Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Biological Assembly Evidence: SAXS

Macromolecule Content

• Total Structure Weight: 55.21 kDa 
• Atom Count: 3634 
• Residue Count: 439 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

6S3I

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-MgF4

• DOI: 10.2210/pdb6S3I/pdb
• NDB: 6S3I

• Classification: HYDROLASE
• Organism(s): Thermus oshimai
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2019-06-25 Released: 2021-01-13 
• Deposition Author(s): Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free: 0.301 
• R-Value Work: 0.244 
• R-Value Observed: 0.247 

Literature

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

To be published.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PIF1 helicase	A	444	Thermus oshimai	Mutation(s): 0  Gene Names: Theos_1468
Find proteins for K7RJ88 (Thermus oshimai JL-2) Explore K7RJ88  Go to UniProtKB:  K7RJ88

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*TP*TP*TP*T)-3')	C	14	Thermus oshimai

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	A	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MF4	A	TETRAFLUOROMAGNESATE(2-) F4 Mg XVYWAXYEHHUKQW-UHFFFAOYSA-J
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free: 0.301 
• R-Value Work: 0.244 
• R-Value Observed: 0.247 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.195	α = 90
b = 61.195	β = 90
c = 260.358	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-06-25 
• Released Date: 2021-01-13 
Deposition Author(s): Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31370798,11304252,11574252,31301632

Revision History 

• Version 1.0: 2021-01-13
  Type: Initial release