6R5K
Cryo-EM structure of a poly(A) RNP bound to the Pan2-Pan3 deadenylase
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | PAN2-PAN3 deadenylation complex catalytic subunit PAN2 | polymer | 1115 | 127186.6 | 1 | UniProt (P53010) Pfam (PF20770) Pfam (PF13423) Pfam (PF00929) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | PAB1P-dependent poly(A)-specific ribonuclease,Poly(A)-nuclease deadenylation complex subunit 2,PAN deadenylation complex subunit 2 |
| 2 | B, D, E (D, F, H) | Polyadenylate-binding protein, cytoplasmic and nuclear | polymer | 581 | 64778.4 | 3 | UniProt (P04147) Pfam (PF00076) Pfam (PF00658) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Poly(A)-binding protein,ARS consensus-binding protein ACBP-67,Polyadenylate tail-binding protein |
| 3 | C (E) | poly(A) RNA | polymer | 90 | 29583.5 | 1 | Saccharomyces cerevisiae S288C | ||
| 4 | F (N) | PAN2-PAN3 deadenylation complex subunit PAN3 | polymer | 458 | 53218.6 | 1 | UniProt (P36102) Pfam (PF18101) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | PAB1P-dependent poly(A)-specific ribonuclease,Poly(A)-nuclease deadenylation complex subunit 3,PAN deadenylation complex subunit 3 |
| 5 | G (O) | PAN2-PAN3 deadenylation complex subunit PAN3 | polymer | 689 | 77906.7 | 1 | UniProt (P36102) Pfam (PF25586) Pfam (PF18101) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | PAB1P-dependent poly(A)-specific ribonuclease,Poly(A)-nuclease deadenylation complex subunit 3,PAN deadenylation complex subunit 3 |
| 6 | H, I (E) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) |
Sequence modifications
D, F, H: 1 - 577 (UniProt: P04147)
N: 226 - 679 (UniProt: P36102)
O: 1 - 679 (UniProt: P36102)
| PDB | External Database | Details |
|---|---|---|
| Gly -3 | - | expression tag |
| Pro -2 | - | expression tag |
| Asp -1 | - | expression tag |
| Ser 0 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 225 | - | initiating methionine |
| Ile 231 | - | insertion |
| Ser 231 | - | insertion |
| Asn 368 | Asp 368 | conflict |
| Gln 665 | Glu 665 | conflict |
| Ala 680 | - | cloning artifact |
| PDB | External Database | Details |
|---|---|---|
| His 680 | - | expression tag |
| His 681 | - | expression tag |
| His 682 | - | expression tag |
| His 683 | - | expression tag |
| His 684 | - | expression tag |
| His 685 | - | expression tag |
| His 686 | - | expression tag |
| His 687 | - | expression tag |
| His 688 | - | expression tag |
| His 689 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 7 |
| Total formula weight | 482230.5 | |
| Non-Polymers* | Number of molecules | 2 |
| Total formula weight | 48.6 | |
| All* | Total formula weight | 482279.1 |
