7PKS
Structural basis of Integrator-mediated transcription regulation
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 | 1970 | 217450.1 | 1 | UniProt (A0A7M4DUC2) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) | Sus scrofa domesticus (domestic pig) | |
| 2 | B (B) | DNA-directed RNA polymerase subunit beta | polymer | 1174 | 134041.4 | 1 | UniProt (A0A0B8RVL1) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) | Sus scrofa domesticus (domestic pig) | |
| 3 | C (C) | DNA-directed RNA polymerase II subunit RPB3 | polymer | 275 | 31439.1 | 1 | UniProt (A0A481DF93) Pfam (PF01193) Pfam (PF01000) | Sus scrofa domesticus (domestic pig) | |
| 4 | D (D) | RNA polymerase II subunit D | polymer | 142 | 16331.3 | 1 | UniProt (A0A287ADR4) Pfam (PF03874) | Sus scrofa domesticus (domestic pig) | |
| 5 | E (E) | DNA-directed RNA polymerase II subunit E | polymer | 210 | 24644.3 | 1 | UniProt (I3LSI7) Pfam (PF03871) Pfam (PF01191) | Sus scrofa domesticus (domestic pig) | RPB5 homolog |
| 6 | F (F) | DNA-directed RNA polymerase II subunit F | polymer | 127 | 14477.0 | 1 | UniProt (F1SKN8) Pfam (PF01192) UniProt (by SIFTS) (A0A4X1VEK9) | Sus scrofa domesticus (domestic pig) | DNA-directed RNA polymerases I,II,and III subunit RPABC2,RPB6 homolog |
| 7 | G (G) | DNA-directed RNA polymerase II subunit RPB7 | polymer | 172 | 19314.3 | 1 | UniProt (I3LJZ9) | Sus scrofa domesticus (domestic pig) | |
| 8 | H (H) | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 150 | 17162.3 | 1 | UniProt (A0A4X1ULF2) Pfam (PF03870) UniProt (by SIFTS) (I3LCB2) | Sus scrofa domesticus (domestic pig) | |
| 9 | I (I) | DNA-directed RNA polymerase II subunit RPB9 | polymer | 125 | 14541.2 | 1 | UniProt (P60899) Pfam (PF02150) Pfam (PF01096) | Sus scrofa domesticus (domestic 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 (A0A7K6NXI9) Pfam (PF01194) | Sus scrofa domesticus (domestic pig) | |
| 11 | K (K) | RNA_pol_L_2 domain-containing protein | polymer | 117 | 13310.3 | 1 | UniProt (A0A4X1UK25) Pfam (PF13656) UniProt (by SIFTS) (F1RKE4) | Sus scrofa domesticus (domestic pig) | |
| 12 | L (L) | RNA polymerase II subunit K | polymer | 58 | 7018.2 | 1 | UniProt (I3LN51) Pfam (PF03604) UniProt (by SIFTS) (A0A4X1TRS6) | Sus scrofa domesticus (domestic pig) | |
| 13 | M (M) | RPBI C-terminal domain peptide | polymer | 13 | 1356.4 | 1 | UniProt (I3LJR4) Pfam (PF05001) | Sus scrofa domesticus (domestic pig) | |
| 14 | N (N) | Non-template DNA | polymer | 48 | 14712.5 | 1 | Human immunodeficiency virus 1 | ||
| 15 | O (P) | TAR RNA | polymer | 17 | 5410.3 | 1 | Human immunodeficiency virus 1 | ||
| 16 | P (T) | DNA Template | polymer | 48 | 14910.6 | 1 | Human immunodeficiency virus 1 | ||
| 17 | Q (U) | Negative elongation factor A | polymer | 528 | 57343.6 | 1 | UniProt (Q9H3P2) | Homo sapiens (Human) | NELF-A,Wolf-Hirschhorn syndrome candidate 2 protein |
| 18 | R (V) | Negative elongation factor B | polymer | 614 | 68672.8 | 1 | UniProt (Q8WX92) Pfam (PF06209) | Homo sapiens (Human) | NELF-B,Cofactor of BRCA1 |
| 19 | S (W) | Negative elongation factor C/D | polymer | 616 | 68544.1 | 1 | UniProt (Q8IXH7) Pfam (PF04858) | Homo sapiens (Human) | NELF-C/D,TH1-like protein |
| 20 | T (X) | Negative elongation factor E | polymer | 22 | 1890.3 | 1 | Homo sapiens (Human) | ||
| 21 | U (Z) | Transcription elongation factor SPT5 | polymer | 1087 | 121145.5 | 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 |
| 22 | V (a) | Integrator complex subunit 1 | polymer | 2190 | 244574.9 | 1 | UniProt (Q8N201) Pfam (PF12432) Pfam (PF22929) Pfam (PF22927) Pfam (PF22928) | Homo sapiens (Human) | Int1 |
| 23 | W (b) | Integrator complex subunit 2 | polymer | 1204 | 134451.6 | 1 | UniProt (Q9H0H0) Pfam (PF14750) | Homo sapiens (Human) | Int2 |
| 24 | X (d) | Integrator complex subunit 4 | polymer | 963 | 108306.8 | 1 | UniProt (Q96HW7) Pfam (PF20168) Pfam (PF13646) | Homo sapiens (Human) | Int4 |
| 25 | Y (e) | Integrator complex subunit 5 | polymer | 1019 | 108115.2 | 1 | UniProt (Q6P9B9) Pfam (PF14837) Pfam (PF14838) | Homo sapiens (Human) | Int5 |
| 26 | Z (f) | Integrator complex subunit 6 | polymer | 887 | 100527.1 | 1 | UniProt (Q9UL03) Pfam (PF13519) Pfam (PF15300) | Homo sapiens (Human) | Int6,DBI-1,Protein DDX26,Protein deleted in cancer 1,DICE1 |
| 27 | AA (g) | Integrator complex subunit 7 | polymer | 962 | 106952.6 | 1 | UniProt (Q9NVH2) Pfam (PF22965) | Homo sapiens (Human) | Int7 |
| 28 | BA (h) | Integrator complex subunit 8 | polymer | 995 | 113219.9 | 1 | UniProt (Q75QN2) | Homo sapiens (Human) | Int8,Protein kaonashi-1 |
| 29 | CA (i) | Integrator complex subunit 9 | polymer | 658 | 73891.2 | 1 | UniProt (Q9NV88) Pfam (PF16661) Pfam (PF10996) Pfam (PF21382) | Homo sapiens (Human) | Int9,Protein related to CPSF subunits of 74 kDa,RC-74 |
| 30 | DA (k) | Integrator complex subunit 11 | polymer | 600 | 67770.6 | 1 | UniProt (Q5TA45) Pfam (PF16661) Pfam (PF10996) Pfam (PF07521) Pfam (PF21386) | Homo sapiens (Human) | Int11,Cleavage and polyadenylation-specific factor 3-like protein,CPSF3-like protein,Protein related to CPSF subunits of 68 kDa,RC-68 |
| 31 | EA (p) | Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform | polymer | 589 | 65378.3 | 1 | UniProt (P30153) Pfam (PF02985) | Homo sapiens (Human) | Medium tumor antigen-associated 61 kDa protein,PP2A subunit A isoform PR65-alpha,PP2A subunit A isoform R1-alpha |
| 32 | FA (q) | Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform | polymer | 309 | 35635.2 | 1 | UniProt (P67775) Pfam (PF00149) | Homo sapiens (Human) | PP2A-alpha,Replication protein C,RP-C |
| 33 | GA (u) | Unknown | polymer | 27 | 2417.0 | 1 | Homo sapiens (Human) | ||
| 34 | HA (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 35 | IA, JA, KA, LA, MA... (A, B, C, I, J...) | ZINC ION | non-polymer | 65.4 | 10 | Chemie (ZN) | |||
| 36 | SA, TA (q) | MANGANESE (II) ION | non-polymer | 54.9 | 2 | Chemie (MN) |
Sequence modifications
A: 1 - 1970 (UniProt: A0A7M4DUC2)
V: 4 - 36 (PDB: 7PKS)
V: 36 - 580 (UniProt: Q8WX92)
W: 57 - 73 (PDB: 7PKS)
W: 74 - 87 (PDB: 7PKS)
W: 87 - 590 (UniProt: Q8IXH7)
k: 1 - 600 (UniProt: Q5TA45)
q: 1 - 309 (UniProt: P67775)
| PDB | External Database | Details |
|---|---|---|
| - | Tyr 1636 | deletion |
| - | Ser 1637 | deletion |
| - | Pro 1638 | deletion |
| - | Thr 1639 | deletion |
| - | Ser 1640 | deletion |
| - | Pro 1641 | deletion |
| - | Ser 1642 | deletion |
| - | Tyr 1643 | deletion |
| - | Ser 1644 | deletion |
| - | Pro 1645 | deletion |
| - | Thr 1646 | deletion |
| - | Ser 1647 | deletion |
| - | Pro 1648 | deletion |
| - | Ser 1649 | deletion |
V: 36 - 580 (UniProt: Q8WX92)
W: 57 - 73 (PDB: 7PKS)
W: 74 - 87 (PDB: 7PKS)
W: 87 - 590 (UniProt: Q8IXH7)
k: 1 - 600 (UniProt: Q5TA45)
| PDB | External Database | Details |
|---|---|---|
| Glu 487 | Asp 487 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Asn 88 | Asp 88 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 33 |
| Total formula weight | 2032610.9 | |
| Non-Polymers* | Number of molecules | 13 |
| Total formula weight | 788.3 | |
| All* | Total formula weight | 2033399.2 |
