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Calcium in PDB 9dqz: Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr

Enzymatic activity of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr

All present enzymatic activity of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr:
3.4.21.90;

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr (pdb code 9dqz). 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 Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr, PDB code: 9dqz:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 9dqz

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Calcium binding site 1 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Ca201

b:96.5
occ:1.00
 O M:ASP55 2.3 101.1 1.0
O M:TRP50 2.3 101.1 1.0
OD1 M:ASP53 2.6 101.8 1.0
OD2 M:ASP63 3.0 108.1 1.0
OE2 M:GLU64 3.0 106.6 1.0
OD2 M:ASP57 3.4 100.7 1.0
C M:TRP50 3.4 94.3 1.0
C M:ASP55 3.5 98.7 1.0
CG M:ASP53 3.6 99.5 1.0
CG M:ASP63 3.8 110.0 1.0
CG M:ASP57 3.8 103.1 1.0
CB M:TRP50 3.9 87.9 1.0
OD2 M:ASP53 3.9 98.6 1.0
CD M:GLU64 3.9 108.5 1.0
CA M:TRP50 4.0 88.2 1.0
N M:ASP57 4.0 100.0 1.0
CB M:ASP57 4.1 99.1 1.0
N M:GLU56 4.3 96.9 1.0
CA M:GLU56 4.3 98.4 1.0
CB M:ASP63 4.3 107.1 1.0
C M:GLU56 4.4 100.4 1.0
CA M:ASP55 4.4 99.1 1.0
CG M:GLU64 4.4 106.3 1.0
N M:LYS51 4.5 92.8 1.0
N M:ASP55 4.6 100.0 1.0
OD1 M:ASP57 4.6 103.3 1.0
CB M:ASP55 4.7 100.8 1.0
CA M:ASP57 4.7 97.6 1.0
NZ D:LYS227 4.7 95.1 1.0
OD1 M:ASP63 4.7 112.3 1.0
N M:ASP53 4.8 99.3 1.0
CG M:TRP50 4.8 83.8 1.0
OE1 M:GLU64 4.9 109.5 1.0
CA M:LYS51 4.9 95.2 1.0
CB M:ASP53 4.9 96.9 1.0
N M:CYS52 5.0 102.2 1.0

Calcium binding site 2 out of 8 in 9dqz

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Calcium binding site 2 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Ca202

b:136.5
occ:1.00
 OD1 M:ASP92 2.3 139.3 1.0
OD2 M:ASP102 2.3 140.6 1.0
OD2 M:ASP96 2.3 131.8 1.0
O M:TRP89 2.4 134.9 1.0
O M:ASP94 2.5 136.6 1.0
OD2 M:ASP92 2.8 132.1 1.0
CG M:ASP92 2.9 137.9 1.0
CG M:ASP96 3.0 129.4 1.0
C M:TRP89 3.5 130.5 1.0
CG M:ASP102 3.5 143.2 1.0
CB M:ASP96 3.6 129.2 1.0
C M:ASP94 3.7 136.5 1.0
NZ E:LYS190 3.7 121.4 1.0
CB M:TRP89 3.8 118.5 1.0
OD1 M:ASP96 3.8 126.8 1.0
CA M:TRP89 3.9 120.4 1.0
OE2 M:GLU103 3.9 140.6 1.0
N M:ASP96 4.0 134.3 1.0
C M:PRO95 4.3 134.4 1.0
CB M:ASP92 4.4 138.1 1.0
OD1 M:ASP102 4.4 144.9 1.0
CB M:ASP102 4.4 143.0 1.0
CA M:ASP96 4.4 130.8 1.0
N M:ASP92 4.5 140.6 1.0
CA M:PRO95 4.5 136.9 1.0
N M:ASP94 4.5 138.9 1.0
N M:PRO95 4.6 137.4 1.0
CA M:ASP94 4.6 135.5 1.0
CG M:TRP89 4.6 114.8 1.0
N M:LYS90 4.7 131.8 1.0
CB M:ASP94 4.9 129.9 1.0
O M:PRO95 4.9 131.7 1.0
N M:CYS91 4.9 141.0 1.0
CD M:GLU103 4.9 142.1 1.0
CA M:ASP92 5.0 140.8 1.0

Calcium binding site 3 out of 8 in 9dqz

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Calcium binding site 3 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Ca201

b:112.9
occ:1.00
 O N:TRP50 2.4 116.1 1.0
O N:ASP55 2.4 114.4 1.0
OD1 N:ASP53 2.6 119.3 1.0
OD2 N:ASP63 2.7 124.5 1.0
OD2 N:ASP53 3.1 108.1 1.0
CG N:ASP53 3.2 115.6 1.0
OD2 N:ASP57 3.3 108.1 1.0
C N:TRP50 3.5 111.3 1.0
C N:ASP55 3.5 112.1 1.0
OE2 N:GLU64 3.6 122.8 1.0
CG N:ASP63 3.7 125.5 1.0
CG N:ASP57 3.7 110.0 1.0
CB N:TRP50 3.8 102.1 1.0
CB N:ASP57 3.9 107.9 1.0
N N:ASP57 3.9 112.2 1.0
CA N:TRP50 4.0 105.0 1.0
CB N:ASP63 4.1 122.5 1.0
N N:GLU56 4.3 111.5 1.0
CA N:GLU56 4.4 112.6 1.0
C N:GLU56 4.4 109.3 1.0
CA N:ASP55 4.5 112.8 1.0
CA N:ASP57 4.6 110.0 1.0
OD1 N:ASP57 4.6 107.5 1.0
N N:LYS51 4.6 109.6 1.0
N N:ASP55 4.7 115.8 1.0
CB N:ASP53 4.7 113.6 1.0
CB N:ASP55 4.7 113.2 1.0
CD N:GLU64 4.7 124.9 1.0
NZ G:LYS227 4.7 95.9 1.0
OD1 N:ASP63 4.8 126.8 1.0
CG N:TRP50 4.8 97.4 1.0
N N:ASP53 4.9 118.7 1.0
CD1 N:ILE46 4.9 108.2 1.0
CA N:LYS51 4.9 111.2 1.0

Calcium binding site 4 out of 8 in 9dqz

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Calcium binding site 4 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Ca202

b:175.5
occ:1.00
 OD2 N:ASP92 2.4 180.8 1.0
OD2 N:ASP96 2.4 176.0 1.0
OD1 N:ASP92 2.6 188.7 1.0
CG N:ASP92 2.8 185.5 1.0
CB N:ASP94 3.1 179.5 1.0
O N:ASP94 3.1 186.2 1.0
CG N:ASP96 3.3 172.8 1.0
OD1 N:ASP96 3.4 166.2 1.0
O N:TRP89 3.7 186.7 1.0
C N:ASP94 3.8 185.1 1.0
CA N:ASP94 3.8 185.6 1.0
CA N:TRP89 3.9 182.5 1.0
OD2 N:ASP94 3.9 172.7 1.0
CG N:ASP94 4.0 175.8 1.0
CB N:TRP89 4.1 178.6 1.0
N N:ASP94 4.1 189.7 1.0
C N:TRP89 4.2 186.9 1.0
NZ H:LYS190 4.3 142.6 1.0
CB N:ASP92 4.3 185.5 1.0
CG N:TRP89 4.4 173.9 1.0
CB N:ASP96 4.7 174.3 1.0
CD1 N:TRP89 4.8 165.8 1.0
OE2 N:GLU103 4.8 187.6 1.0

Calcium binding site 5 out of 8 in 9dqz

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Calcium binding site 5 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Ca201

b:103.0
occ:1.00
 O O:ASP55 2.4 109.3 1.0
O O:TRP50 2.4 104.6 1.0
OD1 O:ASP53 2.4 109.7 1.0
OD2 O:ASP63 2.4 120.3 1.0
OD2 O:ASP57 2.9 107.2 1.0
CG O:ASP53 3.1 107.1 1.0
OE2 O:GLU64 3.1 117.5 1.0
OD2 O:ASP53 3.2 104.7 1.0
CG O:ASP57 3.4 108.0 1.0
CG O:ASP63 3.4 122.2 1.0
C O:TRP50 3.5 102.9 1.0
C O:ASP55 3.5 107.5 1.0
N O:ASP57 3.8 109.3 1.0
CB O:ASP57 3.8 106.2 1.0
CB O:ASP63 3.9 117.5 1.0
CB O:TRP50 4.0 97.8 1.0
OD1 O:ASP57 4.1 108.0 1.0
CA O:TRP50 4.1 98.7 1.0
CD O:GLU64 4.2 117.4 1.0
N O:GLU56 4.4 108.8 1.0
OD1 O:ASP63 4.4 126.8 1.0
CA O:GLU56 4.4 110.6 1.0
C O:GLU56 4.4 108.4 1.0
CA O:ASP57 4.5 109.1 1.0
CA O:ASP55 4.5 107.0 1.0
CB O:ASP53 4.5 105.0 1.0
N O:ASP55 4.5 107.6 1.0
NZ J:LYS227 4.5 90.5 1.0
N O:LYS51 4.6 104.5 1.0
N O:ASP53 4.7 106.7 1.0
CB O:ASP55 4.8 106.0 1.0
CG O:GLU64 4.8 119.4 1.0
CD1 O:ILE46 4.9 106.0 1.0
CA O:LYS51 4.9 104.8 1.0
CG O:TRP50 5.0 95.0 1.0

Calcium binding site 6 out of 8 in 9dqz

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Calcium binding site 6 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Ca202

b:153.6
occ:1.00
 OD1 O:ASP92 2.4 146.8 1.0
OD2 O:ASP102 2.4 153.3 1.0
O O:TRP89 2.6 141.7 1.0
CG O:ASP96 2.6 146.3 1.0
O O:ASP94 2.7 148.1 1.0
OD2 O:ASP96 2.8 139.4 1.0
CG O:ASP92 2.8 142.9 1.0
OD1 O:ASP96 2.9 148.5 1.0
OD2 O:ASP92 2.9 140.1 1.0
CB O:ASP96 3.2 146.6 1.0
CG O:ASP102 3.5 155.8 1.0
C O:TRP89 3.7 135.9 1.0
C O:ASP94 3.9 145.6 1.0
N O:ASP96 3.9 146.2 1.0
CB O:TRP89 4.0 128.3 1.0
CB O:ASP102 4.1 153.5 1.0
CA O:ASP96 4.2 147.2 1.0
CB O:ASP92 4.2 140.6 1.0
CA O:TRP89 4.2 129.1 1.0
OD1 O:ASP102 4.4 158.1 1.0
OE2 O:GLU103 4.5 148.8 1.0
C O:PRO95 4.5 145.9 1.0
NZ K:LYS190 4.5 126.3 1.0
N O:ASP94 4.6 148.2 1.0
CA O:ASP94 4.7 145.9 1.0
N O:ASP92 4.7 146.5 1.0
N O:LYS90 4.8 136.7 1.0
CG O:TRP89 4.8 123.8 1.0
CB O:ASP94 4.8 142.0 1.0
N O:PRO95 4.8 144.4 1.0
CA O:PRO95 4.8 146.4 1.0
CA O:ASP92 5.0 145.0 1.0

Calcium binding site 7 out of 8 in 9dqz

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Calcium binding site 7 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Ca201

b:111.8
occ:1.00
 O P:ASP55 2.4 119.2 1.0
OD2 P:ASP57 2.4 109.5 1.0
OD1 P:ASP53 2.4 111.6 1.0
O P:TRP50 2.4 108.8 1.0
OD2 P:ASP63 2.8 127.8 1.0
CG P:ASP57 3.1 118.6 1.0
CG P:ASP53 3.3 108.3 1.0
OE2 P:GLU64 3.3 124.3 1.0
C P:TRP50 3.5 100.2 1.0
C P:ASP55 3.5 120.0 1.0
OD2 P:ASP53 3.6 104.2 1.0
CB P:ASP57 3.7 121.7 1.0
CB P:TRP50 3.9 93.5 1.0
OD1 P:ASP57 3.9 120.0 1.0
CG P:ASP63 4.0 127.6 1.0
CA P:TRP50 4.1 95.0 1.0
N P:ASP57 4.1 131.2 1.0
CA P:ASP55 4.4 113.8 1.0
C P:GLU56 4.4 127.5 1.0
CD P:GLU64 4.4 125.9 1.0
CB P:ASP63 4.4 125.4 1.0
N P:ASP55 4.5 113.6 1.0
N P:GLU56 4.5 125.9 1.0
CB P:ASP55 4.5 110.1 1.0
CB P:ASP53 4.5 107.7 1.0
CA P:ASP57 4.5 128.5 1.0
CA P:GLU56 4.6 129.4 1.0
N P:ASP53 4.6 109.2 1.0
N P:LYS51 4.6 98.8 1.0
NZ A:LYS227 4.6 94.1 1.0
CG P:TRP50 4.9 87.6 1.0
N P:CYS52 4.9 113.3 1.0
CA P:LYS51 4.9 102.1 1.0

Calcium binding site 8 out of 8 in 9dqz

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Calcium binding site 8 out of 8 in the Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Ca202

b:147.9
occ:1.00
 OD2 P:ASP92 2.4 176.2 1.0
CG P:ASP92 3.2 180.8 1.0
CB P:ASP92 3.3 181.6 1.0
NZ B:LYS190 3.7 118.2 1.0
OD2 P:ASP94 3.9 159.7 1.0
OD1 P:ASP92 4.3 181.6 1.0
O P:ASP92 4.4 182.9 1.0
CD1 P:TRP89 4.4 174.5 1.0
CE B:LYS190 4.5 109.6 1.0
CA P:ASP92 4.6 184.2 1.0
CG P:ASP94 4.7 168.8 1.0
CB P:ASP94 4.7 173.7 1.0
C P:ASP92 4.8 184.8 1.0
OD2 P:ASP96 4.8 176.9 1.0
NE1 P:TRP89 4.8 169.3 1.0
CG P:TRP89 4.9 179.1 1.0

Reference:

J.Abraham, X.Fan, W.Li. Structure of Western Equine Encephalitis Virus Mcmillan Vlp in Complex with Human Vldlr To Be Published.
Page generated: Thu Jul 10 09:23:13 2025

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