7Q8A | pdb_00007q8a

Crystal structure of tandem domain RRM1-2 of FUBP-interacting repressor (FIR) bound to FUSE ssDNA fragment

• PDB DOI: https://doi.org/10.2210/pdb7Q8A/pdb
• NAKB: 7Q8A

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


• Deposited: 2021-11-10 Released: 2022-11-09 
• Deposition Author(s): Ni, X., Joerger, A.C., Chaikuad, A., Knapp, S., Structural Genomics Consortium (SGC)
• Funding Organization(s): Not funded

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.247 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of tandem domain RRM1-2 of FIR bound to FUSE ssDNA fragment

Ni, X., Joerger, A.C., Chaikuad, A., Knapp, S., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 45.49 kDa 
• Atom Count: 3,174 
• Modeled Residue Count: 395 
• Deposited Residue Count: 402 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Poly(U)-binding-splicing factor PUF60	A, B	199	Homo sapiens	Mutation(s): 0  Gene Names: PUF60, FIR, ROBPI, SIAHBP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UHX1 (Homo sapiens) Explore Q9UHX1  Go to UniProtKB:  Q9UHX1
PHAROS:  Q9UHX1 GTEx:  ENSG00000179950

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*GP*T)-3')	C [auth D]	2	Homo sapiens

Entity ID: 3
Molecule	Chains	Length	Organism	Image
ssDNA	D [auth E]	2	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth B], F [auth B], G [auth B], H [auth D]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.247 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.696	α = 90
b = 69.785	β = 90
c = 107.158	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-11-09 
Deposition Author(s): Ni, X., Joerger, A.C., Chaikuad, A., Knapp, S., Structural Genomics Consortium (SGC)

---

Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-11-09
  Type: Initial release
  
• Version 2.0: 2023-01-11
  Type: Coordinate replacement
  Reason: Ligand identity
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
• Version 2.1: 2024-02-07
  Changes: Data collection