Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB 

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

Macromolecule Content

• Total Structure Weight: 73059.87 
• Atom Count: 4534 
• Residue Count: 633 
• Unique protein chains: 2

4EC9

Crystal structure of full-length cdk9 in complex with cyclin t

• DOI: 10.2210/pdb4EC9/pdb

• Classification: TRANSFERASE/PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): 3 


• Deposited: 2012-03-26 Released: 2012-09-12 
• Deposition Author(s): Baumli, S., Hole, A.J., Endicott, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.21 Å
• R-Value Free: 0.233 
• R-Value Work: 0.201 

Literature

The CDK9 tail determines the reaction pathway of positive transcription elongation factor b.

Baumli, S., Hole, A.J., Wang, L.Z., Noble, M.E., Endicott, J.A.

(2012) Structure 20: 1788-1795

• PubMed: 22959624 
• DOI: 10.1016/j.str.2012.08.011
• Primary Citation of Related Structures:  
  4EC8


• PubMed Abstract: 
  

CDK9, the kinase of positive transcription elongation factor b (P-TEFb), stimulates transcription elongation by phosphorylating RNA polymerase II and transcription elongation factors. Using kinetic analysis of a human P-TEFb complex consisting of CDK9 and cyclin T, we show that the CDK9 C-terminal tail sequence is important for the catalytic mechanism and imposes an ordered binding of substrates and release of products. Crystallographic analysis of a CDK9/cyclin T complex in which the C-terminal tail partially blocks the ATP binding site reveals a possible reaction intermediate. Biochemical characterization of CDK9 mutants supports a model in which the CDK9 tail cycles through different conformational states. We propose that this mechanism is critical for the pattern of CTD Ser2 phosphorylation on actively transcribed genes.

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Organizational Affiliation: 

Northern Institute for Cancer Research, Newcastle University, Newcastle upon Tyne NE2 4HH, UK. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Cyclin-dependent kinase 9	A	373	Homo sapiens	Mutation(s): 0  Gene Names: CDK9 (CDC2L4, TAK) EC: 2.7.11.22, 2.7.11.23
Find proteins for P50750 (Homo sapiens) Go to Gene View: CDK9 Go to UniProtKB:  P50750

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Cyclin-T1	B	260	Homo sapiens	Mutation(s): 3  Gene Names: CCNT1
Find proteins for O60563 (Homo sapiens) Go to Gene View: CCNT1 Go to UniProtKB:  O60563

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	A	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.21 Å
• R-Value Free: 0.233 
• R-Value Work: 0.201 
• Space Group: H 3

Unit Cell:

Length (Å)	Angle (°)
a = 174.229	α = 90.00
b = 174.229	β = 90.00
c = 97.990	γ = 120.00

Software Package:

Software Name	Purpose
SCALA	data scaling
PHENIX	phasing
ADSC	data collection
MOSFLM	data reduction
PHENIX	refinement
PHENIX	model building

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-03-26 
• Released Date: 2012-09-12 
• Deposition Author(s): Baumli, S., Hole, A.J., Endicott, J.A.

Revision History 

• Version 1.0: 2012-09-12
  Type: Initial release
• Version 1.1: 2013-01-02
  Type: Database references