8RBX
Structure of Integrator-PP2A bound to a paused RNA polymerase II-DSIF-NELF-nucleosome 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 | 1 | UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK | polymer | 8 | 698.9 | 1 | Sus scrofa (pig) | ||
2 | A, Y | DNA-directed RNA polymerase subunit | polymer | 1970 | 217450.1 | 2 | UniProt (A0A7M4DUC2) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) In PDB | Sus scrofa (pig) | |
3 | 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) | |
4 | C | DNA-directed RNA polymerase II subunit RPB3 | polymer | 275 | 31439.1 | 1 | UniProt (I3LCH3) Pfam (PF01193) Pfam (PF01000) In PDB | Sus scrofa (pig) | |
5 | D | RNA polymerase II subunit D | polymer | 142 | 16331.3 | 1 | UniProt (A0A287ADR4) Pfam (PF03874) In PDB | Sus scrofa (pig) | |
6 | 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 |
7 | F | DNA-directed RNA polymerases I, II, and III subunit RPABC2 | polymer | 127 | 14477.0 | 1 | UniProt (A0A8D1KNW4) Pfam (PF01192) In PDB | Sus scrofa (pig) | |
8 | G | DNA-directed RNA polymerase II subunit RPB7 | polymer | 172 | 19314.3 | 1 | UniProt (A0A4X1VKG7) Pfam (PF03876) Pfam (PF00575) In PDB | Sus scrofa (pig) | |
9 | H | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 150 | 17162.3 | 1 | UniProt (I3LCB2) Pfam (PF03870) In PDB | Sus scrofa (pig) | |
10 | 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 |
11 | 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) | |
12 | K | DNA-directed RNA polymerase II subunit RPB11-a | polymer | 117 | 13310.3 | 1 | UniProt (F1RKE4) Pfam (PF13656) In PDB | Sus scrofa (pig) | |
13 | L | RNA polymerase II subunit K | polymer | 58 | 7018.2 | 1 | UniProt (A0A8D0JYF1) Pfam (PF03604) UniProt (by SIFTS) (A0A4X1TRS6) In PDB | Sus scrofa (pig) | |
14 | M, S | Histone H3.3C | polymer | 135 | 15350.0 | 2 | UniProt (Q6NXT2) Pfam (PF00125) In PDB | Homo sapiens (human) | |
15 | N | non-template DNA | polymer | 148 | 45938.3 | 1 | synthetic construct | ||
16 | O, U | Histone H4 | polymer | 103 | 11394.4 | 2 | UniProt (P62805) Pfam (PF15511) In PDB | Homo sapiens (human) | |
17 | P | RNA | polymer | 17 | 5549.3 | 1 | synthetic construct | ||
18 | Q, V | Histone H2A type 1 | polymer | 130 | 14093.5 | 2 | UniProt (P02262) Pfam (PF00125) Pfam (PF16211) In PDB | Homo sapiens (human) | |
19 | R, W | Histone H2B type 1-J | polymer | 126 | 13981.3 | 2 | UniProt (P06899) Pfam (PF00125) In PDB | Homo sapiens (human) | |
20 | T | Template DNA | polymer | 185 | 56757.2 | 1 | synthetic construct | ||
21 | Z | Transcription elongation factor SPT5 | polymer | 1087 | 121145.5 | 1 | UniProt (O00267) Pfam (PF11942) Pfam (PF03439) Pfam (PF00467) In PDB | 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 | a | Integrator complex subunit 1 | polymer | 2192 | 244776.1 | 1 | UniProt (Q8N201) Pfam (PF12432) Pfam (PF22929) Pfam (PF22927) Pfam (PF22928) In PDB | Homo sapiens (human) | |
23 | b | Integrator complex subunit 2 | polymer | 1204 | 134451.6 | 1 | UniProt (Q9H0H0) Pfam (PF14750) In PDB | Homo sapiens (human) | Int2 |
24 | d | Integrator complex subunit 4 | polymer | 963 | 108306.8 | 1 | UniProt (Q96HW7) Pfam (PF20168) Pfam (PF13646) In PDB | Homo sapiens (human) | Int4 |
25 | e | Integrator complex subunit 5 | polymer | 1021 | 108316.4 | 1 | UniProt (Q6P9B9) Pfam (PF14837) Pfam (PF14838) In PDB | Homo sapiens (human) | |
26 | f | Integrator complex subunit 6 | polymer | 889 | 100728.3 | 1 | UniProt (Q9UL03) Pfam (PF13519) Pfam (PF15300) In PDB | Homo sapiens (human) | |
27 | g | Integrator complex subunit 7 | polymer | 964 | 107153.8 | 1 | UniProt (Q9NVH2) Pfam (PF22965) In PDB | Homo sapiens (human) | |
28 | h | Integrator complex subunit 8 | polymer | 995 | 113219.9 | 1 | UniProt (Q75QN2) In PDB | Homo sapiens (human) | Int8,Protein kaonashi-1 |
29 | i | Integrator complex subunit 9 | polymer | 658 | 73891.2 | 1 | UniProt (Q9NV88) Pfam (PF16661) Pfam (PF10996) Pfam (PF21382) In PDB | Homo sapiens (human) | Int9,Protein related to CPSF subunits of 74 kDa,RC-74 |
30 | j | Integrator complex subunit 10 | polymer | 710 | 82339.9 | 1 | UniProt (Q9NVR2) Pfam (PF21045) In PDB | Homo sapiens (human) | Int10 |
31 | k | Integrator complex subunit 11 | polymer | 602 | 67956.8 | 1 | UniProt (Q5TA45) Pfam (PF16661) Pfam (PF10996) Pfam (PF07521) Pfam (PF21386) In PDB | Homo sapiens (human) | |
32 | m | Integrator complex subunit 13 | polymer | 706 | 80345.2 | 1 | UniProt (Q9NVM9) Pfam (PF10221) In PDB | Homo sapiens (human) | Cell cycle regulator Mat89Bb homolog,Germ cell tumor 1,Protein asunder homolog,Sarcoma antigen NY-SAR-95 |
33 | n | Integrator complex subunit 14 | polymer | 518 | 57526.5 | 1 | UniProt (Q96SY0) Pfam (PF13519) Pfam (PF19435) Pfam (PF20504) In PDB | Homo sapiens (human) | von Willebrand factor A domain-containing protein 9 |
34 | o | Integrator complex subunit 15 | polymer | 451 | 50303.6 | 1 | UniProt (Q96N11) Pfam (PF14964) In PDB | Homo sapiens (human) | |
35 | p | Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform | polymer | 591 | 65579.5 | 1 | UniProt (P30153) Pfam (PF02985) In PDB | Homo sapiens (human) | |
36 | q | Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform | polymer | 311 | 35836.3 | 1 | UniProt (P67775) Pfam (PF00149) In PDB | Homo sapiens (human) | |
37 | r | DSS1 | polymer | 28 | 3558.8 | 1 | Trichoplusia ni | ||
38 | u | Negative elongation factor A | polymer | 528 | 57343.6 | 1 | UniProt (Q9H3P2) In PDB | Homo sapiens (human) | NELF-A,Wolf-Hirschhorn syndrome candidate 2 protein |
39 | v | NELF-B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B | polymer | 613 | 68587.7 | 1 | UniProt (Q8WX92) Pfam (PF06209) In PDB | Homo sapiens (human) | NELF-B,Cofactor of BRCA1 |
40 | w | Negative elongation factor C/D | polymer | 583 | 65748.6 | 1 | UniProt (Q8IXH7) Pfam (PF04858) In PDB | Homo sapiens (human) | NELF-C/D,TH1-like protein |
41 | x | UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK | polymer | 22 | 1890.3 | 1 | Homo sapiens (human) | ||
42 | J, L, k, A, B... | ZINC ION | non-polymer | 65.4 | 10 | Chemie (ZN) | |||
43 | P | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
44 | f, q | MANGANESE (II) ION | non-polymer | 54.9 | 2 | Chemie (MN) |
Sequence modifications
A, Y: 1 - 1970 (UniProt: A0A7M4DUC2)
M, S: 1 - 135 (UniProt: Q6NXT2)
Q, V: 0 - 129 (UniProt: P02262)
R, W: -3 - 122 (UniProt: P06899)
a: 1 - 2190 (UniProt: Q8N201)
e: 1 - 1019 (UniProt: Q6P9B9)
f: 1 - 887 (UniProt: Q9UL03)
g: 1 - 962 (UniProt: Q9NVH2)
k: 1 - 600 (UniProt: Q5TA45)
o: 1 - 449 (UniProt: Q96N11)
p: 1 - 589 (UniProt: P30153)
q: 1 - 309 (UniProt: P67775)
v: 4 - 36 (PDB: 8RBX)
v: 36 - 580 (UniProt: Q8WX92)
w: 10 - 590 (UniProt: Q8IXH7)
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 |
PDB | External Database | Details |
---|---|---|
Lys 79 | Asn 79 | conflict |
Ser 87 | Ala 87 | conflict |
Met 90 | Gly 90 | conflict |
PDB | External Database | Details |
---|---|---|
Val 87 | Ile 88 | engineered mutation |
PDB | External Database | Details |
---|---|---|
Ser 1 | Ala 5 | conflict |
Ile 15 | Val 19 | conflict |
Ser 121 | Ala 125 | conflict |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
Gln 203 | Glu 203 | engineered mutation |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Ser -1 | - | expression tag |
Asn 0 | - | expression tag |
Asn 88 | Asp 88 | engineered mutation |
v: 36 - 580 (UniProt: Q8WX92)
w: 10 - 590 (UniProt: Q8IXH7)
PDB | External Database | Details |
---|---|---|
Ser 8 | - | expression tag |
Asn 9 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 46 |
Total formula weight | 2702422.9 | |
Non-Polymers* | Number of molecules | 13 |
Total formula weight | 788.3 | |
All* | Total formula weight | 2703211.2 |