8K0G
Cryo-EM structure of human 26S RP (Ed state) bound to K11/K48-branched ubiquitin (Ub) chain composed of four Ub.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | 26S protease regulatory subunit 7 | polymer | 433 | 48700.8 | 1 | UniProt (P35998) Pfam (PF21236) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | 26S proteasome AAA-ATPase subunit RPT1,Proteasome 26S subunit ATPase 2,Protein MSS1 |
| 2 | B (B) | 26S protease regulatory subunit 4 | polymer | 440 | 49260.5 | 1 | UniProt (P62191) Pfam (PF16450) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | P26s4,26S proteasome AAA-ATPase subunit RPT2,Proteasome 26S subunit ATPase 1 |
| 3 | C (D) | 26S protease regulatory subunit 6B | polymer | 418 | 47426.1 | 1 | UniProt (P43686) Pfam (PF16450) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | 26S proteasome AAA-ATPase subunit RPT3,MB67-interacting protein,MIP224,Proteasome 26S subunit ATPase 4,Tat-binding protein 7,TBP-7 |
| 4 | D (F) | 26S protease regulatory subunit 6A | polymer | 439 | 49266.5 | 1 | UniProt (P17980) Pfam (PF16450) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | 26S proteasome AAA-ATPase subunit RPT5,Proteasome 26S subunit ATPase 3,Proteasome subunit P50,Tat-binding protein 1,TBP-1 |
| 5 | E (C) | 26S protease regulatory subunit 8 | polymer | 406 | 45694.0 | 1 | UniProt (P62195) Pfam (PF16450) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | 26S proteasome AAA-ATPase subunit RPT6,Proteasome 26S subunit ATPase 5,Proteasome subunit p45,Thyroid hormone receptor-interacting protein 1,TRIP1,p45/SUG |
| 6 | F (G) | Proteasome subunit alpha type-6 | polymer | 246 | 27432.5 | 1 | UniProt (P60900) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | 27 kDa prosomal protein,p27K,Macropain iota chain,Multicatalytic endopeptidase complex iota chain,Proteasome iota chain |
| 7 | G (H) | Proteasome subunit alpha type-2 | polymer | 234 | 25927.5 | 1 | UniProt (P25787) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | Macropain subunit C3,Multicatalytic endopeptidase complex subunit C3,Proteasome component C3 |
| 8 | H (I) | Proteasome subunit alpha type-4 | polymer | 261 | 29525.8 | 1 | UniProt (P25789) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | Macropain subunit C9,Multicatalytic endopeptidase complex subunit C9,Proteasome component C9,Proteasome subunit L |
| 9 | I (J) | Proteasome subunit alpha type-7 | polymer | 248 | 27929.9 | 1 | UniProt (O14818) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | Proteasome subunit RC6-1,Proteasome subunit XAPC7 |
| 10 | J (K) | Proteasome subunit alpha type-5 | polymer | 241 | 26436.0 | 1 | UniProt (P28066) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | Macropain zeta chain,Multicatalytic endopeptidase complex zeta chain,Proteasome zeta chain |
| 11 | K (L) | Proteasome subunit alpha type-1 | polymer | 263 | 29595.6 | 1 | UniProt (P25786) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | 30 kDa prosomal protein,PROS-30,Macropain subunit C2,Multicatalytic endopeptidase complex subunit C2,Proteasome component C2,Proteasome nu chain |
| 12 | L (M) | Proteasome subunit alpha type-3 | polymer | 255 | 28469.3 | 1 | UniProt (P25788) Pfam (PF10584) Pfam (PF00227) | Homo sapiens (human) | Macropain subunit C8,Multicatalytic endopeptidase complex subunit C8,Proteasome component C8 |
| 13 | M (V) | 26S proteasome non-ATPase regulatory subunit 3 | polymer | 534 | 61066.5 | 1 | UniProt (O43242) Pfam (PF01399) Pfam (PF08375) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN3,26S proteasome regulatory subunit S3,Proteasome subunit p58 |
| 14 | N (W) | 26S proteasome non-ATPase regulatory subunit 12 | polymer | 456 | 52979.4 | 1 | UniProt (O00232) Pfam (PF22241) Pfam (PF01399) Pfam (PF18098) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN5,26S proteasome regulatory subunit p55 |
| 15 | O (X) | 26S proteasome non-ATPase regulatory subunit 11 | polymer | 422 | 47526.7 | 1 | UniProt (O00231) Pfam (PF18055) Pfam (PF01399) Pfam (PF18503) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN6,26S proteasome regulatory subunit S9,26S proteasome regulatory subunit p44.5 |
| 16 | P (Y) | 26S proteasome non-ATPase regulatory subunit 6 | polymer | 389 | 45592.3 | 1 | UniProt (Q15008) Pfam (PF10602) Pfam (PF01399) Pfam (PF21154) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN7,26S proteasome regulatory subunit S10,Breast cancer-associated protein SGA-113M,Phosphonoformate immuno-associated protein 4,Proteasome regulatory particle subunit p44S10,p42A |
| 17 | Q (d) | 26S proteasome non-ATPase regulatory subunit 8 | polymer | 350 | 39667.9 | 1 | UniProt (P48556) Pfam (PF10075) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN12,26S proteasome regulatory subunit S14,p31 |
| 18 | R (e) | 26S proteasome complex subunit DSS1 | polymer | 70 | 8284.6 | 1 | UniProt (P60896) Pfam (PF05160) | Homo sapiens (human) | Deleted in split hand/split foot protein 1,Split hand/foot deleted protein 1,Split hand/foot malformation type 1 protein |
| 19 | S (f) | 26S proteasome non-ATPase regulatory subunit 2 | polymer | 908 | 100313.6 | 1 | UniProt (Q13200) Pfam (PF17781) Pfam (PF01851) Pfam (PF18051) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN1,26S proteasome regulatory subunit S2,26S proteasome subunit p97,Protein 55.11,Tumor necrosis factor type 1 receptor-associated protein 2 |
| 20 | T (y) | Protein SIC1 | polymer | 69 | 7250.0 | 1 | UniProt (P38634) | Saccharomyces cerevisiae (baker's yeast) | CDK inhibitor p40 |
| 21 | U (E) | 26S protease regulatory subunit 10B | polymer | 389 | 44241.0 | 1 | UniProt (P62333) Pfam (PF16450) Pfam (PF00004) Pfam (PF17862) | Homo sapiens (human) | 26S proteasome AAA-ATPase subunit RPT4,Proteasome 26S subunit ATPase 6,Proteasome subunit p42 |
| 22 | V (U) | 26S proteasome non-ATPase regulatory subunit 1 | polymer | 953 | 105958.2 | 1 | UniProt (Q99460) Pfam (PF21505) Pfam (PF01851) Pfam (PF13646) Pfam (PF18004) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN2,26S proteasome regulatory subunit S1,26S proteasome subunit p112 |
| 23 | W (Z) | 26S proteasome non-ATPase regulatory subunit 7 | polymer | 324 | 37086.4 | 1 | UniProt (P51665) Pfam (PF01398) Pfam (PF13012) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN8,26S proteasome regulatory subunit S12,Mov34 protein homolog,Proteasome subunit p40 |
| 24 | X (a) | 26S proteasome non-ATPase regulatory subunit 13 | polymer | 376 | 42995.4 | 1 | UniProt (Q9UNM6) Pfam (PF22037) Pfam (PF01399) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN9,26S proteasome regulatory subunit S11,26S proteasome regulatory subunit p40.5 |
| 25 | Y (b) | 26S proteasome non-ATPase regulatory subunit 4 | polymer | 377 | 40781.6 | 1 | UniProt (P55036) Pfam (PF13519) Pfam (PF02809) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN10,26S proteasome regulatory subunit S5A,Antisecretory factor 1,ASF,Multiubiquitin chain-binding protein |
| 26 | Z (c) | 26S proteasome non-ATPase regulatory subunit 14 | polymer | 310 | 34620.0 | 1 | UniProt (O00487) Pfam (PF01398) | Homo sapiens (human) | 26S proteasome regulatory subunit RPN11,26S proteasome-associated PAD1 homolog 1 |
| 27 | AA, BA, CA, DA (u, v, w, x) | Polyubiquitin-B | polymer | 81 | 8950.2 | 4 | UniProt (P0CG47) Pfam (PF00240) | Homo sapiens (human) | |
| 28 | EA, GA, KA (A, B, F) | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 3 | Chemie (ATP) | |||
| 29 | FA, HA, JA, MA (A, B, D, C) | MAGNESIUM ION | non-polymer | 24.3 | 4 | Chemie (MG) | |||
| 30 | IA, LA (D, C) | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 2 | Chemie (ADP) |
Sequence modifications
y: -6 - 42 (UniProt: P38634)
u, v, w, x: 1 - 76 (UniProt: P0CG47)
| PDB | External Database | Details |
|---|---|---|
| Met -9 | - | initiating methionine |
| Glu -8 | - | expression tag |
| Phe -7 | - | expression tag |
| Pro -2 | - | insertion |
| Pro -1 | - | insertion |
| Tyr 2 | Arg 8 | conflict |
| Arg 26 | Lys 32 | conflict |
| Ala 27 | Thr 33 | conflict |
| Cys 39 | Thr 45 | conflict |
| Gly 43 | - | expression tag |
| Gly 44 | - | expression tag |
| Gly 45 | - | expression tag |
| Gly 46 | - | expression tag |
| Ser 47 | - | expression tag |
| Leu 48 | - | expression tag |
| Pro 49 | - | expression tag |
| Glu 50 | - | expression tag |
| Thr 51 | - | expression tag |
| Gly 52 | - | expression tag |
| Gly 53 | - | expression tag |
| His 54 | - | expression tag |
| His 55 | - | expression tag |
| His 56 | - | expression tag |
| His 57 | - | expression tag |
| His 58 | - | expression tag |
| His 59 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Gly -4 | - | linker |
| Ser -3 | - | linker |
| Gly -2 | - | linker |
| Gly -1 | - | linker |
| Ser 0 | - | linker |
| Arg 63 | Lys 139 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 30 |
| Total formula weight | 1139828.7 | |
| Non-Polymers* | Number of molecules | 9 |
| Total formula weight | 2473.2 | |
| All* | Total formula weight | 1142301.9 |
