure of the STRA6 Receptor For Retinol Uptake in Complex with Calmodulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca204

b:0.3
occ:1.00
 OD2 D:ASP59 2.2 0.0 1.0
O D:THR63 2.2 0.9 1.0
OE1 D:GLU68 2.4 0.4 1.0
OD1 D:ASP59 2.4 0.0 1.0
OE2 D:GLU68 2.4 0.4 1.0
OD1 D:ASP57 2.5 0.9 1.0
CG D:ASP59 2.6 0.0 1.0
OD1 D:ASN61 2.6 1.0 1.0
CD D:GLU68 2.7 0.4 1.0
CG D:ASP57 3.2 0.9 1.0
C D:THR63 3.3 0.9 1.0
CG D:ASN61 3.4 1.0 1.0
OD2 D:ASP57 3.6 0.9 1.0
ND2 D:ASN61 3.6 1.0 1.0
N D:ASP65 3.9 0.3 1.0
CA D:ILE64 4.1 0.5 1.0
CB D:ASP59 4.1 0.0 1.0
N D:ILE64 4.1 0.5 1.0
OG1 D:THR63 4.2 0.2 1.0
CG D:GLU68 4.2 0.4 1.0
C D:ILE64 4.3 0.5 1.0
CA D:THR63 4.4 0.9 1.0
CB D:ASP57 4.4 0.9 1.0
N D:THR63 4.4 0.9 1.0
CB D:ASP65 4.5 0.4 1.0
N D:ASP59 4.7 0.3 1.0
CA D:ASP57 4.8 0.4 1.0
CA D:ASP65 4.8 0.3 1.0
CB D:THR63 4.8 0.2 1.0
CB D:ASN61 4.9 1.0 1.0
CA D:ASP59 4.9 0.3 1.0
N D:ASN61 4.9 0.8 1.0
CB D:GLU68 5.0 0.4 1.0

Reference:

Y.Chen, O.B.Clarke, J.Kim, S.Stowe, Y.K.Kim, Z.Assur, M.Cavalier, R.Godoy-Ruiz, D.C.Von Alpen, C.Manzini, W.S.Blaner, J.Frank, L.Quadro, D.J.Weber, L.Shapiro, W.A.Hendrickson, F.Mancia. Structure of the STRA6 Receptor For Retinol Uptake. Science V. 353 2016.
ISSN: ESSN 1095-9203
PubMed: 27563101
DOI: 10.1126/SCIENCE.AAD8266
Page generated: Mon Jul 15 10:35:46 2024

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