9Y3D
Extended cryo-EM structure of the human SRCAP-nucleosome complex in the fully-engaged state, with H4-bound GAS41
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Helicase SRCAP | polymer | 3230 | 343915.3 | 1 | UniProt (Q6ZRS2) Pfam (PF07529) Pfam (PF00176) Pfam (PF00271) | Homo sapiens (human) | Domino homolog 2,Snf2-related CBP activator |
| 2 | B (B) | Vacuolar protein sorting-associated protein 72 homolog | polymer | 364 | 40658.4 | 1 | UniProt (Q15906) Pfam (PF05764) Pfam (PF08265) | Homo sapiens (human) | Protein YL-1,Transcription factor-like 1 |
| 3 | C (C) | Actin-related protein 6 | polymer | 396 | 45857.9 | 1 | UniProt (Q9GZN1) Pfam (PF00022) | Homo sapiens (human) | hArp6,hARPX |
| 4 | D (D) | Zinc finger HIT domain-containing protein 1 | polymer | 154 | 17567.0 | 1 | UniProt (O43257) Pfam (PF04438) | Homo sapiens (human) | Cyclin-G1-binding protein 1,Zinc finger protein subfamily 4A member 1,p18 Hamlet |
| 5 | E, G, I (E, G, I) | RuvB-like 1 | polymer | 456 | 50296.9 | 3 | UniProt (Q9Y265) Pfam (PF06068) Pfam (PF17856) | Homo sapiens (human) | 49 kDa TATA box-binding protein-interacting protein,49 kDa TBP-interacting protein,54 kDa erythrocyte cytosolic protein,ECP-54,INO80 complex subunit H,Nuclear matrix protein 238,NMP 238,Pontin 52,TIP49a,TIP60-associated protein 54-alpha,TAP54-alpha |
| 6 | F, H, J (F, H, J) | RuvB-like 2 | polymer | 463 | 51222.5 | 3 | UniProt (Q9Y230) Pfam (PF06068) Pfam (PF17856) | Homo sapiens (human) | 48 kDa TATA box-binding protein-interacting protein,48 kDa TBP-interacting protein,51 kDa erythrocyte cytosolic protein,ECP-51,INO80 complex subunit J,Repressing pontin 52,Reptin 52,TIP49b,TIP60-associated protein 54-beta,TAP54-beta |
| 7 | K, M (K, M) | Actin-like protein 6A | polymer | 429 | 47509.8 | 2 | UniProt (O96019) Pfam (PF00022) | Homo sapiens (human) | 53 kDa BRG1-associated factor A,Actin-related protein Baf53a,ArpNbeta,BRG1-associated factor 53A,BAF53A,INO80 complex subunit K |
| 8 | L (L) | Actin, cytoplasmic 1 | polymer | 375 | 41782.7 | 1 | UniProt (P60709) Pfam (PF00022) | Homo sapiens (human) | Beta-actin |
| 9 | N (N) | DNA methyltransferase 1-associated protein 1 | polymer | 467 | 53090.7 | 1 | UniProt (Q9NPF5) Pfam (PF16282) Pfam (PF05499) | Homo sapiens (human) | DNMAP1,DNMT1-associated protein 1 |
| 10 | O (O) | YEATS domain-containing protein 4 | polymer | 227 | 26541.5 | 1 | UniProt (O95619) Pfam (PF03366) | Homo sapiens (human) | Glioma-amplified sequence 41,Gas41,NuMA-binding protein 1,NuBI-1,NuBI1 |
| 11 | P, R (Q, S) | Histone H2A type 1 | polymer | 128 | 13907.2 | 2 | UniProt (P06897) Pfam (PF00125) Pfam (PF16211) | Xenopus laevis (African clawed frog) | |
| 12 | Q, S (R, T) | Histone H2B 1.1 | polymer | 125 | 13848.1 | 2 | UniProt (P02281) Pfam (PF00125) | Xenopus laevis (African clawed frog) | H2B1.1 |
| 13 | T, V (U, W) | Histone H3.2 | polymer | 135 | 15303.9 | 2 | UniProt (P84233) Pfam (PF00125) | Xenopus laevis (African clawed frog) | Histone H3 |
| 14 | U, W (V, X) | Histone H4 | polymer | 102 | 11263.2 | 2 | UniProt (P62799) Pfam (PF15511) | Xenopus laevis (African clawed frog) | |
| 15 | X (Y) | DNA (285-MER) | polymer | 285 | 87851.7 | 1 | synthetic construct | ||
| 16 | Y (Z) | DNA (285-MER) | polymer | 285 | 88190.9 | 1 | synthetic construct | ||
| 17 | BA, OA, Z (C, K, A) | PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER | non-polymer | 523.2 | 3 | Chemie (AGS) | |||
| 18 | AA, CA, HA, KA, NA... (A, C, F, H, J...) | MAGNESIUM ION | non-polymer | 24.3 | 6 | Chemie (MG) PubChem (888) | |||
| 19 | DA, EA (D) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) PubChem (32051) | |||
| 20 | FA, GA, IA, JA, LA... (E, F, G, H, I...) | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 6 | Chemie (ADP) |
Sequence modifications
Q, S: 1 - 122 (UniProt: P06897)
R, T: 1 - 125 (UniProt: P02281)
U, W: 1 - 135 (UniProt: P84233)
| PDB | External Database | Details |
|---|---|---|
| Arg 99 | Gly 100 | conflict |
| Ser 123 | - | expression tag |
| Lys 124 | - | expression tag |
| Ser 125 | - | expression tag |
| Lys 126 | - | expression tag |
| Ser 127 | - | expression tag |
| Lys 128 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Thr 32 | Ser 33 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 102 | Gly 103 | variant |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 25 |
| Total formula weight | 1253678.6 | |
| Non-Polymers* | Number of molecules | 17 |
| Total formula weight | 4409.6 | |
| All* | Total formula weight | 1258088.2 |
