Calcium in PDB 3gzt: VP7 Recoated Rotavirus Dlp

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30;

Binding sites:

The binding sites of Calcium atom in the VP7 Recoated Rotavirus Dlp (pdb code 3gzt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 30 binding sites of Calcium where determined in the VP7 Recoated Rotavirus Dlp, PDB code: 3gzt:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of VP7 Recoated Rotavirus Dlp within 5.0Å range:

Calcium binding site 2 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of VP7 Recoated Rotavirus Dlp within 5.0Å range:

Calcium binding site 3 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca320 b:93.6 occ:1.00 OD2 B:ASP301 2.8 79.0 1.0 CG B:ASP301 3.7 79.0 1.0 OD1 B:ASP301 4.1 79.0 1.0 OH B:TYR302 4.9 76.6 1.0 CB B:ASP301 5.0 79.0 1.0

Calcium binding site 4 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca321 b:77.9 occ:1.00 OD2 B:ASP95 2.6 87.8 1.0 CG B:ASP95 3.8 87.8 1.0 CB B:ASP95 4.5 87.8 1.0 OD1 B:ASP95 4.6 87.8 1.0

Calcium binding site 5 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca322 b:93.6 occ:1.00 OD2 B:ASP231 2.6 90.8 1.0 OD1 B:ASP231 2.6 90.8 1.0 CG B:ASP231 2.8 90.8 1.0 OD2 B:ASP228 3.4 77.9 1.0 O B:VAL229 3.4 69.6 1.0 OE1 B:GLN177 3.6 72.8 1.0 O B:ASP179 3.6 69.5 1.0 CE B:LYS183 3.8 55.6 1.0 O B:ASN182 4.0 75.5 1.0 CG B:ASP228 4.1 77.9 1.0 CB B:ASP231 4.1 90.8 1.0 CB B:GLN177 4.2 72.8 1.0 CD B:GLN177 4.2 72.8 1.0 N B:ASP231 4.3 73.3 1.0 OD1 B:ASP228 4.4 77.9 1.0 CA B:ASP231 4.4 73.3 1.0 C B:ASP179 4.5 69.5 1.0 NZ B:LYS183 4.5 55.6 1.0 C B:VAL229 4.6 69.6 1.0 CA B:GLU180 4.7 91.5 1.0 N B:VAL229 4.8 69.6 1.0 CG B:GLN177 4.8 72.8 1.0 NE2 B:GLN177 4.9 72.8 1.0 N B:GLU180 5.0 91.5 1.0

Calcium binding site 6 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca323 b:77.9 occ:1.00 O B:THR214 2.2 74.1 1.0 OE1 B:GLU216 2.4 83.0 1.0 OE2 B:GLU216 2.8 83.0 1.0 CD B:GLU216 2.9 83.0 1.0 O B:PHE215 3.1 73.7 1.0 C B:THR214 3.1 74.1 1.0 O B:GLY206 3.5 82.4 1.0 C B:PHE215 3.6 73.7 1.0 CA B:THR214 3.9 74.1 1.0 N B:PHE215 4.0 73.7 1.0 CA B:PHE215 4.2 73.7 1.0 CG B:GLU216 4.3 83.0 1.0 N B:GLU216 4.3 80.0 1.0 CB B:THR214 4.6 63.1 1.0 CA B:GLU216 4.6 80.0 1.0 C B:GLY206 4.7 82.4 1.0 CB B:GLU216 4.9 83.0 1.0

Calcium binding site 7 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca324 b:93.6 occ:1.00 OD2 H:ASP231 2.6 90.8 1.0 OD1 H:ASP231 2.6 90.8 1.0 CG H:ASP231 2.8 90.8 1.0 OD2 F:ASP301 2.8 79.0 1.0 OD2 H:ASP228 3.4 77.9 1.0 O H:VAL229 3.4 69.6 1.0 OE1 H:GLN177 3.6 72.8 1.0 O H:ASP179 3.6 69.5 1.0 CG F:ASP301 3.7 79.0 1.0 CE H:LYS183 3.8 55.6 1.0 O H:ASN182 4.0 75.5 1.0 OD1 F:ASP301 4.1 79.0 1.0 CG H:ASP228 4.1 77.9 1.0 CB H:ASP231 4.1 90.8 1.0 CB H:GLN177 4.2 72.8 1.0 CD H:GLN177 4.2 72.8 1.0 N H:ASP231 4.4 73.3 1.0 OD1 H:ASP228 4.4 77.9 1.0 CA H:ASP231 4.4 73.3 1.0 C H:ASP179 4.5 69.5 1.0 NZ H:LYS183 4.5 55.6 1.0 C H:VAL229 4.6 69.6 1.0 CA H:GLU180 4.7 91.5 1.0 N H:VAL229 4.8 69.6 1.0 CG H:GLN177 4.8 72.8 1.0 OH F:TYR302 4.9 76.6 1.0 NE2 H:GLN177 4.9 72.8 1.0 N H:GLU180 5.0 91.5 1.0 CB F:ASP301 5.0 79.0 1.0

Calcium binding site 8 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca325 b:77.9 occ:1.00 O H:THR214 2.2 74.1 1.0 OE1 H:GLU216 2.4 83.0 1.0 OD2 F:ASP95 2.6 87.8 1.0 OE2 H:GLU216 2.8 83.0 1.0 CD H:GLU216 2.9 83.0 1.0 O H:PHE215 3.1 73.7 1.0 C H:THR214 3.1 74.1 1.0 O H:GLY206 3.5 82.4 1.0 C H:PHE215 3.6 73.7 1.0 CG F:ASP95 3.7 87.8 1.0 CA H:THR214 3.9 74.1 1.0 N H:PHE215 4.0 73.7 1.0 CA H:PHE215 4.2 73.7 1.0 CG H:GLU216 4.3 83.0 1.0 N H:GLU216 4.3 80.0 1.0 CB F:ASP95 4.5 87.8 1.0 CB H:THR214 4.6 63.1 1.0 CA H:GLU216 4.6 80.0 1.0 OD1 F:ASP95 4.6 87.8 1.0 C H:GLY206 4.7 82.4 1.0 CB H:GLU216 4.9 83.0 1.0

Calcium binding site 9 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca326 b:93.6 occ:1.00 OD2 F:ASP231 2.6 90.8 1.0 OD1 F:ASP231 2.6 90.8 1.0 CG F:ASP231 2.8 90.8 1.0 OD2 G:ASP301 2.8 79.0 1.0 OD2 F:ASP228 3.4 77.9 1.0 O F:VAL229 3.4 69.6 1.0 OE1 F:GLN177 3.6 72.8 1.0 O F:ASP179 3.6 69.5 1.0 CG G:ASP301 3.7 79.0 1.0 CE F:LYS183 3.8 55.6 1.0 O F:ASN182 4.0 75.5 1.0 OD1 G:ASP301 4.1 79.0 1.0 CG F:ASP228 4.1 77.9 1.0 CB F:ASP231 4.1 90.8 1.0 CB F:GLN177 4.2 72.8 1.0 CD F:GLN177 4.2 72.8 1.0 N F:ASP231 4.3 73.3 1.0 OD1 F:ASP228 4.4 77.9 1.0 CA F:ASP231 4.4 73.3 1.0 C F:ASP179 4.5 69.5 1.0 NZ F:LYS183 4.5 55.6 1.0 C F:VAL229 4.6 69.6 1.0 CA F:GLU180 4.7 91.5 1.0 N F:VAL229 4.8 69.6 1.0 CG F:GLN177 4.8 72.8 1.0 OH G:TYR302 4.9 76.6 1.0 NE2 F:GLN177 4.9 72.8 1.0 N F:GLU180 5.0 91.5 1.0 CB G:ASP301 5.0 79.0 1.0

Calcium binding site 10 out of 30 in the VP7 Recoated Rotavirus Dlp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of VP7 Recoated Rotavirus Dlp within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca327 b:77.9 occ:1.00 O F:THR214 2.2 74.1 1.0 OE1 F:GLU216 2.4 83.0 1.0 OD2 G:ASP95 2.6 87.8 1.0 OE2 F:GLU216 2.8 83.0 1.0 CD F:GLU216 2.9 83.0 1.0 O F:PHE215 3.1 73.7 1.0 C F:THR214 3.1 74.1 1.0 O F:GLY206 3.5 82.4 1.0 C F:PHE215 3.6 73.7 1.0 CG G:ASP95 3.8 87.8 1.0 CA F:THR214 3.9 74.1 1.0 N F:PHE215 4.0 73.7 1.0 CA F:PHE215 4.2 73.7 1.0 CG F:GLU216 4.3 83.0 1.0 N F:GLU216 4.3 80.0 1.0 CB G:ASP95 4.5 87.8 1.0 CB F:THR214 4.6 63.1 1.0 CA F:GLU216 4.6 80.0 1.0 OD1 G:ASP95 4.6 87.8 1.0 C F:GLY206 4.7 82.4 1.0 CB F:GLU216 4.9 83.0 1.0

J.Z.Chen, E.C.Settembre, S.T.Aoki, X.Zhang, A.R.Bellamy, P.R.Dormitzer, S.C.Harrison, N.Grigorieff. Molecular Interactions in Rotavirus Assembly and Uncoating Seen By High-Resolution Cryo-Em Proc.Natl.Acad.Sci.Usa V. 106 10644 2009.
ISSN: ISSN 0027-8424
PubMed: 19487668
DOI: 10.1073/PNAS.0904024106