7XI6 | pdb_00007xi6

Crystal structure of C56 from pSSVi

• PDB DOI: https://doi.org/10.2210/pdb7XI6/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Saccharolobus solfataricus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-04-12 Released: 2023-04-19 
• Deposition Author(s): Zhang, Z.F., Ren, Y., Chen, Y.Y., Zhang, X.W., Dong, Y.H., Gong, Y., Cao, P., Huang, L.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.252 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.232 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.233 (Depositor) 

Starting Model: experimental

Literature

Characterization of the AbrB-like protein C56 conserved in a novel family of integrated genetic elements in Sulfolobales

Zhang, Z.F., Ren, Y., Chen, Y.Y., Zhang, X.W., Dong, Y.H., Gong, Y., Cao, P., Huang, L.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global 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: 13.04 kDa 
• Atom Count: 987 
• Modeled Residue Count: 112 
• Deposited Residue Count: 112 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C56	A, B	56	Saccharolobus solfataricus	Mutation(s): 0
UniProt
Find proteins for A5GXY1 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)) Explore A5GXY1  Go to UniProtKB:  A5GXY1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.252 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.232 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.233 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.401	α = 90
b = 62.401	β = 90
c = 166.776	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-04-19 
Deposition Author(s): Zhang, Z.F., Ren, Y., Chen, Y.Y., Zhang, X.W., Dong, Y.H., Gong, Y., Cao, P., Huang, L.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	92051109
National Natural Science Foundation of China (NSFC)	China	32170050
National Natural Science Foundation of China (NSFC)	China	31970170
National Natural Science Foundation of China (NSFC)	China	91951000

Revision History  

• Version 1.0: 2023-04-19
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description