6DBX
Cryo-EM structure of RAG in complex with 12-RSS substrate DNA
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C (A, C) | Recombination activating gene 1 - MBP chimera | polymer | 1159 | 131160.0 | 2 | UniProt (P0AEX9) UniProt (O13033) Pfam (PF01547) Pfam (PF00097) Pfam (PF12940) | Escherichia coli | MBP,MMBP,Maltodextrin-binding protein,RAG-1 |
| 2 | B, D (B, D) | Recombination activating gene 2 | polymer | 533 | 59435.9 | 2 | UniProt (Q1RLW7) Pfam (PF03089) Pfam (PF13341) UniProt (by SIFTS) (O13034) | Danio rerio (Zebrafish) | V(D)J recombination-activating protein 2 |
| 3 | E (E) | Forward strand of 12-RSS substrate DNA | polymer | 50 | 15364.9 | 1 | Danio rerio | ||
| 4 | F (F) | Reverse strand of 12-RSS substrate DNA | polymer | 50 | 15439.9 | 1 | Danio rerio | ||
| 5 | G, J (A, C) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 6 | H, I, K, L (A, C) | CALCIUM ION | non-polymer | 40.1 | 4 | Chemie (CA) |
Sequence modifications
A, C: -113 - 250 (UniProt: P0AEX9)
A, C: 271 - 1031 (UniProt: O13033)
B, D: 1 - 530 (UniProt: Q1RLW7)
| PDB | External Database | Details |
|---|---|---|
| Met -127 | - | initiating methionine |
| Gly -126 | - | expression tag |
| Ser -125 | - | expression tag |
| Ser -124 | - | expression tag |
| His -123 | - | expression tag |
| His -122 | - | expression tag |
| His -121 | - | expression tag |
| His -120 | - | expression tag |
| His -119 | - | expression tag |
| His -118 | - | expression tag |
| Gly -117 | - | expression tag |
| Thr -116 | - | expression tag |
| Lys -115 | - | expression tag |
| Thr -114 | - | expression tag |
| Gly 251 | - | linker |
| Thr 252 | - | linker |
| Asp 253 | - | linker |
| Tyr 254 | - | linker |
| Asp 255 | - | linker |
| Ile 256 | - | linker |
| Pro 257 | - | linker |
| Thr 258 | - | linker |
| Thr 259 | - | linker |
| Leu 260 | - | linker |
| Glu 261 | - | linker |
| Val 262 | - | linker |
| Leu 263 | - | linker |
| Phe 264 | - | linker |
| Gln 265 | - | linker |
| Gly 266 | - | linker |
| Pro 267 | - | linker |
| Leu 268 | - | linker |
| Gly 269 | - | linker |
| Ser 270 | - | linker |
B, D: 1 - 530 (UniProt: Q1RLW7)
| PDB | External Database | Details |
|---|---|---|
| Gly -2 | - | expression tag |
| Gly -1 | - | expression tag |
| Ser 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 411996.7 | |
| Non-Polymers* | Number of molecules | 6 |
| Total formula weight | 291.1 | |
| All* | Total formula weight | 412287.8 |
