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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

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 IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(1)		UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNKpolymer8698.91Sus scrofa (pig)
2B, Y
(A, Y)		DNA-directed RNA polymerase subunitpolymer1970217450.12UniProt (A0A7M4DUC2)
Pfam (PF04997)
Pfam (PF05001)
Pfam (PF00623)
Pfam (PF04983)
Pfam (PF05000)
Pfam (PF04998)
Pfam (PF04992)
Pfam (PF04990)
UniProt (by SIFTS) (A0A8D1DPV6)		Sus scrofa (pig)
3C
(B)		DNA-directed RNA polymerase subunit betapolymer1174134041.41UniProt (I3LGP4)
Pfam (PF04563)
Pfam (PF04561)
Pfam (PF04565)
Pfam (PF04566)
Pfam (PF04567)
Pfam (PF00562)
Pfam (PF04560)		Sus scrofa (pig)
4D
(C)		DNA-directed RNA polymerase II subunit RPB3polymer27531439.11UniProt (I3LCH3)
Pfam (PF01193)
Pfam (PF01000)		Sus scrofa (pig)
5E
(D)		RNA polymerase II subunit Dpolymer14216331.31UniProt (A0A287ADR4)
Pfam (PF03874)		Sus scrofa (pig)
6F
(E)		DNA-directed RNA polymerase II subunit Epolymer21024644.31UniProt (I3LSI7)
Pfam (PF03871)
Pfam (PF01191)		Sus scrofa (pig)RPB5 homolog
7G
(F)		DNA-directed RNA polymerases I, II, and III subunit RPABC2polymer12714477.01UniProt (A0A8D1KNW4)
Pfam (PF01192)
UniProt (by SIFTS) (A0A4X1VEK9)		Sus scrofa (pig)
8H
(G)		DNA-directed RNA polymerase II subunit RPB7polymer17219314.31UniProt (A0A4X1VKG7)
Pfam (PF03876)
Pfam (PF00575)		Sus scrofa (pig)
9I
(H)		DNA-directed RNA polymerases I, II, and III subunit RPABC3polymer15017162.31UniProt (I3LCB2)
Pfam (PF03870)		Sus scrofa (pig)
10J
(I)		DNA-directed RNA polymerase II subunit RPB9polymer12514541.21UniProt (P60899)
Pfam (PF02150)
Pfam (PF01096)		Sus scrofa (pig)RNA polymerase II subunit B9,DNA-directed RNA polymerase II subunit I,RNA polymerase II 14.5 kDa subunit,RPB14.5
11K
(J)		DNA-directed RNA polymerases I, II, and III subunit RPABC5polymer677655.11UniProt (A0A4X1VYD0)
Pfam (PF01194)		Sus scrofa (pig)
12L
(K)		DNA-directed RNA polymerase II subunit RPB11-apolymer11713310.31UniProt (F1RKE4)
Pfam (PF13656)		Sus scrofa (pig)
13M
(L)		RNA polymerase II subunit Kpolymer587018.21UniProt (A0A8D0JYF1)
Pfam (PF03604)		Sus scrofa (pig)
14N, T
(M, S)		Histone H3.3Cpolymer13515350.02UniProt (Q6NXT2)
Pfam (PF00125)		Homo sapiens (human)
15O
(N)		non-template DNApolymer14845938.31synthetic construct
16P, V
(O, U)		Histone H4polymer10311394.42UniProt (P62805)
Pfam (PF15511)		Homo sapiens (human)
17Q
(P)		RNApolymer175549.31synthetic construct
18R, W
(Q, V)		Histone H2A type 1polymer13014093.52UniProt (P02262)
Pfam (PF00125)
Pfam (PF16211)
UniProt (by SIFTS) (P0C0S8)		Homo sapiens (human)
19S, X
(R, W)		Histone H2B type 1-Jpolymer12613981.32UniProt (P06899)
Pfam (PF00125)		Homo sapiens (human)
20U
(T)		Template DNApolymer18556757.21synthetic construct
21Z
(Z)		Transcription elongation factor SPT5polymer1087121145.51UniProt (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
22AA
(a)		Integrator complex subunit 1polymer2192244776.11UniProt (Q8N201)
Pfam (PF12432)
Pfam (PF22929)
Pfam (PF22927)
Pfam (PF22928)		Homo sapiens (human)
23BA
(b)		Integrator complex subunit 2polymer1204134451.61UniProt (Q9H0H0)
Pfam (PF14750)		Homo sapiens (human)Int2
24CA
(d)		Integrator complex subunit 4polymer963108306.81UniProt (Q96HW7)
Pfam (PF20168)
Pfam (PF13646)		Homo sapiens (human)Int4
25DA
(e)		Integrator complex subunit 5polymer1021108316.41UniProt (Q6P9B9)
Pfam (PF14837)
Pfam (PF14838)		Homo sapiens (human)
26EA
(f)		Integrator complex subunit 6polymer889100728.31UniProt (Q9UL03)
Pfam (PF13519)
Pfam (PF15300)		Homo sapiens (human)
27FA
(g)		Integrator complex subunit 7polymer964107153.81UniProt (Q9NVH2)
Pfam (PF22965)		Homo sapiens (human)
28GA
(h)		Integrator complex subunit 8polymer995113219.91UniProt (Q75QN2)Homo sapiens (human)Int8,Protein kaonashi-1
29HA
(i)		Integrator complex subunit 9polymer65873891.21UniProt (Q9NV88)
Pfam (PF16661)
Pfam (PF10996)
Pfam (PF21382)		Homo sapiens (human)Int9,Protein related to CPSF subunits of 74 kDa,RC-74
30IA
(j)		Integrator complex subunit 10polymer71082339.91UniProt (Q9NVR2)
Pfam (PF21045)		Homo sapiens (human)Int10
31JA
(k)		Integrator complex subunit 11polymer60267956.81UniProt (Q5TA45)
Pfam (PF16661)
Pfam (PF10996)
Pfam (PF07521)
Pfam (PF21386)		Homo sapiens (human)
32KA
(m)		Integrator complex subunit 13polymer70680345.21UniProt (Q9NVM9)
Pfam (PF10221)		Homo sapiens (human)Cell cycle regulator Mat89Bb homolog,Germ cell tumor 1,Protein asunder homolog,Sarcoma antigen NY-SAR-95
33LA
(n)		Integrator complex subunit 14polymer51857526.51UniProt (Q96SY0)
Pfam (PF13519)
Pfam (PF19435)
Pfam (PF20504)		Homo sapiens (human)von Willebrand factor A domain-containing protein 9
34MA
(o)		Integrator complex subunit 15polymer45150303.61UniProt (Q96N11)
Pfam (PF14964)		Homo sapiens (human)
35NA
(p)		Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoformpolymer59165579.51UniProt (P30153)
Pfam (PF02985)		Homo sapiens (human)
36OA
(q)		Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoformpolymer31135836.31UniProt (P67775)
Pfam (PF00149)		Homo sapiens (human)
37PA
(r)		DSS1polymer283558.81Trichoplusia ni
38QA
(u)		Negative elongation factor Apolymer52857343.61UniProt (Q9H3P2)Homo sapiens (human)NELF-A,Wolf-Hirschhorn syndrome candidate 2 protein
39RA
(v)		NELF-B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor Bpolymer61368587.71UniProt (Q8WX92)
Pfam (PF06209)		Homo sapiens (human)NELF-B,Cofactor of BRCA1
40SA
(w)		Negative elongation factor C/Dpolymer58365748.61UniProt (Q8IXH7)
Pfam (PF04858)		Homo sapiens (human)NELF-C/D,TH1-like protein
41TA
(x)		UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNKpolymer221890.31Homo sapiens (human)
42AB, BB, EB, FB, UA...
(J, L, k, A, B...)		ZINC IONnon-polymer65.410Chemie (ZN)
43CB
(P)		MAGNESIUM IONnon-polymer24.31Chemie (MG)
44DB, GB
(f, q)		MANGANESE (II) IONnon-polymer54.92Chemie (MN)
Sequence modifications
A, Y: 1 - 1970 (UniProt: A0A7M4DUC2)
PDBExternal DatabaseDetails
-Tyr 1636deletion
-Ser 1637deletion
-Pro 1638deletion
-Thr 1639deletion
-Ser 1640deletion
-Pro 1641deletion
-Ser 1642deletion
-Tyr 1643deletion
-Ser 1644deletion
-Pro 1645deletion
-Thr 1646deletion
-Ser 1647deletion
-Pro 1648deletion
-Ser 1649deletion
M, S: 1 - 135 (UniProt: Q6NXT2)
PDBExternal DatabaseDetails
Lys 79Asn 79conflict
Ser 87Ala 87conflict
Met 90Gly 90conflict
Q, V: 0 - 129 (UniProt: P02262)
PDBExternal DatabaseDetails
Val 87Ile 88engineered mutation
R, W: -3 - 122 (UniProt: P06899)
PDBExternal DatabaseDetails
Ser 1Ala 5conflict
Ile 15Val 19conflict
Ser 121Ala 125conflict
a: 1 - 2190 (UniProt: Q8N201)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
e: 1 - 1019 (UniProt: Q6P9B9)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
f: 1 - 887 (UniProt: Q9UL03)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
g: 1 - 962 (UniProt: Q9NVH2)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
k: 1 - 600 (UniProt: Q5TA45)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
Gln 203Glu 203engineered mutation
o: 1 - 449 (UniProt: Q96N11)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
p: 1 - 589 (UniProt: P30153)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
q: 1 - 309 (UniProt: P67775)
PDBExternal DatabaseDetails
Ser -1-expression tag
Asn 0-expression tag
Asn 88Asp 88engineered mutation
v: 4 - 36 (PDB: 8RBX)
v: 36 - 580 (UniProt: Q8WX92)
w: 10 - 590 (UniProt: Q8IXH7)
PDBExternal DatabaseDetails
Ser 8-expression tag
Asn 9-expression tag
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains46
Total formula weight2702422.9
Non-Polymers*Number of molecules13
Total formula weight788.3
All*Total formula weight2703211.2
*Water molecules are not included.

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PDB entries from 2025-06-11

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