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Crystal structure of yeast U2AF1 complex bound to 3' splice site RNA, 5'-UAGGU.

X-ray diffraction
3.02Å resolution
PDB entry 7c06 coloured by chain, front view.
PDB entry 7c06 coloured by chain, side view.
PDB entry 7c06 coloured by chain, top view.
Source organism: Schizosaccharomyces pombe 972h-
Assembly composition:
hetero trimer (preferred)
Entry contents: 2 distinct polypeptide molecules
1 distinct RNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 15312.13 Å2
Buried surface area: 4988.11 Å2
Dissociation area: 797.09 Å2
Dissociation energy (ΔGdiss): 4.87 kcal/mol
Dissociation entropy (TΔSdiss): 8.32 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 2
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 14619.34 Å2
Buried surface area: 4949.89 Å2
Dissociation area: 799.31 Å2
Dissociation energy (ΔGdiss): 6.75 kcal/mol
Dissociation entropy (TΔSdiss): 8.32 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 3
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 15294.94 Å2
Buried surface area: 4908.94 Å2
Dissociation area: 1,635.44 Å2
Dissociation energy (ΔGdiss): 20.46 kcal/mol
Dissociation entropy (TΔSdiss): 11.47 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 4
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 15608.14 Å2
Buried surface area: 4775.66 Å2
Dissociation area: 764.33 Å2
Dissociation energy (ΔGdiss): 8.68 kcal/mol
Dissociation entropy (TΔSdiss): 8.32 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 5
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 14384.8 Å2
Buried surface area: 4746.53 Å2
Dissociation area: 695.44 Å2
Dissociation energy (ΔGdiss): 1.16 kcal/mol
Dissociation entropy (TΔSdiss): 8.24 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 6
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 15360.03 Å2
Buried surface area: 4890.26 Å2
Dissociation area: 779.07 Å2
Dissociation energy (ΔGdiss): 7.3 kcal/mol
Dissociation entropy (TΔSdiss): 8.3 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 7
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 14680.71 Å2
Buried surface area: 4909.74 Å2
Dissociation area: 795.57 Å2
Dissociation energy (ΔGdiss): 6.88 kcal/mol
Dissociation entropy (TΔSdiss): 8.33 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 8
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 14476.9 Å2
Buried surface area: 4810.48 Å2
Dissociation area: 1,654.99 Å2
Dissociation energy (ΔGdiss): 19.77 kcal/mol
Dissociation entropy (TΔSdiss): 11.44 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199
Assembly 9
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Assembly Name: Splicing factor U2AF kDa and RNA
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Multimeric state: hetero trimer
Accessible surface area: 14292.03 Å2
Buried surface area: 4688.92 Å2
Dissociation area: 679.68 Å2
Dissociation energy (ΔGdiss): 1.87 kcal/mol
Dissociation entropy (TΔSdiss): 8.26 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153199

Macromolecules

Splicing factor U2AF 23 kDa subunit
Chains: A, D, G, J, M, P, S, V, Y
Length: 216 amino acids
Theoretical weight: 25.07 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: Q09176 (Residues: 1-216; Coverage: 100%)
Gene name: SPAP8A3.06
Pfam:
InterPro:
Splicing factor U2AF 23 kDa subunit in PDB entry 7c06, assembly 1, front view.
Splicing factor U2AF 23 kDa subunit in PDB entry 7c06, assembly 1, side view.
Splicing factor U2AF 23 kDa subunit in PDB entry 7c06, assembly 1, top view.
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Splicing factor U2AF 59 kDa subunit
Chains: B, E, H, K, N, Q, T, W, Z
Length: 69 amino acids
Theoretical weight: 7.83 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: P36629 (Residues: 93-161; Coverage: 13%)
Gene names: SPBC146.07, mis11, prp2
Splicing factor U2AF 59 kDa subunit in PDB entry 7c06, assembly 1, front view.
Splicing factor U2AF 59 kDa subunit in PDB entry 7c06, assembly 1, side view.
Splicing factor U2AF 59 kDa subunit in PDB entry 7c06, assembly 1, top view.
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RNA chains 1, C, F, I, L, O, R, U, X
Name: RNA (5'-R(*U*UP*AP*GP*GP*U)-3')
Representative chains: 1, C, F, I, L, O, R, U, X
Length: 6 nucleotides
Theoretical weight: 1.89 KDa
RNA (5'-R(*U*UP*AP*GP*GP*U)-3') in PDB entry 7c06, assembly 1, front view.
RNA (5'-R(*U*UP*AP*GP*GP*U)-3') in PDB entry 7c06, assembly 1, side view.
RNA (5'-R(*U*UP*AP*GP*GP*U)-3') in PDB entry 7c06, assembly 1, top view.
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