5EV3: Splicing factor U2AF 65 kDa subunit

Structure III of Intact U2AF65 Recognizing the 3' Splice Site Signal. Determined by X-ray diffraction at 1.5 Å resolution. Released 24 Feb 2016.

Method: X-ray diffraction
Resolution: 1.5 Å
Organisms: Homo sapiens, synthetic construct
Chains: 2
Atoms: 1,921
Mol. weight: 24.39 kDa
Released: 24 Feb 2016

Explore 5EV3 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5EV3 contains 9 α-helices and 13 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 9 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	147-149	3
β-strand	150-154	5	1
α-helix	156-157	2
α-helix	162-175	14
β-strand	186-192	7	1
β-strand	197-202	6	1
α-helix	205-211	7
α-helix	212-214	3
β-strand	218-219	2	2
β-strand	222-223	2	2
β-strand	225-227	3	1
α-helix	234-235	2
β-strand	251	1	3
β-strand	261-264	4	3
α-helix	272-280	9
β-strand	285-292	8	3
β-strand	299-307	9	3
α-helix	312-320	9
β-strand	324-325	2	4
β-strand	328-329	2	4
β-strand	331-334	4	3
α-helix	335-338	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Splicing factor U2AF 65 kDa subunit	A	protein	201	Homo sapiens	P26368 (AlphaFold model)
Dna/rna (5'-r(pupu)-d(pu)-r(pupu)-d(p(bru)pupu)-3')	B	NA-hybrid	8	synthetic construct

Sequence of entity 1 (A), FASTA

>5EV3_1 Splicing factor U2AF 65 kDa subunit (chains A)
GSQMTRQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFL
EFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHK
LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL
NGMQLGDKKLLVQRASVGAKN

Sequence of entity 2 (B), FASTA

>5EV3_2 DNA/RNA (5'-R(P*UP*U)-D(P*U)-R(P*UP*U)-D(P*(BRU)P*UP*U)-3') (chains B)
UUUUUUUU

Primary citation

An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal. Agrawal, A.A., Salsi, E., Chatrikhi, R. et al. Nat Commun (2016) 7:10950-10950. DOI 10.1038/ncomms10950 · PubMed

Other PDB entries of the same protein (UniProt P26368 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5W0G 1.07 Å, Structure of U2AF65 (U2AF2) RRM1 at 1.07 resolution
5W0H 1.11 Å, Structure of U2AF65 (U2AF2) RRM2 at 1.11 Angstrom Resolution
6XLV 1.4 Å, Crystal structure of leukemia-associated N196K mutant of U2AF65 bound to AdML splice site
9C7A 1.4 Å, Crystal structure of R149W neurodevelopmental disease-associated U2AF2 variant
9C7B 1.4 Å, Crystal structure of R150H neurodevelopmental disease-associated U2AF2 variant
2HZC 1.47 Å, Crystal structure of the N-terminal RRM of the U2AF large subunit
7S3A 1.48 Å, Crystal structure of intact U2AF65 RRM-region bound to AdML-C5 oligonucleotide
6XLW 1.5 Å, Crystal structure of U2AF65 bound to AdML splice site sequence
7S3C 1.51 Å, Crystal structure of intact U2AF65 RRM-region bound to AdML-A5 oligonucleotide
5EV4 1.57 Å, Structure IV of Intact U2AF65 Recognizing the 3' Splice Site Signal
6XLX 1.7 Å, Crystal structure of cancer-associated G301D mutant of U2AF65 bound to AdML splice site
7SN6 1.8 Å, U2AF65 uhm bound to SF3B155 ULM5

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