9YMW
De novo initial transcribing RNA polymerase with 5-mer RNA CCAUC (RPitc5a)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (I) | DNA-directed RNA polymerase subunit beta | polymer | 1342 | 150820.9 | 1 | UniProt (P0A8V2) Pfam (PF04560) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF10385) Pfam (PF00562) | Escherichia coli | RNAP subunit beta,RNA polymerase subunit beta,Transcriptase subunit beta |
| 2 | B (K) | DNA-directed RNA polymerase subunit omega | polymer | 91 | 10249.5 | 1 | UniProt (P0A800) Pfam (PF01192) | Escherichia coli | RNAP omega subunit,RNA polymerase omega subunit,Transcriptase subunit omega |
| 3 | C (R) | Nascent RNA | polymer | 5 | 1506.0 | 1 | Escherichia coli | ||
| 4 | D (P) | T7A1 promoter fragment non-template strand | polymer | 97 | 29967.3 | 1 | Escherichia phage T7 | ||
| 5 | E, F (G, H) | DNA-directed RNA polymerase subunit alpha | polymer | 329 | 36558.7 | 2 | UniProt (P0A7Z4) Pfam (PF01193) Pfam (PF01000) Pfam (PF03118) | Escherichia coli | RNAP subunit alpha,RNA polymerase subunit alpha,Transcriptase subunit alpha |
| 6 | G (J) | DNA-directed RNA polymerase subunit beta' | polymer | 1415 | 156338.9 | 1 | UniProt (P0A8T7) Pfam (PF04997) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) | Escherichia coli | RNAP subunit beta',RNA polymerase subunit beta',Transcriptase subunit beta' |
| 7 | H (L) | RNA polymerase sigma factor RpoD | polymer | 616 | 70715.6 | 1 | UniProt (P00579) Pfam (PF03979) Pfam (PF00140) Pfam (PF04546) Pfam (PF04542) Pfam (PF04539) Pfam (PF04545) | Escherichia coli | Sigma-70 |
| 8 | I (Q) | T7A1 promoter fragment template strand | polymer | 97 | 29868.1 | 1 | Escherichia phage T7 | ||
| 9 | J (I) | PYROPHOSPHATE 2- | non-polymer | 176.0 | 1 | Chemie (POP) | |||
| 10 | K (J) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) PubChem (888) | |||
| 11 | L, M (J) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) PubChem (32051) | |||
| 12 | N, O, P, Q, R... (I, K, R, P, G...) | water | water | 18.0 | 730 | Chemie (HOH) |
Sequence modifications
J: 1 - 1407 (UniProt: P0A8T7)
L: 1 - 613 (UniProt: P00579)
| PDB | External Database | Details |
|---|---|---|
| Leu 1408 | - | expression tag |
| Glu 1409 | - | expression tag |
| Leu 1410 | - | expression tag |
| Glu 1411 | - | expression tag |
| Val 1412 | - | expression tag |
| Leu 1413 | - | expression tag |
| Phe 1414 | - | expression tag |
| Gln 1415 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Ser -2 | - | cloning artifact |
| Glu -1 | - | cloning artifact |
| Phe 0 | - | cloning artifact |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 9 |
| Total formula weight | 522583.6 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 331.1 | |
| All* | Total formula weight | 522914.7 |
