7RXC
CryoEM structure of KDELR with Legobody
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (H) | Fab_8D3_2 heavy chain | polymer | 234 | 25252.2 | 1 | Mus musculus (mouse) | ||
| 2 | B (L) | Fab_8D3_2 light chain | polymer | 219 | 24095.9 | 1 | Mus musculus (mouse) | ||
| 3 | C (N) | Nb_KR | polymer | 129 | 14698.3 | 1 | Vicugna pacos (Alpaca Lama pacos) | ||
| 4 | D (B) | Maltodextrin-binding protein,Immunoglobulin G-binding protein A,Immunoglobulin G-binding protein G | polymer | 545 | 59233.2 | 1 | UniProt (A0A4Z0THX4) UniProt (P99134) UniProt (P06654) Pfam (PF02216) Pfam (PF01378) | Escherichia coli | IgG-binding protein A,Staphylococcal protein A,SpA,IgG-binding protein G |
| 5 | E (K) | ER lumen protein-retaining receptor 2 | polymer | 264 | 30084.0 | 1 | UniProt (Q5ZKX9) Pfam (PF00810) | Gallus gallus (Chicken) | KDEL endoplasmic reticulum protein retention receptor 2,KDEL receptor 2 |
| 6 | F (A) | alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose | branched | 342.3 | 1 | In PDB BIRD (PRD_900001) GlyTouCan (G07411ON) | |||
| 7 | G, H, I, J (K) | (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate | non-polymer | 760.1 | 4 | Chemie (POV) |
Sequence modifications
B: 2 - 359 (UniProt: A0A4Z0THX4)
B: 360 - 467 (UniProt: P99134)
B: 479 - 536 (UniProt: P06654)
K: 1 - 212 (UniProt: Q5ZKX9)
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | initiating methionine |
| PDB | External Database | Details |
|---|---|---|
| Ala 361 | Gln 44 | conflict |
| Leu 362 | Asn 45 | conflict |
| Ala 365 | Tyr 48 | conflict |
| Ile 367 | Val 50 | conflict |
| Ile 369 | Asn 52 | conflict |
| Thr 374 | Asn 57 | conflict |
| Glu 375 | Ala 58 | conflict |
| Glu 376 | Asp 59 | conflict |
| Val 391 | Gln 74 | conflict |
| Lys 393 | Ala 76 | conflict |
| Glu 394 | Asn 77 | conflict |
| Ile 395 | Val 78 | conflict |
| Ala 397 | Gly 80 | conflict |
| Lys 400 | Gln 83 | conflict |
| Glu 404 | Asp 87 | conflict |
| His 405 | Ser 88 | conflict |
| - | Ala 93 | deletion |
| Gly 410 | Asp 94 | conflict |
| Gly 411 | Ala 95 | conflict |
| Ser 412 | Gln 96 | conflict |
| Gly 413 | Gln 97 | conflict |
| Gly 414 | Asn 98 | conflict |
| Ala 415 | Asn 99 | conflict |
| Gly 416 | Phe 100 | conflict |
| Ser 417 | Asn 101 | conflict |
| Gly 418 | Lys 102 | conflict |
| Gly 468 | - | linker |
| Gly 469 | - | linker |
| Gly 470 | - | linker |
| Ser 471 | - | linker |
| Gly 472 | - | linker |
| Gly 473 | - | linker |
| Gly 474 | - | linker |
| Ser 475 | - | linker |
| Gly 476 | - | linker |
| Gly 477 | - | linker |
| Ser 478 | - | linker |
| PDB | External Database | Details |
|---|---|---|
| Gly 537 | - | expression tag |
| Ser 538 | - | expression tag |
| Gly 539 | - | expression tag |
| His 540 | - | expression tag |
| His 541 | - | expression tag |
| His 542 | - | expression tag |
| His 543 | - | expression tag |
| His 544 | - | expression tag |
| His 545 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Gly 213 | - | expression tag |
| Ser 214 | - | expression tag |
| Gly 215 | - | expression tag |
| Gly 216 | - | expression tag |
| Glu 217 | - | expression tag |
| Asn 218 | - | expression tag |
| Leu 219 | - | expression tag |
| Tyr 220 | - | expression tag |
| Phe 221 | - | expression tag |
| Gln 222 | - | expression tag |
| Ser 223 | - | expression tag |
| Gly 224 | - | expression tag |
| Gly 225 | - | expression tag |
| Gly 226 | - | expression tag |
| Met 227 | - | expression tag |
| Asp 228 | - | expression tag |
| Glu 229 | - | expression tag |
| Lys 230 | - | expression tag |
| Thr 231 | - | expression tag |
| Thr 232 | - | expression tag |
| Gly 233 | - | expression tag |
| Trp 234 | - | expression tag |
| Arg 235 | - | expression tag |
| Gly 236 | - | expression tag |
| Gly 237 | - | expression tag |
| His 238 | - | expression tag |
| Val 239 | - | expression tag |
| Val 240 | - | expression tag |
| Glu 241 | - | expression tag |
| Gly 242 | - | expression tag |
| Leu 243 | - | expression tag |
| Ala 244 | - | expression tag |
| Gly 245 | - | expression tag |
| Glu 246 | - | expression tag |
| Leu 247 | - | expression tag |
| Glu 248 | - | expression tag |
| Gln 249 | - | expression tag |
| Leu 250 | - | expression tag |
| Arg 251 | - | expression tag |
| Ala 252 | - | expression tag |
| Arg 253 | - | expression tag |
| Leu 254 | - | expression tag |
| Glu 255 | - | expression tag |
| His 256 | - | expression tag |
| His 257 | - | expression tag |
| Pro 258 | - | expression tag |
| Gln 259 | - | expression tag |
| Gly 260 | - | expression tag |
| Gln 261 | - | expression tag |
| Arg 262 | - | expression tag |
| Glu 263 | - | expression tag |
| Pro 264 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 5 |
| Total formula weight | 153363.5 | |
| Branched | Number of molecules | 1 |
| Total formula weight | 342.3 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 3040.3 | |
| All* | Total formula weight | 156746.1 |
