6DBV
Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | Recombination activating gene 1 - MBP chimera | polymer | 1159 | 131188.1 | 1 | UniProt (P0AEX9) UniProt (O13033) Pfam (PF01547) Pfam (PF00097) Pfam (PF12940) In PDB | Escherichia coli | MBP,MMBP,Maltodextrin-binding protein,RAG-1 |
2 | B, D | Recombination activating gene 2 | polymer | 533 | 59435.9 | 2 | UniProt (Q1RLW7) Pfam (PF03089) Pfam (PF13341) UniProt (by SIFTS) (O13034) In PDB | Danio rerio (Zebrafish) | V(D)J recombination-activating protein 2 |
3 | C | Recombination activating gene 1 - MBP chimera | polymer | 1159 | 131160.0 | 1 | UniProt (P0AEX9) UniProt (O13033) Pfam (PF01547) Pfam (PF00097) Pfam (PF12940) In PDB | Escherichia coli | MBP,MMBP,Maltodextrin-binding protein |
4 | E | Forward strand of 12-RSS substrate DNA | polymer | 50 | 15364.9 | 1 | Danio rerio | ||
5 | F | Reverse strand of 12-RSS substrate DNA | polymer | 50 | 15439.9 | 1 | Danio rerio | ||
6 | G | Forward strand of 23-RSS substrate DNA | polymer | 61 | 18732.0 | 1 | Danio rerio | ||
7 | H | Reverse strand of 23-RSS substrate DNA | polymer | 61 | 18870.1 | 1 | Danio rerio | ||
8 | A, C | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
9 | A, C | CALCIUM ION | non-polymer | 40.1 | 4 | Chemie (CA) |
Sequence modifications
A: -113 - 250 (UniProt: P0AEX9)
A: 271 - 1031 (UniProt: O13033)
B, D: 1 - 530 (UniProt: Q1RLW7)
C: -113 - 250 (UniProt: P0AEX9)
C: 271 - 1031 (UniProt: O13033)
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 |
PDB | External Database | Details |
---|---|---|
Arg 465 | Lys 465 | conflict |
PDB | External Database | Details |
---|---|---|
Gly -2 | - | expression tag |
Gly -1 | - | expression tag |
Ser 0 | - | expression tag |
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 |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 8 |
Total formula weight | 449626.8 | |
Non-Polymers* | Number of molecules | 6 |
Total formula weight | 291.1 | |
All* | Total formula weight | 449917.9 |