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2u2f

SOLUTION STRUCTURE OF THE SECOND RNA-BINDING DOMAIN OF HU2AF65

Method: SOLUTION NMR Dmax: 46.5 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

PROTEIN (SPLICING FACTOR U2AF 65 KD SUBUNIT)

Homo sapiens

UniProt P26368

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 258–342 Fragment：SECOND RNA-BINDING DOMAIN No other associated polymer SOLUTION NMR NMR measurement conditions：pH 6.5；298 K Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 2U2F Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1JMT X-ray Structure of a Core U2AF65/U2AF35 Heterodimer Deposited 2001-07-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 85–112（28 aa）
Not recorded HEZ HEXANE-1,6-DIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.3；277 K；PEG mme5000, sodium acetate, 1,6-hexanediol, MES, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 2.20 Å R-free 0.238
1O0P Solution Structure of the third RNA Recognition Motif (RRM) of U2AF65 in complex with an N-terminal SF1 peptide Deposited 2003-02-24 Different construct Different oligomeric state Different experimental conditions Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 372–475（104 aa） Fragment：C-terminal RRM domain
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.4；295 K；Ionic strength (raw mmCIF value) 50mM salt；Pressure ambient
NMR sample composition 1mM 15N,13C U2AF65-RRM3 + 1mM unlabeled SF1_10-25, 30mM phosphate buffer, 20mM NaCL, 3mM DTT | 90% H2O/10% D2O
NMR sample composition 1mM 15N,13C U2AF65-RRM3 + 1mM unlabeled SF1_10-25, 30mM phosphate buffer, 20mM NaCL, 3mM DTT | 100% D2O
Resolution not provided
1OPI SOLUTION STRUCTURE OF THE THIRD RNA RECOGNITION MOTIF (RRM) OF U2AF65 IN COMPLEX WITH AN N-TERMINAL SF1 PEPTIDE Deposited 2003-03-05 Different construct Different oligomeric state Different experimental conditions Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 372–475（104 aa） Fragment：C-TERMINAL RRM DOMAIN
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.4；295 K；Ionic strength (raw mmCIF value) 50mM SALT；Pressure AMBIENT
NMR sample composition 1MM 15N,13C U2AF65-RRM3 + 1MM UNLABELED SF1_10-25, 30MM PHOSPHATE BUFFER, 20MM NACL, 3MM DTT | D2O
Resolution not provided
1U2F SOLUTION STRUCTURE OF THE FIRST RNA-BINDING DOMAIN OF HU2AF65 Deposited 1999-05-26 Different construct Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 148–237（90 aa） Fragment：FIRST RNA-BINDING DOMAIN
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7.5；298 K
Resolution not provided
2G4B Structure of U2AF65 variant with polyuridine tract Deposited 2006-02-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA binding domain
Chain A 258–336（79 aa） Fragment：RNA binding domain
Mutation：deletion of residues 238-258 Mutation：deletion of residues 238-258 DIO 1,4-DIETHYLENE DIOXIDE × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；.6 M ammonium sulfate, 100 mM 2-(N-morpholino) ethanesulfonic acid, sodium salt (MES) pH 6.5, 10% dioxane, 200 mM non-detergent sulfobetaine (NDSB) 195 , VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.50 Å R-free 0.276
2HZC Crystal structure of the N-terminal RRM of the U2AF large subunit Deposited 2006-08-08 Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 148–229（82 aa） Fragment：RRM 1
Not recorded ZN ZINC ION × 2 P6G HEXAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；21% PEGmme550, 200mM Zn acetate, 0.1M MES pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.47 Å R-free 0.226
2HZC Crystal structure of the N-terminal RRM of the U2AF large subunit Deposited 2006-08-08 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 148–229（82 aa） Fragment：RRM 1
Not recorded ZN ZINC ION × 4 P6G HEXAETHYLENE GLYCOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；21% PEGmme550, 200mM Zn acetate, 0.1M MES pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.47 Å R-free 0.226
2M0G Structure, phosphorylation and U2AF65 binding of the Nterminal Domain of splicing factor 1 during 3 splice site Recognition Deposited 2012-10-25 Different construct Different oligomeric state Different experimental conditions Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 372–475（104 aa） Fragment：RRM 3 domain residues 372-475
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 70；Pressure ambient
NMR sample composition 100-600 uM [U-15N] protein, 100-600 uM [U-13C; U-15N] entity, 100-600 uM [U-13C; U-15N; U-2H] entity, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided
2YH0 Solution structure of the closed conformation of human U2AF65 tandem RRM1 and RRM2 domains Deposited 2011-04-26 Different construct Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 148–342（195 aa） Fragment：TANDEM RRM1 AND RRM2 DOMAINS JOINED BY NATIVE LINKER, RESIDUES 148-342
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；295 K；Ionic strength (raw mmCIF value) 70；Pressure 1.0
NMR sample composition 90% WATER/10% D2O
Resolution not provided
2YH1 Model of human U2AF65 tandem RRM1 and RRM2 domains with eight-site uridine binding Deposited 2011-04-26 Different construct Different oligomeric state Different experimental conditions Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 148–342（195 aa） Fragment：TANDEM RRM1 AND RRM2 DOMAINS JOINED BY NATIVE LINKER, RESIDUES 148-342
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；295 K；Ionic strength (raw mmCIF value) 70；Pressure 1.0
NMR measurement conditions pH 6.5；295 K；Ionic strength (raw mmCIF value) 70；Pressure 1.0
NMR measurement conditions pH 6.5；295 K；Ionic strength (raw mmCIF value) 70；Pressure 1.0
NMR sample composition 90% WATER/10% D2O
Resolution not provided
3VAF Structure of U2AF65 variant with BrU3 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 4 SO4 SULFATE ION × 6 GOL GLYCEROL × 1 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.49 Å R-free 0.289
3VAG Structure of U2AF65 variant with BrU3C2 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 6 SO4 SULFATE ION × 7 GOL GLYCEROL × 2 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.19 Å R-free 0.232
3VAH Structure of U2AF65 variant with BrU3C4 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 4 SO4 SULFATE ION × 5 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.50 Å R-free 0.259
3VAI Structure of U2AF65 variant with BrU3C5 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 5 SO4 SULFATE ION × 7 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.20 Å R-free 0.250
3VAJ Structure of U2AF65 variant with BrU5C6 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 5 SO4 SULFATE ION × 6 GOL GLYCEROL × 2 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 1.90 Å R-free 0.236
3VAK Structure of U2AF65 variant with BrU5 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 5 SO4 SULFATE ION × 7 GOL GLYCEROL × 4 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.17 Å R-free 0.229
3VAL Structure of U2AF65 variant with BrU5C1 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 4 PDB declaration: octameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain D 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain D 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain I 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain I 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 4 SO4 SULFATE ION × 11 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.50 Å R-free 0.271
3VAM Structure of U2AF65 variant with BrU5C2 DNA Deposited 2011-12-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain A 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 148–237（90 aa） Fragment：RNA Binding Domains 1 and 2
Chain B 258–336（79 aa） Fragment：RNA Binding Domains 1 and 2
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 5 SO4 SULFATE ION × 5 GOL GLYCEROL × 2 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.40 Å R-free 0.237
4FXW Structure of phosphorylated SF1 complex with U2AF65-UHM domain Deposited 2012-07-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 375–475（101 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；0.2 M Lithium sulfate, 20% PEG 3350 and 0.1 M Tris pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.29 Å R-free 0.281
4FXW Structure of phosphorylated SF1 complex with U2AF65-UHM domain Deposited 2012-07-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 375–475（101 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；0.2 M Lithium sulfate, 20% PEG 3350 and 0.1 M Tris pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.29 Å R-free 0.281
4TU7 Structure of U2AF65 D231V variant with BrU5 DNA Deposited 2014-06-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–336（189 aa）
Chain B 148–336（189 aa）
Mutation：D231V Mutation：D231V DIO 1,4-DIETHYLENE DIOXIDE × 4 SO4 SULFATE ION × 6 GOL GLYCEROL × 4 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；1.6M AMMONIUM SULFATE, 10% DIOXANE, 0.1M MES PH 6.0, DEOXY-BIG CHAP
Resolution 2.09 Å R-free 0.223
4TU8 STRUCTURE OF U2AF65 VARIANT WITH BRU5A6 DNA Deposited 2014-06-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–336（189 aa） Fragment：UNP residues 148-336
Chain B 148–336（189 aa） Fragment：UNP residues 148-336
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 7 GOL GLYCEROL × 1 EDO 1,2-ETHANEDIOL × 9 SO4 SULFATE ION × 3 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M AMMONIUM SULFATE, 10% DIOXANE, 0.1M MES PH 6.5, ETHYLENE GLYCOL, DEOXY-BIG CHAP
Resolution 1.92 Å R-free 0.218
4TU9 STRUCTURE OF U2AF65 VARIANT WITH BRU5G6 DNA Deposited 2014-06-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 148–336（189 aa） Fragment：UNP residues 148-336
Chain B 148–336（189 aa） Fragment：UNP residues 148-336
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 5 SO4 SULFATE ION × 6 GOL GLYCEROL × 2 CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；1.6M AMMONIUM SULFATE, 10% DIOXANE, 0.1M MES PH 6.5, DEOXY-BIG CHAP
Resolution 1.99 Å R-free 0.234
5EV1 Structure I of Intact U2AF65 Recognizing a 3' Splice Site Signal Deposited 2015-11-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa） Fragment：UNP residues 141-341
Not recorded NA SODIUM ION × 2 PGE TRIETHYLENE GLYCOL × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；100 mM phosphate-citrate buffer, 40% Peg400, 10% dioxane
Resolution 2.04 Å R-free 0.228
5EV2 Structure II of Intact U2AF65 Recognizing the 3' Splice Site Signal Deposited 2015-11-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa） Fragment：UNP residues 141-341
Not recorded DIO 1,4-DIETHYLENE DIOXIDE × 1 PGE TRIETHYLENE GLYCOL × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；200 mM LiCl, 100 mM sodium citrate, 8% PEG 6000, 10% PEG 300, 10% Dioxane, Deoxy-BigCHAP
Resolution 1.86 Å R-free 0.188
5EV3 Structure III of Intact U2AF65 Recognizing the 3' Splice Site Signal Deposited 2015-11-19 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa） Fragment：UNP residues 141-341
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；1M Succinic Acid, 0.1M, 1% PEG MME 2000
Resolution 1.50 Å R-free 0.186
5EV4 Structure IV of Intact U2AF65 Recognizing the 3' Splice Site Signal Deposited 2015-11-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa） Fragment：UNP RESIDUES 141-341
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；1M Succinic Acid, 0.1M HEPES, 3% PEG MME 2000
Resolution 1.57 Å R-free 0.176
5W0G Structure of U2AF65 (U2AF2) RRM1 at 1.07 resolution Deposited 2017-05-30 Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 148–229（82 aa） Fragment：RNA RECOGNITION motif 1 (RRM1), residues 148-229
Not recorded ZN ZINC ION × 2 ACT ACETATE ION × 1 1PG 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；21% (w/v) PEG MME 550, 210 mM zinc acetate, 100 mM MES
Resolution 1.07 Å R-free 0.153
5W0H Structure of U2AF65 (U2AF2) RRM2 at 1.11 Angstrom Resolution Deposited 2017-05-30 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 258–336（79 aa） Fragment：RNA Recognition Motif 2 (RRM2), residues 258-336
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；26% (w/v) PEG 8000, 0.1 M NaOAc, 0.2 mM TCEP, 10% (v/v) dioxane, 0.2 ul BigCHAP, 0.05 M potassium phosphate monobasic
Resolution 1.11 Å R-free 0.168
6TR0 Solution structure of U2AF2 RRM1,2 Deposited 2019-12-17 Different construct Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 140–342（203 aa）
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 50；Pressure 1
NMR sample composition 0.5 mM [U-13C; U-15N] U2AF2, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided
6XLV Crystal structure of leukemia-associated N196K mutant of U2AF65 bound to AdML splice site Deposited 2020-06-29 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Mutation：N196K No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；PEG 3350, 3.4 M sodium malonate pH 7, sucrose, LDAO
Resolution 1.40 Å R-free 0.169
6XLW Crystal structure of U2AF65 bound to AdML splice site sequence Deposited 2020-06-29 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Not recorded GOL GLYCEROL × 1 PEG DI(HYDROXYETHYL)ETHER × 1 NA SODIUM ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；1M Succinic Acid, 0.1M HEPES pH 7, 3% PEG MME 2000
Resolution 1.50 Å R-free 0.153
6XLX Crystal structure of cancer-associated G301D mutant of U2AF65 bound to AdML splice site Deposited 2020-06-29 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Mutation：G301D No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；25% PEG 3350, 0.24 M Na malonate pH 7, 5% sucrose, Lauryldimethylamine oxide
Resolution 1.70 Å R-free 0.194
7S3A Crystal structure of intact U2AF65 RRM-region bound to AdML-C5 oligonucleotide Deposited 2021-09-05 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Not recorded NA SODIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；0.60 M succinic acid, 0.10 M Hepes pH 7.0, 2% Peg MME 2000
Resolution 1.48 Å R-free 0.157
7S3B Crystal structure of intact U2AF65 RRM-region bound to AdML-G5 oligonucleotide Deposited 2021-09-05 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Not recorded PEG DI(HYDROXYETHYL)ETHER × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277.15 K；0.24 M Na Malonate, 26% Peg 3350, n-dodecyl-N,N-dimethylamine-N-oxide (=LDAO)
Resolution 1.89 Å R-free 0.200
7S3C Crystal structure of intact U2AF65 RRM-region bound to AdML-A5 oligonucleotide Deposited 2021-09-05 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；0.24 M malonate, 26% Peg 3350, 10% sucrose, LDAO
Resolution 1.51 Å R-free 0.190
7SN6 U2AF65 UHM BOUND TO SF3B155 ULM5 Deposited 2021-10-27 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 375–475（101 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；0.1 M SODIUM CITRATE TRIBASIC DIHYDRATE PH 5.6, 15% V/V 2-PROPANOL, 20% PEG 4000
Resolution 1.80 Å R-free 0.217
7SN6 U2AF65 UHM BOUND TO SF3B155 ULM5 Deposited 2021-10-27 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 375–475（101 aa）
Not recorded IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；0.1 M SODIUM CITRATE TRIBASIC DIHYDRATE PH 5.6, 15% V/V 2-PROPANOL, 20% PEG 4000
Resolution 1.80 Å R-free 0.217
8P25 Solution structure of a chimeric U2AF2 RRM2 / FUBP1 N-Box Deposited 2023-05-14 Different construct Different oligomeric state Different experimental conditions Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 231–342（112 aa）
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 50mM NaCl；Pressure 1
NMR sample composition 0.6 mM [U-100% 13C; U-100% 15N] Chimeric construct of U2AF2 linker-RRM2 and FUBP1 N-box, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 0.6 mM [U-100% 13C; U-100% 15N] Chimeric construct of U2AF2 linker-RRM2 and FUBP1 N-box, 100% D2O | 100% D2O
Resolution not provided
9C7A Crystal structure of R149W neurodevelopmental disease-associated U2AF2 variant Deposited 2024-06-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Mutation：R149W GOL GLYCEROL × 1 NA SODIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；24 M sodium malonate pH 7.0, 5% w/v sucrose, 25% w/v PEG 3350, with addition of 0.1 uL of 5% w/v LDAO detergent
Resolution 1.40 Å R-free 0.159
9C7B Crystal structure of R150H neurodevelopmental disease-associated U2AF2 variant Deposited 2024-06-10 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 141–341（201 aa）
Mutation：R150H No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；24 M sodium malonate pH 7.0, 5% w/v sucrose, 25% w/v PEG 3350, with addition of 0.1 uL of 5% w/v LDAO detergent
Resolution 1.40 Å R-free 0.167
9DWU CoREST complex bound to U2AF2 Deposited 2024-10-10 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 257–336（80 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 5.14 Å

39 other PDB entries and 42 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name U2AF2_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–85； UniProt 258–342

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 2u2f

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2u2f
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2u2f
Deposition date deposition_date1999-05-26
Structure title titleSOLUTION STRUCTURE OF THE SECOND RNA-BINDING DOMAIN OF HU2AF65
Keywords keywords;SPLICING, U2 SNRNP, RBD, RNA-BINDING PROTEIN, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, RNA BINDING PROTEIN ;; RNA BINDING PROTEIN
Experimental Method methodSOLUTION NMR
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier14.53 Å
Radius of gyration Rg (electron density) rg_electron13.07 Å
Forward intensity I(0) i01732320.00
Molecular weight molecular_weight9087.0 kDa
Excluded volume excluded_volume11502 ų
Envelope volume envelope_volume13661 ų
Hydration-shell volume shell_volume9397 ų
Envelope diameter envelope_diameter44.5 Å
Shell Rg shell_rg17.95 Å
Envelope Rg envelope_rg13.59 Å
Shape Rg shape_rg13.04 Å
Total Rg total_rg14.37 Å
Total atoms total_atoms1293
Residues n_residues85
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax46.5 Å
Rg (real space) rg_real14.49 Å
Rg uncertainty (real space) rg_real_error0.32 Å
I(0) (real space) i0_real1.7320e+06
I(0) uncertainty (real space) i0_real_error2.1480e+04
Rg (reciprocal space) rg_reciprocal14.49 Å
I(0) (reciprocal space) i0_reciprocal1732000.0000
Solution quality estimate total_estimate0.8979
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.6 Å
Skewness Skewness skewness0.222
Kurtosis Kurtosis kurtosis-0.327
Angular range angular_range— – 0.5000 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha251400.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.896; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.981
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd2u2fa_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.7 — RNA-binding domain, RBD, aka RNA recognition motif (RRM)
Family Family familyd.58.7.1 — Canonical RBD

CATH v4.4 (1 domains)

Domain ID domain_id2u2fA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
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8. Citations (1)

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9. Files and Curves (10)