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crystal structure of P-TEFb complex with AFF4 and Tat

X-ray diffraction
3Å resolution
PDB entry 4ogr coloured by chain, front view.
PDB entry 4ogr coloured by chain, side view.
PDB entry 4ogr coloured by chain, top view.
Source organisms:
Assembly composition:
hetero tetramer (preferred)
Entry contents: 4 distinct polypeptide molecules

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Assemblies

Assembly 1
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Assembly Name: Positive transcription elongation factor B, CDK9-cyclinT1 complex
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Multimeric state: hetero tetramer
Accessible surface area: 29916.89 Å2
Buried surface area: 11581.86 Å2
Dissociation area: 1,836.08 Å2
Dissociation energy (ΔGdiss): 7.01 kcal/mol
Dissociation entropy (TΔSdiss): 13.88 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-130024
Assembly 2 (preferred)
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Assembly Name: Positive transcription elongation factor B, CDK9-cyclinT1 complex
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Multimeric state: hetero tetramer
Accessible surface area: 28609.86 Å2
Buried surface area: 10729.03 Å2
Dissociation area: 1,267.72 Å2
Dissociation energy (ΔGdiss): 5.06 kcal/mol
Dissociation entropy (TΔSdiss): 13.52 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-130024
Assembly 3
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Assembly Name: Positive transcription elongation factor B, CDK9-cyclinT1 complex
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Multimeric state: hetero tetramer
Accessible surface area: 30091.27 Å2
Buried surface area: 11574.86 Å2
Dissociation area: 1,940.8 Å2
Dissociation energy (ΔGdiss): 5.66 kcal/mol
Dissociation entropy (TΔSdiss): 13.9 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-130024

Macromolecules

Cyclin-dependent kinase 9
Chains: A, E, I
Length: 332 amino acids
Theoretical weight: 38.23 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P50750 (Residues: 1-330; Coverage: 89%)
Gene names: CDC2L4, CDK9, TAK
Pfam: Protein kinase domain
InterPro:
CATH:
Cyclin-dependent kinase 9 in PDB entry 4ogr, assembly 2, front view.
Cyclin-dependent kinase 9 in PDB entry 4ogr, assembly 2, side view.
Cyclin-dependent kinase 9 in PDB entry 4ogr, assembly 2, top view.
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Cyclin-T1
Chains: B, F, K
Length: 264 amino acids
Theoretical weight: 30.62 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O60563 (Residues: 1-264; Coverage: 36%)
Gene name: CCNT1
Pfam:
InterPro:
CATH: Cyclin-like
Cyclin-T1 in PDB entry 4ogr, assembly 2, front view.
Cyclin-T1 in PDB entry 4ogr, assembly 2, side view.
Cyclin-T1 in PDB entry 4ogr, assembly 2, top view.
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AF4/FMR2 family member 4
Chains: C, G, L
Length: 75 amino acids
Theoretical weight: 8.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UHB7 (Residues: 2-73; Coverage: 6%)
Gene names: AF5Q31, AFF4, HSPC092, MCEF
InterPro: AF4/FMR2 family
CATH: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
AF4/FMR2 family member 4 in PDB entry 4ogr, assembly 2, front view.
AF4/FMR2 family member 4 in PDB entry 4ogr, assembly 2, side view.
AF4/FMR2 family member 4 in PDB entry 4ogr, assembly 2, top view.
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Protein Tat
Chains: D, H, M
Length: 58 amino acids
Theoretical weight: 6.78 KDa
Source organism: Human immunodeficiency virus type 1 (HXB3 ISOLATE)
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P69698 (Residues: 1-57; Coverage: 66%)
Gene name: tat
Pfam: Transactivating regulatory protein (Tat)
InterPro:
Protein Tat in PDB entry 4ogr, assembly 2, front view.
Protein Tat in PDB entry 4ogr, assembly 2, side view.
Protein Tat in PDB entry 4ogr, assembly 2, top view.
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