5XPM
Crystal structure of VDR-LBD complexed with 22S-Butyl-25RS-(hydroxyphenyl)-25-methoxy-2-methylidene-19,26,27-trinor-1-hydroxyvitamin D3
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | Vitamin D3 receptor | polymer | 271 | 30595.0 | 1 | UniProt (P13053) Pfam (PF00104) In PDB | Rattus norvegicus (Rat) | VDR,1,25-dihydroxyvitamin D3 receptor,Nuclear receptor subfamily 1 group I member 1 |
2 | C | Mediator of RNA polymerase II transcription subunit 1 | polymer | 13 | 1570.9 | 1 | UniProt (Q15648) In PDB | Homo sapiens (Human) | Activator-recruited cofactor 205 kDa component,ARC205,Mediator complex subunit 1,Peroxisome proliferator-activated receptor-binding protein,PPAR-binding protein,Thyroid hormone receptor-associated protein complex 220 kDa component,Trap220,Thyroid receptor-interacting protein 2,TRIP-2,Vitamin D receptor-interacting protein complex component DRIP205,p53 regulatory protein RB18A |
3 | A | (1~{R},3~{R})-5-[(2~{E})-2-[(1~{R},3~{a}~{S},7~{a}~{R})-1-[(2~{R},3~{S})-3-[(3~{S})-3-(4-hydroxyphenyl)-3-methoxy-propyl]heptan-2-yl]-7~{a}-methyl-2,3,3~{a},5,6,7-hexahydro-1~{H}-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol | non-polymer | 550.8 | 1 | Chemie (8C0) | |||
4 | water | water | 18.0 | 48 | Chemie (HOH) |
Sequence modifications
A: 116 - 423 (UniProt: P13053)
PDB | External Database | Details |
---|---|---|
Gly 106 | - | expression tag |
Ser 107 | - | expression tag |
His 108 | - | expression tag |
Met 109 | - | expression tag |
Gly 110 | - | expression tag |
Ser 111 | - | expression tag |
Pro 112 | - | expression tag |
Asn 113 | - | expression tag |
Ser 114 | - | expression tag |
Pro 115 | - | expression tag |
- | Ser 165 | deletion |
- | Tyr 166 | deletion |
- | Ser 167 | deletion |
- | Pro 168 | deletion |
- | Arg 169 | deletion |
- | Pro 170 | deletion |
- | Thr 171 | deletion |
- | Leu 172 | deletion |
- | Ser 173 | deletion |
- | Phe 174 | deletion |
- | Ser 175 | deletion |
- | Gly 176 | deletion |
- | Asn 177 | deletion |
- | Ser 178 | deletion |
- | Ser 179 | deletion |
- | Ser 180 | deletion |
- | Ser 181 | deletion |
- | Ser 182 | deletion |
- | Ser 183 | deletion |
- | Asp 184 | deletion |
- | Leu 185 | deletion |
- | Tyr 186 | deletion |
- | Thr 187 | deletion |
- | Thr 188 | deletion |
- | Ser 189 | deletion |
- | Leu 190 | deletion |
- | Asp 191 | deletion |
- | Met 192 | deletion |
- | Met 193 | deletion |
- | Glu 194 | deletion |
- | Pro 195 | deletion |
- | Ser 196 | deletion |
- | Gly 197 | deletion |
- | Phe 198 | deletion |
- | Ser 199 | deletion |
- | Asn 200 | deletion |
- | Leu 201 | deletion |
- | Asp 202 | deletion |
- | Leu 203 | deletion |
- | Asn 204 | deletion |
- | Gly 205 | deletion |
- | Glu 206 | deletion |
- | Asp 207 | deletion |
- | Ser 208 | deletion |
- | Asp 209 | deletion |
- | Asp 210 | deletion |
- | Pro 211 | deletion |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 2 |
Total formula weight | 32165.9 | |
Non-Polymers* | Number of molecules | 1 |
Total formula weight | 550.8 | |
All* | Total formula weight | 32716.7 |