8A3Y
Structure of mammalian Pol II-DSIF-SPT6-PAF1-TFIIS-hexasome elongation complex
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) | DNA-directed RNA polymerase subunit | polymer | 1984 | 219049.5 | 1 | UniProt (A0A7M4DUC2) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) | Sus scrofa (pig) | |
| 2 | B (B) | DNA-directed RNA polymerase subunit beta | polymer | 1251 | 142426.1 | 1 | UniProt (I3LGP4) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) | Sus scrofa (pig) | |
| 3 | C (C) | DNA-directed RNA polymerase II subunit RPB3 | polymer | 270 | 30898.4 | 1 | UniProt (I3LCH3) Pfam (PF01193) Pfam (PF01000) | Sus scrofa (pig) | RNA polymerase II subunit C |
| 4 | D (D) | RNA polymerase II subunit D | polymer | 142 | 16331.3 | 1 | UniProt (A0A287ADR4) Pfam (PF03874) | Sus scrofa (pig) | |
| 5 | E (E) | DNA-directed RNA polymerase II subunit E | polymer | 210 | 24644.3 | 1 | UniProt (I3LSI7) Pfam (PF03871) Pfam (PF01191) | Sus scrofa (pig) | RPB5 homolog |
| 6 | F (F) | DNA-directed RNA polymerases I, II, and III subunit RPABC2 | polymer | 127 | 14477.0 | 1 | UniProt (A0A8D1KNW4) Pfam (PF01192) UniProt (by SIFTS) (A0A4X1VEK9) | Sus scrofa (pig) | |
| 7 | G (G) | DNA-directed RNA polymerase II subunit RPB7 | polymer | 172 | 19314.3 | 1 | UniProt (A0A4X1VKG7) Pfam (PF03876) Pfam (PF00575) | Sus scrofa (pig) | |
| 8 | H (H) | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 150 | 17162.3 | 1 | UniProt (I3LCB2) Pfam (PF03870) | Sus scrofa (pig) | |
| 9 | I (I) | DNA-directed RNA polymerase II subunit RPB9 | polymer | 125 | 14541.2 | 1 | UniProt (P60899) Pfam (PF02150) Pfam (PF01096) | Sus scrofa (pig) | RNA polymerase II subunit B9,DNA-directed RNA polymerase II subunit I,RNA polymerase II 14.5 kDa subunit,RPB14.5 |
| 10 | J (J) | DNA-directed RNA polymerases I, II, and III subunit RPABC5 | polymer | 67 | 7655.1 | 1 | UniProt (A0A4X1VYD0) Pfam (PF01194) | Sus scrofa (pig) | |
| 11 | K (K) | DNA-directed RNA polymerase II subunit RPB11-a | polymer | 117 | 13310.3 | 1 | UniProt (F1RKE4) Pfam (PF13656) | Sus scrofa (pig) | |
| 12 | L (L) | RNA polymerase II subunit K | polymer | 58 | 7018.2 | 1 | UniProt (A0A8D0JYF1) Pfam (PF03604) | Sus scrofa (pig) | |
| 13 | M (M) | SPT6 | polymer | 1002 | 117027.7 | 1 | Pfam (PF14641) Pfam (PF22706) Pfam (PF14639) Pfam (PF14635) Pfam (PF17674) Pfam (PF00575) Pfam (PF14633) UniProt (by SIFTS) (Q7KZ85) | Homo sapiens | |
| 14 | N (N) | Non-template DNA | polymer | 127 | 39557.2 | 1 | synthetic construct | ||
| 15 | O (P) | RNA, Template DNA | polymer | 28 | 9054.6 | 1 | synthetic construct | ||
| 16 | P, S (Q, U) | RNA polymerase-associated protein CTR9 homolog,RNA polymerase-associated protein LEO1 | polymer | 1845 | 210005.7 | 2 | UniProt (Q6PD62) UniProt (Q8WVC0) Pfam (PF13374) Pfam (PF13181) Pfam (PF04004) | Homo sapiens (human) | SH2 domain-binding protein 1,Replicative senescence down-regulated leo1-like protein |
| 17 | Q (R) | RNA polymerase-associated protein RTF1 homolog | polymer | 248 | 29128.2 | 1 | UniProt (Q92541) Pfam (PF03126) | Homo sapiens (human) | |
| 18 | R (T) | RNA, Template DNA | polymer | 138 | 42305.9 | 1 | synthetic construct | ||
| 19 | T (V) | RNA polymerase II-associated factor 1 homolog | polymer | 311 | 36451.0 | 1 | UniProt (Q8N7H5) Pfam (PF03985) | Homo sapiens (human) | hPAF1,Pancreatic differentiation protein 2 |
| 20 | U (W) | WD repeat-containing protein 61 | polymer | 305 | 33617.5 | 1 | UniProt (Q9GZS3) Pfam (PF00400) | Homo sapiens (human) | Meiotic recombination REC14 protein homolog,SKI8 homolog,Ski8 |
| 21 | V (X) | Parafibromin | polymer | 531 | 60673.5 | 1 | UniProt (Q6P1J9) Pfam (PF16050) Pfam (PF05179) | Homo sapiens (human) | Cell division cycle protein 73 homolog,Hyperparathyroidism 2 protein |
| 22 | W (Y) | Transcription elongation factor SPT4 | polymer | 121 | 13508.5 | 1 | UniProt (Q4R941) Pfam (PF06093) UniProt (by SIFTS) (P63272) | Homo sapiens (human) | DRB sensitivity-inducing factor small subunit,DSIF small subunit |
| 23 | X (Z) | Transcription elongation factor SPT5 | polymer | 1087 | 121225.5 | 1 | UniProt (O00267) Pfam (PF11942) Pfam (PF03439) Pfam (PF00467) | Homo sapiens (human) | hSPT5,DRB sensitivity-inducing factor 160 kDa subunit,DSIF p160,DRB sensitivity-inducing factor large subunit,DSIF large subunit,Tat-cotransactivator 1 protein,Tat-CT1 protein |
| 24 | CA, Y (a, e) | Histone H3.2 | polymer | 136 | 15435.1 | 2 | UniProt (P84233) Pfam (PF00125) | Xenopus laevis (African clawed frog) | |
| 25 | DA, Z (b, f) | Histone H4 | polymer | 103 | 11394.4 | 2 | UniProt (P62799) Pfam (PF15511) | Xenopus laevis (African clawed frog) | |
| 26 | AA (c) | Histone H2A | polymer | 103 | 11294.1 | 1 | UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) | Xenopus laevis (African clawed frog) | |
| 27 | BA (d) | Histone H2B | polymer | 95 | 10607.2 | 1 | UniProt (A0A8J1LZU9) Pfam (PF00125) | Xenopus laevis (African clawed frog) | |
| 28 | EA, FA, GA, HA, IA... (A, B, C, I, J...) | ZINC ION | non-polymer | 65.4 | 9 | Chemie (ZN) | |||
| 29 | MA (P) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence modifications
Q, U: 1 - 1173 (UniProt: Q6PD62)
Q, U: 1180 - 1845 (UniProt: Q8WVC0)
Y: 1 - 117 (UniProt: Q4R941)
a, e: 0 - 135 (UniProt: P84233)
| PDB | External Database | Details |
|---|---|---|
| Glu 1174 | - | linker |
| Asn 1175 | - | linker |
| Leu 1176 | - | linker |
| Tyr 1177 | - | linker |
| Phe 1178 | - | linker |
| Gln 1179 | - | linker |
Y: 1 - 117 (UniProt: Q4R941)
| PDB | External Database | Details |
|---|---|---|
| Gly -3 | - | expression tag |
| Pro -2 | - | expression tag |
| Gly -1 | - | expression tag |
| Ser 0 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Ala 102 | Gly 103 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 30 |
| Total formula weight | 1524949.3 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 613.0 | |
| All* | Total formula weight | 1525562.3 |
