2EXU | pdb_00002exu

Crystal Structure of Saccharomyces cerevisiae transcription elongation factors Spt4-Spt5NGN domain

• PDB DOI: https://doi.org/10.2210/pdb2EXU/pdb

• Classification: TRANSCRIPTION
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-11-08 Released: 2006-11-08 
• Deposition Author(s): Xu, F., Guo, M., Fang, P., Teng, M., Niu, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 
  0.221 (Depositor), 0.227 (DCC) 
• R-Value Work: 
  0.206 (Depositor), 0.208 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Literature

Crystal Structure of Saccharomyces cerevisiae transcription elongation factors Spt4-Spt5NGN domain

Xu, F., Guo, M., Fang, P., Teng, M., Niu, 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)

Macromolecule Content 

• Total Structure Weight: 22.9 kDa 
• Atom Count: 1,628 
• Modeled Residue Count: 192 
• Deposited Residue Count: 200 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcription initiation protein SPT4/SPT5	A	200	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: SPT4, SPT5
UniProt
Find proteins for P27692 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P27692  Go to UniProtKB:  P27692

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MPD	E [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
EOH	C [auth A], D [auth A]	ETHANOL C2 H6 O LFQSCWFLJHTTHZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free:  0.221 (Depositor), 0.227 (DCC) 
• R-Value Work:  0.206 (Depositor), 0.208 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.801	α = 90
b = 53.801	β = 90
c = 177.12	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
SOLVE	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-08 
Deposition Author(s): Xu, F., Guo, M., Fang, P., Teng, M., Niu, L.

Revision History  

• Version 1.0: 2006-11-08
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Derived calculations, Version format compliance
• Version 1.3: 2017-08-23
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary