8HPP

Crystal structure of human INTS3 with SAGE1

• PDB DOI: https://doi.org/10.2210/pdb8HPP/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-12-12 Released: 2023-12-20 
• Deposition Author(s): Deng, W., Wu, J., Lei, M.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.257 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 

Starting Model: experimental

Literature

Cancer-testis antigen SAGE1 is a pan-cancer master regulator of RNA polymerase II

Deng, W., Wu, J., Lei, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 118.69 kDa 
• Atom Count: 7,102 
• Modelled Residue Count: 875 
• Deposited Residue Count: 1,032 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Integrator complex subunit 3	A, B	471	Homo sapiens	Mutation(s): 0  Gene Names: INTS3, C1orf193, C1orf60
UniProt & NIH Common Fund Data Resources
Find proteins for Q68E01 (Homo sapiens) Explore Q68E01  Go to UniProtKB:  Q68E01
GTEx:  ENSG00000143624

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sarcoma antigen 1	C	90	Homo sapiens	Mutation(s): 0  Gene Names: SAGE1, SAGE
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NXZ1 (Homo sapiens) Explore Q9NXZ1  Go to UniProtKB:  Q9NXZ1
GTEx:  ENSG00000181433

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.257 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 260.119	α = 90
b = 46.241	β = 113.28
c = 103.104	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
PHENIX	phasing
Coot	model building
HKL-2000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-20 
Deposition Author(s): Deng, W., Wu, J., Lei, M.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2023-12-20
  Type: Initial release