8P2I
Cryo-EM structure of Pyrococcus furiosus apo form RNA polymerase contracted clamp conformation with Spt4/5
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 Rpo1N | polymer | 910 | 103612.3 | 1 | UniProt (A0A5C0XPL7) Pfam (PF04997) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) UniProt (by SIFTS) (Q8U0M4) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit A' |
| 2 | B (B) | DNA-directed RNA polymerase subunit beta | polymer | 1117 | 127188.9 | 1 | UniProt (Q8U0M3) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) | Pyrococcus furiosus DSM 3638 | |
| 3 | C (C) | DNA-directed RNA polymerase subunit Rpo1C | polymer | 397 | 44468.2 | 1 | UniProt (Q8U0M5) Pfam (PF04998) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit A'' |
| 4 | D (D) | DNA-directed RNA polymerase subunit Rpo3 | polymer | 275 | 31688.2 | 1 | UniProt (Q8U0E4) Pfam (PF01193) Pfam (PF01000) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit D |
| 5 | E (E) | DNA-directed RNA polymerase subunit Rpo7 | polymer | 189 | 21731.5 | 1 | UniProt (Q8U439) Pfam (PF03876) Pfam (PF00575) | Pyrococcus furiosus DSM 3638 | |
| 6 | F (F) | DNA-directed RNA polymerase subunit Rpo4 | polymer | 120 | 14116.3 | 1 | UniProt (Q8U216) Pfam (PF03874) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit F |
| 7 | G (H) | DNA-directed RNA polymerase subunit Rpo5 | polymer | 82 | 9260.8 | 1 | UniProt (Q8U0M2) Pfam (PF01191) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit H |
| 8 | H (K) | DNA-directed RNA polymerase subunit Rpo6 | polymer | 57 | 6243.5 | 1 | UniProt (Q8U0E8) Pfam (PF01192) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit K |
| 9 | I (L) | DNA-directed RNA polymerase subunit Rpo11 | polymer | 95 | 11132.8 | 1 | UniProt (Q8U4N1) Pfam (PF13656) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit L |
| 10 | J (N) | DNA-directed RNA polymerase subunit Rpo10 | polymer | 65 | 7800.2 | 1 | UniProt (P60292) Pfam (PF01194) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit N |
| 11 | K (P) | DNA-directed RNA polymerase subunit Rpo12 | polymer | 49 | 5770.1 | 1 | UniProt (Q8TZI3) Pfam (PF03604) | Pyrococcus furiosus DSM 3638 | DNA-directed RNA polymerase subunit P |
| 12 | L (G) | Transcription elongation factor Spt5 | polymer | 152 | 16816.6 | 1 | UniProt (Q8TZK1) Pfam (PF03439) Pfam (PF00467) | Pyrococcus furiosus DSM 3638 | |
| 13 | M (I) | Transcription elongation factor Spt4 | polymer | 61 | 6965.0 | 1 | UniProt (Q8U440) Pfam (PF06093) | Pyrococcus furiosus DSM 3638 | |
| 14 | N, O, Q, R, S... (A, B, N, P, I) | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) | |||
| 15 | P (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence modifications
D: 1 - 261 (UniProt: Q8U0E4)
| PDB | External Database | Details |
|---|---|---|
| Trp 262 | - | expression tag |
| Ser 263 | - | expression tag |
| His 264 | - | expression tag |
| Pro 265 | - | expression tag |
| Gln 266 | - | expression tag |
| Phe 267 | - | expression tag |
| Glu 268 | - | expression tag |
| Lys 269 | - | expression tag |
| His 270 | - | expression tag |
| His 271 | - | expression tag |
| His 272 | - | expression tag |
| His 273 | - | expression tag |
| His 274 | - | expression tag |
| His 275 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 13 |
| Total formula weight | 406794.2 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 416.8 | |
| All* | Total formula weight | 407210.9 |
