5IY7

Human holo-PIC in the open state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.6 Å
  • Aggregation State: Particle
  • Reconstruction Method: Single Particle

Literature

Macromolecules
Sequence Display for 5IY7

Classification: TRANSCRIPTION TRANSFERASE / DNA

Total Structure Weight: 1211331.38


Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase II subunit RPB1 A 1970 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): POLR2A Gene View POLR2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB2 B 1174 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): POLR2B Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB3 C 275 Homo sapiens Gene Name(s): POLR2C Gene View A-152E5.7
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB4 D 142 Homo sapiens Gene Name(s): POLR2D Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB5 E 210 Homo sapiens Gene Name(s): POLR2E Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB6 F 127 Homo sapiens Gene Name(s): POLR2F Gene View POLRF
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB7 G 172 Homo sapiens Gene Name(s): POLR2G Gene View RPB7
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB8 H 150 Homo sapiens Gene Name(s): POLR2H Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB9 I 125 Homo sapiens Gene Name(s): POLR2I Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB10 J 67 Homo sapiens Gene Name(s): POLR2L Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB11-a K 117 Homo sapiens Gene Name(s): POLR2J Gene View POLR2J1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase II subunit RPB12 L 58 Homo sapiens Gene Name(s): POLR2K Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription initiation factor IIB M 316 Homo sapiens Gene Name(s): GTF2B Gene View TF2B TFIIB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription initiation factor IIA subunit 1 N 376 Homo sapiens Gene Name(s): GTF2A1 Gene View TF2A1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription initiation factor IIA subunit 2 O 109 Homo sapiens Gene Name(s): GTF2A2 Gene View TF2A2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
TATA-box-binding protein P 339 Homo sapiens Gene Name(s): TBP Gene View GTF2D1 TF2D TFIID
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIE subunit 1 Q 439 Homo sapiens Gene Name(s): GTF2E1 Gene View TF2E1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription initiation factor IIE subunit beta R 291 Homo sapiens Gene Name(s): GTF2E2 Gene View TF2E2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIF subunit 1 S 517 Homo sapiens Gene Name(s): GTF2F1 Gene View RAP74
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIF subunit 2 T 249 Homo sapiens EC#: 3.6.4.12 IUBMB
Gene Name(s): GTF2F2 Gene View RAP30
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription elongation factor TFIIS U 301 Homo sapiens Gene Name(s): TCEA1 Gene View GTF2S TFIIS
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
TFIIH basal transcription factor complex helicase XPB subunit V 782 Homo sapiens EC#: 3.6.4.12 IUBMB
Gene Name(s): ERCC3 Gene View XPB XPBC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
TFIIH basal transcription factor complex helicase XPD subunit W 760 Homo sapiens EC#: 3.6.4.12 IUBMB
Gene Name(s): ERCC2 Gene View XPD XPDC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIH subunit 2 0 395 Homo sapiens Gene Name(s): GTF2H2 Gene View BTF2P44
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIH subunit 5 1 71 Homo sapiens Gene Name(s): GTF2H5 Gene View C6orf175 TTDA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIH subunit 4 2 462 Homo sapiens Gene Name(s): GTF2H4 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
General transcription factor IIH subunit 3 3 308 Homo sapiens Gene Name(s): GTF2H3 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
SCP-X X 77 Homo sapiens
SCP-Y Y 77 Homo sapiens

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

A, B, C, I, L, M, Q, U ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.6 Å
  • Reconstruction Method: Single Particle

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-03-24
  • Released Date: 2016-05-18
  • Deposition author(s): He, Y., Yan, C., Fang, J., Inouye, C., Tjian, R., Ivanov, I., Nogales, E.

Revision History

  • Version 1_0: 2016-05-18

    Type: Initial release

  • Version 1_1: 2016-05-25

    Type: Database references

  • Version 1_2: 2016-06-22

    Type: Database references

  • Version 1_3: 2017-09-13

    Type: Author supporting evidence