7PKS

Structural basis of Integrator-mediated transcription regulation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural basis of Integrator-mediated transcription regulation.

Fianu, I.Chen, Y.Dienemann, C.Dybkov, O.Linden, A.Urlaub, H.Cramer, P.

(2021) Science 374: 883-887

  • DOI: 10.1126/science.abk0154
  • Primary Citation of Related Structures:  
    7PKS

  • PubMed Abstract: 
  • [Figure: see text].


    Organizational Affiliation

    Department of Molecular Biology, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunitA1970Sus scrofa domesticusMutation(s): 0 
EC: 2.7.7.6
UniProt
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UniProt GroupA0A7M4DUC2
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit betaB1174Sus scrofa domesticusMutation(s): 0 
Gene Names: POLR2B
EC: 2.7.7.6
UniProt
Find proteins for A0A0B8RVL1 (Sus scrofa domesticus)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB3C275Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
RNA polymerase II subunit DD142Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit EE210Sus scrofa domesticusMutation(s): 0 
UniProt
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UniProt GroupI3LSI7
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit FF127Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB7G172Sus scrofa domesticusMutation(s): 0 
UniProt
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UniProt GroupI3LJZ9
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC3H150Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB9I125Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC5J67Sus scrofa domesticusMutation(s): 0 
UniProt
Find proteins for A0A7K6NXI9 (Pedionomus torquatus)
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
RNA_pol_L_2 domain-containing proteinK117Sus scrofa domesticusMutation(s): 0 
UniProt
Find proteins for A0A4X1UK25 (Sus scrofa)
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
RNA polymerase II subunit KL58Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
RPBI C-terminal domain peptideM13Sus scrofa domesticusMutation(s): 0 
EC: 2.7.7.6
UniProt
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
Negative elongation factor AQ [auth U]528Homo sapiensMutation(s): 0 
Gene Names: NELFAWHSC2P/OKcl.15
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
Negative elongation factor BR [auth V]614Homo sapiensMutation(s): 0 
Gene Names: NELFBCOBRA1KIAA1182
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
Negative elongation factor C/DS [auth W]616Homo sapiensMutation(s): 0 
Gene Names: NELFCDNELFDTH1TH1LHSPC130
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
Negative elongation factor ET [auth X]22Homo sapiensMutation(s): 0 
Gene Names: NELFERDRDBP
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription elongation factor SPT5U [auth Z]1087Homo sapiensMutation(s): 0 
Gene Names: SUPT5HSPT5SPT5H
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UniProt GroupO00267
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 1V [auth a]2190Homo sapiensMutation(s): 0 
Gene Names: INTS1KIAA1440UNQ1821/PRO3434
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 2W [auth b]1204Homo sapiensMutation(s): 0 
Gene Names: INTS2KIAA1287
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 4X [auth d]963Homo sapiensMutation(s): 0 
Gene Names: INTS4MSTP093
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 5Y [auth e]1019Homo sapiensMutation(s): 0 
Gene Names: INTS5KIAA1698
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 6Z [auth f]887Homo sapiensMutation(s): 0 
Gene Names: INTS6DBI1DDX26DDX26A
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 7AA [auth g]962Homo sapiensMutation(s): 0 
Gene Names: INTS7C1orf73
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 8BA [auth h]995Homo sapiensMutation(s): 0 
Gene Names: INTS8C8orf52
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 9CA [auth i]658Homo sapiensMutation(s): 0 
Gene Names: INTS9RC74
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
Integrator complex subunit 11DA [auth k]600Homo sapiensMutation(s): 0 
Gene Names: INTS11CPSF3LRC68
EC: 3.1.27
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoformEA [auth p]589Homo sapiensMutation(s): 0 
Gene Names: PPP2R1A
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoformFA [auth q]309Homo sapiensMutation(s): 0 
Gene Names: PPP2CA
EC: 3.1.3.16
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
UnknownGA [auth u]27Homo sapiensMutation(s): 0 
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Entity ID: 14
MoleculeChainsLengthOrganismImage
Non-template DNAN 48Human immunodeficiency virus 1
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Entity ID: 15
MoleculeChainsLengthOrganismImage
TAR RNAO [auth P]17Human immunodeficiency virus 1
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Entity ID: 16
MoleculeChainsLengthOrganismImage
DNA TemplateP [auth T]48Human immunodeficiency virus 1
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Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
IA [auth A],
JA [auth A],
KA [auth B],
LA [auth C],
MA [auth I],
IA [auth A],
JA [auth A],
KA [auth B],
LA [auth C],
MA [auth I],
NA [auth I],
OA [auth J],
PA [auth L],
QA [auth k],
RA [auth k]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MN (Subject of Investigation/LOI)
Query on MN

Download Ideal Coordinates CCD File 
SA [auth q],
TA [auth q]
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
HA [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)European UnionEXC 2067/1-390729940
European Research Council (ERC)European Union882357

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-08
    Type: Initial release