7NW0
RNA polymerase II pre-initiation complex with open promoter DNA
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 0 | TFIIH basal transcription factor complex helicase XPD subunit | polymer | 760 | 87021.1 | 1 | UniProt (P18074) Pfam (PF06733) Pfam (PF06777) Pfam (PF13307) In PDB | Homo sapiens (Human) | Basic transcription factor 2 80 kDa subunit,BTF2 p80,CXPD,DNA excision repair protein ERCC-2,DNA repair protein complementing XP-D cells,TFIIH basal transcription factor complex 80 kDa subunit,TFIIH p80,Xeroderma pigmentosum group D-complementing protein |
| 2 | 1 | General transcription factor IIH subunit 1 | polymer | 548 | 62116.5 | 1 | UniProt (P32780) Pfam (PF08567) Pfam (PF03909) In PDB | Homo sapiens (Human) | Basic transcription factor 2 62 kDa subunit,BTF2 p62,General transcription factor IIH polypeptide 1,TFIIH basal transcription factor complex p62 subunit |
| 3 | 2 | General transcription factor IIH subunit 4 | polymer | 462 | 52245.2 | 1 | UniProt (Q92759) Pfam (PF03849) Pfam (PF18307) In PDB | Homo sapiens (Human) | Basic transcription factor 2 52 kDa subunit,BTF2 p52,General transcription factor IIH polypeptide 4,TFIIH basal transcription factor complex p52 subunit |
| 4 | 3 | CDK-activating kinase assembly factor MAT1 | polymer | 309 | 35874.0 | 1 | UniProt (P51948) Pfam (PF17121) Pfam (PF06391) In PDB | Homo sapiens (Human) | CDK7/cyclin-H assembly factor,Cyclin-G1-interacting protein,Menage a trois,RING finger protein 66,RING finger protein MAT1,p35,p36 |
| 5 | 4 | General transcription factor IIH subunit 3 | polymer | 308 | 34416.0 | 1 | UniProt (Q13889) Pfam (PF03850) In PDB | Homo sapiens (Human) | Basic transcription factor 2 34 kDa subunit,BTF2 p34,General transcription factor IIH polypeptide 3,TFIIH basal transcription factor complex p34 subunit |
| 6 | 5 | General transcription factor IIH subunit 5 | polymer | 71 | 8060.4 | 1 | UniProt (Q6ZYL4) Pfam (PF06331) In PDB | Homo sapiens (Human) | General transcription factor IIH polypeptide 5,TFB5 ortholog,TFIIH basal transcription factor complex TTD-A subunit |
| 7 | 6 | General transcription factor IIH subunit 2 | polymer | 395 | 44482.0 | 1 | UniProt (Q13888) Pfam (PF04056) Pfam (PF07975) In PDB | Homo sapiens (Human) | Basic transcription factor 2 44 kDa subunit,BTF2 p44,General transcription factor IIH polypeptide 2,TFIIH basal transcription factor complex p44 subunit |
| 8 | 7 | General transcription and DNA repair factor IIH helicase subunit XPB | polymer | 782 | 89404.7 | 1 | UniProt (P19447) Pfam (PF13625) Pfam (PF04851) Pfam (PF16203) In PDB | Homo sapiens (Human) | TFIIH subunit XPB,Basic transcription factor 2 89 kDa subunit,BTF2 p89,DNA excision repair protein ERCC-3,DNA repair protein complementing XP-B cells,TFIIH basal transcription factor complex 89 kDa subunit,TFIIH p89,Xeroderma pigmentosum group B-complementing protein |
| 9 | A | RPB1 | polymer | 1970 | 217450.1 | 1 | Pfam (PF04997) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) Pfam (PF05001) UniProt (by SIFTS) (A0A7M4DUC2) In PDB | Sus scrofa | |
| 10 | B | DNA-directed RNA polymerase subunit beta | polymer | 1174 | 134041.4 | 1 | UniProt (I3LGP4) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) In PDB | Sus scrofa (Pig) | |
| 11 | C | DNA-directed RNA polymerase II subunit RPB3 | polymer | 275 | 31439.1 | 1 | UniProt (I3LCH3) Pfam (PF01193) Pfam (PF01000) In PDB | Sus scrofa (Pig) | |
| 12 | D | RPOL4c domain-containing protein | polymer | 142 | 16331.3 | 1 | UniProt (A0A287ADR4) Pfam (PF03874) In PDB | Sus scrofa (Pig) | |
| 13 | E | DNA-directed RNA polymerase II subunit E | polymer | 210 | 24644.3 | 1 | UniProt (I3LSI7) Pfam (PF03871) Pfam (PF01191) In PDB | Sus scrofa (Pig) | RPB5 homolog |
| 14 | F | DNA-directed RNA polymerase II subunit F | polymer | 127 | 14477.0 | 1 | UniProt (F1SKN8) Pfam (PF01192) UniProt (by SIFTS) (A0A4X1VEK9) In PDB | Sus scrofa (Pig) | DNA-directed RNA polymerases I,II,and III subunit RPABC2,RPB6 homolog |
| 15 | G | DNA-directed RNA polymerase II subunit RPB7 | polymer | 172 | 19314.3 | 1 | UniProt (I3LJZ9) In PDB | Sus scrofa (Pig) | |
| 16 | H | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 150 | 17162.3 | 1 | UniProt (A0A4X1ULF2) Pfam (PF03870) UniProt (by SIFTS) (I3LCB2) In PDB | Sus scrofa (Pig) | |
| 17 | I | DNA-directed RNA polymerase II subunit RPB9 | polymer | 125 | 14541.2 | 1 | UniProt (P60899) Pfam (PF02150) Pfam (PF01096) In PDB | Sus scrofa (Pig) | RNA polymerase II subunit B9,DNA-directed RNA polymerase II subunit I,RNA polymerase II 14.5 kDa subunit,RPB14.5 |
| 18 | J | DNA-directed RNA polymerases I, II, and III subunit RPABC5 | polymer | 67 | 7655.1 | 1 | UniProt (A0A4X1VYD0) Pfam (PF01194) In PDB | Sus scrofa (Pig) | |
| 19 | K | RNA_pol_L_2 domain-containing protein | polymer | 117 | 13310.3 | 1 | UniProt (A0A4X1UK25) Pfam (PF13656) Pfam (PF01193) UniProt (by SIFTS) (F1RKE4) In PDB | Sus scrofa (Pig) | |
| 20 | L | RNA polymerase II subunit K | polymer | 58 | 7018.2 | 1 | UniProt (I3LN51) Pfam (PF03604) UniProt (by SIFTS) (A0A4X1TRS6) In PDB | Sus scrofa (Pig) | |
| 21 | M | Transcription initiation factor IIB | polymer | 316 | 34877.9 | 1 | UniProt (Q00403) Pfam (PF08271) Pfam (PF00382) In PDB | Homo sapiens (Human) | General transcription factor TFIIB,S300-II |
| 22 | N | Non-template DNA | polymer | 106 | 32911.9 | 1 | GenBank (1706691521) | Human mastadenovirus C | |
| 23 | O | TATA-box-binding protein | polymer | 339 | 37729.9 | 1 | UniProt (P20226) Pfam (PF00352) In PDB | Homo sapiens (Human) | TATA sequence-binding protein,TATA-binding factor,TATA-box factor,Transcription initiation factor TFIID TBP subunit |
| 24 | Q | General transcription factor IIF subunit 1 | polymer | 517 | 58343.6 | 1 | UniProt (P35269) Pfam (PF05793) In PDB | Homo sapiens (Human) | General transcription factor IIF 74 kDa subunit,Transcription initiation factor IIF subunit alpha,TFIIF-alpha,Transcription initiation factor RAP74 |
| 25 | R | General transcription factor IIF subunit 2 | polymer | 249 | 28427.3 | 1 | UniProt (P13984) Pfam (PF17683) Pfam (PF02270) In PDB | Homo sapiens (Human) | ATP-dependent helicase GTF2F2,General transcription factor IIF 30 kDa subunit,Transcription initiation factor IIF subunit beta,TFIIF-beta,Transcription initiation factor RAP30 |
| 26 | T | Template DNA | polymer | 106 | 32508.8 | 1 | GenBank (1706691521) | Human mastadenovirus C | |
| 27 | U | Transcription initiation factor IIA subunit 1 | polymer | 376 | 41544.6 | 1 | UniProt (P52655) Pfam (PF03153) In PDB | Homo sapiens (Human) | General transcription factor IIA subunit 1,TFIIAL,Transcription initiation factor TFIIA 42 kDa subunit,TFIIA-42 |
| 28 | V | Transcription initiation factor IIA subunit 2 | polymer | 109 | 12469.1 | 1 | UniProt (P52657) Pfam (PF02268) Pfam (PF02751) In PDB | Homo sapiens (Human) | General transcription factor IIA subunit 2,TFIIA p12 subunit,TFIIA-12,TFIIAS,Transcription initiation factor IIA gamma chain,TFIIA-gamma |
| 29 | W | General transcription factor IIE subunit 1 | polymer | 439 | 49516.1 | 1 | UniProt (P29083) Pfam (PF02002) Pfam (PF08271) Pfam (PF11521) In PDB | Homo sapiens (Human) | General transcription factor IIE 56 kDa subunit,Transcription initiation factor IIE subunit alpha,TFIIE-alpha |
| 30 | X | Transcription initiation factor IIE subunit beta | polymer | 291 | 33106.8 | 1 | UniProt (P29084) Pfam (PF02186) Pfam (PF18121) In PDB | Homo sapiens (Human) | TFIIE-beta,General transcription factor IIE subunit 2 |
| 31 | Y | Unassigned peptide, likely TFIIE-Beta | polymer | 16 | 1379.7 | 1 | Homo sapiens | ||
| 32 | Z | Unassigned peptide, likely XPB | polymer | 8 | 698.9 | 1 | Homo sapiens | ||
| 33 | 0 | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 1 | Chemie (SF4) | |||
| 34 | 4, 6, A, B, C... | ZINC ION | non-polymer | 65.4 | 15 | Chemie (ZN) | |||
| 35 | 7 | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 1 | Chemie (ADP) | |||
| 36 | 7, A | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) | |||
| 37 | 7 | BERYLLIUM TRIFLUORIDE ION | non-polymer | 66.0 | 1 | Chemie (BEF) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 32 |
| Total formula weight | 1294518.9 | |
| Non-Polymers* | Number of molecules | 20 |
| Total formula weight | 1874.6 | |
| All* | Total formula weight | 1296393.5 |
