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PDB: 58 results

9C7B
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BU of 9c7b by Molmil
Crystal structure of R150H neurodevelopmental disease-associated U2AF2 variant
Descriptor: DNA/RNA (5'-R(P*UP*U)-D(P*U)-R(P*UP*U)-D(P*(BRU))-R(P*CP*C)-3'), Splicing factor U2AF 65 kDa subunit
Authors:Maji, D, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2024-06-10
Release date:2024-10-02
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Recurrent neurodevelopmentally-associated variants of the pre-mRNA splicing factor U2AF2 alter RNA binding affinities and interactions
To Be Published
3Q51
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BU of 3q51 by Molmil
Structural analysis of a class I PreQ1 riboswitch aptamer in the metabolite-free state.
Descriptor: MAGNESIUM ION, PREQ1 RIBOSWITCH, SULFATE ION
Authors:Wedekind, J.E, Jenkins, J.L, Krucinska, J.
Deposit date:2010-12-26
Release date:2011-05-18
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation.
J.Biol.Chem., 286, 2011
8VPV
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BU of 8vpv by Molmil
Class III PreQ1 riboswitch mutant delta84
Descriptor: 7-DEAZA-7-AMINOMETHYL-GUANINE, RNA (101-MER)
Authors:Srivastava, Y, Jenkins, J.L, Wedekind, J.E.
Deposit date:2024-01-17
Release date:2024-10-02
Method:X-RAY DIFFRACTION (3.04 Å)
Cite:New insights into Class III PreQ1 metabolite binding
To Be Published
5EV1
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Structure I of Intact U2AF65 Recognizing a 3' Splice Site Signal
Descriptor: DI(HYDROXYETHYL)ETHER, DNA/RNA (5'-R(*UP*UP*U)-D(P*UP*UP*(BRU)P*U)-R(P*UP*U)-3'), SODIUM ION, ...
Authors:Agrawal, A.A, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2015-11-19
Release date:2016-02-24
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (2.037 Å)
Cite:An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal.
Nat Commun, 7, 2016
5EV2
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Structure II of Intact U2AF65 Recognizing the 3' Splice Site Signal
Descriptor: 1,4-DIETHYLENE DIOXIDE, DI(HYDROXYETHYL)ETHER, DNA (5'-R(P*UP*U)-D(P*UP*U)-R(P*U)-D(P*UP*(BRU)P*U)-3'), ...
Authors:Agrawal, A.A, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2015-11-19
Release date:2016-02-24
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.86 Å)
Cite:An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal.
Nat Commun, 7, 2016
5EV3
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Structure III of Intact U2AF65 Recognizing the 3' Splice Site Signal
Descriptor: DNA/RNA (5'-R(P*UP*U)-D(P*U)-R(P*UP*U)-D(P*(BRU)P*UP*U)-3'), Splicing factor U2AF 65 kDa subunit
Authors:Agrawal, A.A, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2015-11-19
Release date:2016-02-24
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal.
Nat Commun, 7, 2016
5EV4
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Structure IV of Intact U2AF65 Recognizing the 3' Splice Site Signal
Descriptor: DNA/RNA (5'-R(P*UP*UP*UP*(UD)P*UP*U)-D(P*(BRU)P*(UD))-R(P*C)-3'), GLYCEROL, Splicing factor U2AF 65 kDa subunit
Authors:Agrawal, A.A, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2015-11-19
Release date:2016-02-24
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.57 Å)
Cite:An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal.
Nat Commun, 7, 2016
6PJV
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BU of 6pjv by Molmil
Structure of Human Sonic Hedgehog in complex with Zinc and Magnesium
Descriptor: CHLORIDE ION, DIMETHYL SULFOXIDE, GLYCEROL, ...
Authors:Bonn-Breach, R.B, Jenkins, J.L, Wedekind, J.E.
Deposit date:2019-06-28
Release date:2019-11-13
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.43 Å)
Cite:Structure of Sonic Hedgehog protein in complex with zinc(II) and magnesium(II) reveals ion-coordination plasticity relevant to peptide drug design.
Acta Crystallogr D Struct Biol, 75, 2019
1JN4
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BU of 1jn4 by Molmil
The Crystal Structure of Ribonuclease A in complex with 2'-deoxyuridine 3'-pyrophosphate (P'-5') adenosine
Descriptor: ADENOSINE-5'-[TRIHYDROGEN DIPHOSPHATE] P'-3'-ESTER WITH 2'-DEOXYURIDINE, Pancreatic Ribonuclease A
Authors:Jardine, A.M, Leonidas, D.D, Jenkins, J.L, Park, C, Raines, R.T, Acharya, K.R, Shapiro, R.
Deposit date:2001-07-23
Release date:2003-06-03
Last modified:2024-10-09
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Cleavage of 3',5'-Pyrophosphate-Linked Dinucleotides by Ribonuclease A and Angiogenin
Biochemistry, 40, 2001
8TOZ
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BU of 8toz by Molmil
Class III PreQ1 riboswitch double mutant U8C/A85G
Descriptor: 7-DEAZA-7-AMINOMETHYL-GUANINE, Class-III preQ1 riboswitch
Authors:Srivastava, Y, Jenkins, J.L, Wedekind, J.E.
Deposit date:2023-08-04
Release date:2024-08-07
Method:X-RAY DIFFRACTION (3 Å)
Cite:New insights into Class III PreQ1 metabolite binding
To Be Published
4G6R
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BU of 4g6r by Molmil
Minimal Hairpin Ribozyme in the Transition State with G8I Variation
Descriptor: Loop A Ribozyme strand, Loop A Substrate strand, Loop B Ribozyme Strand, ...
Authors:Liberman, J.A, Jenkins, J.L, Krucinska, J, Wedekind, J.E.
Deposit date:2012-07-19
Release date:2012-08-15
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (2.832 Å)
Cite:A Transition-State Interaction Shifts Nucleobase Ionization toward Neutrality To Facilitate Small Ribozyme Catalysis.
J.Am.Chem.Soc., 134, 2012
4G6P
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BU of 4g6p by Molmil
Minimal Hairpin Ribozyme in the Precatalytic State with A38P Variation
Descriptor: COBALT HEXAMMINE(III), Loop A Substrate strand, Loop A and Loop B Ribozyme strand, ...
Authors:Liberman, J.A, Jenkins, J.L, Krucinska, J, Wedekind, J.E.
Deposit date:2012-07-19
Release date:2012-08-15
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (2.641 Å)
Cite:A Transition-State Interaction Shifts Nucleobase Ionization toward Neutrality To Facilitate Small Ribozyme Catalysis.
J.Am.Chem.Soc., 134, 2012
4G6S
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BU of 4g6s by Molmil
Minimal Hairpin Ribozyme in the Transition State with A38P Variation
Descriptor: COBALT HEXAMMINE(III), Loop A Substrate strand, Loop A and Loop B Ribozyme strand, ...
Authors:Liberman, J.A, Jenkins, J.L, Krucinska, J, Wedekind, J.E.
Deposit date:2012-07-19
Release date:2012-08-08
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (2.84 Å)
Cite:A Transition-State Interaction Shifts Nucleobase Ionization toward Neutrality To Facilitate Small Ribozyme Catalysis.
J.Am.Chem.Soc., 134, 2012
2AY0
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BU of 2ay0 by Molmil
Structure of the Lys9Met mutant of the E. coli Proline Utilization A (PutA) DNA-binding domain.
Descriptor: Bifunctional putA protein, CHLORIDE ION
Authors:Larson, J.D, Schuermann, J.P, Zhou, Y, Jenkins, J.L, Becker, D.F, Tanner, J.J.
Deposit date:2005-09-06
Release date:2006-08-15
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structures of the DNA-binding domain of Escherichia coli proline utilization A flavoprotein and analysis of the role of Lys9 in DNA recognition.
Protein Sci., 15, 2006
8FB3
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BU of 8fb3 by Molmil
PreQ1-1 (type-1) riboswitch with stacked metabolites and a C10-G34 base pair in the expression platform
Descriptor: 7-DEAZA-7-AMINOMETHYL-GUANINE, MAGNESIUM ION, RNA (34-MER) Riboswitch
Authors:Wedekind, J.E, Schroeder, G.M, Jenkins, J.L.
Deposit date:2022-11-29
Release date:2023-02-22
Last modified:2024-05-22
Method:X-RAY DIFFRACTION (3 Å)
Cite:A riboswitch separated from its ribosome-binding site still regulates translation.
Nucleic Acids Res., 51, 2023
6N3D
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BU of 6n3d by Molmil
Structure of HIV Tat-specific factor 1 U2AF Homology Motif (APO-State)
Descriptor: CHLORIDE ION, DI(HYDROXYETHYL)ETHER, GLYCEROL, ...
Authors:Loerch, S, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2018-11-15
Release date:2019-01-02
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.13 Å)
Cite:The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface.
J. Biol. Chem., 294, 2019
6N3E
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BU of 6n3e by Molmil
Structure of HIV Tat-specific factor 1 U2AF Homology Motif bound to U2AF ligand motif 4
Descriptor: FORMIC ACID, GLYCEROL, HIV Tat-specific factor 1, ...
Authors:Loerch, S, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2018-11-15
Release date:2019-01-02
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.893 Å)
Cite:The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface.
J. Biol. Chem., 294, 2019
6N3F
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BU of 6n3f by Molmil
Structure of HIV Tat-specific factor 1 U2AF Homology Motif bound to SF3b1 ULM5
Descriptor: DI(HYDROXYETHYL)ETHER, GLYCEROL, HIV Tat-specific factor 1, ...
Authors:Leach, J.R, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2018-11-15
Release date:2019-01-02
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.099 Å)
Cite:The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface.
J. Biol. Chem., 294, 2019
6XH3
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BU of 6xh3 by Molmil
Co-crystal structure of HIV-1 TAR RNA in complex with lab-evolved RRM TBP6.3
Descriptor: TAR BINDING PROTEIN TBP 6.3, TRANS-ACTIVATION RESPONSE ELEMENT
Authors:Chavali, S.S, Jenkins, J.L, Wedekind, J.E.
Deposit date:2020-06-18
Release date:2020-10-14
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (2.353 Å)
Cite:Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.
J.Biol.Chem., 295, 2020
6XH2
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BU of 6xh2 by Molmil
Co-crystal structure of HIV-1 TAR RNA in complex with lab-evolved RRM 6.6
Descriptor: TAR-BINDING PROTEIN 6.6, TRANS-ACTIVATION RESPONSE ELEMENT
Authors:Chavali, S.S, Jenkins, J.L, Wedekind, J.E.
Deposit date:2020-06-18
Release date:2020-10-14
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.71 Å)
Cite:Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.
J.Biol.Chem., 295, 2020
6XLX
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BU of 6xlx by Molmil
Crystal structure of cancer-associated G301D mutant of U2AF65 bound to AdML splice site
Descriptor: DNA/RNA (5'-R(P*UP*UP*(UD)P*UP*U)-D(P*(BRU))-R(P*CP*C)-3'), Splicing factor U2AF 65 kDa subunit
Authors:Maji, D, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2020-06-29
Release date:2020-10-07
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing.
J.Biol.Chem., 295, 2020
6XKN
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BU of 6xkn by Molmil
Class III PreQ1 riboswitch mutant A52G
Descriptor: 7-DEAZA-7-AMINOMETHYL-GUANINE, Class III PreQ1 riboswitch
Authors:Srivastava, K.Y, Jenkins, J.L, Wedekind, J.E.
Deposit date:2020-06-26
Release date:2021-12-29
Last modified:2024-06-19
Method:X-RAY DIFFRACTION (2.73 Å)
Cite:New insights into Class III PreQ1 metabolite binding
To Be Published
6XKO
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Class III PreQ1 riboswitch mutant A84G
Descriptor: 7-DEAZA-7-AMINOMETHYL-GUANINE, Class III PreQ1 riboswitch
Authors:Srivastava, K.Y, Jenkins, J.L, Wedekind, J.E.
Deposit date:2020-06-26
Release date:2021-12-29
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.75 Å)
Cite:New insights into Class III PreQ1 metabolite binding
To Be Published
6XH0
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BU of 6xh0 by Molmil
Co-crystal structure of HIV-1 TAR RNA in complex with lab-evolved RRM TBP6.9
Descriptor: MAGNESIUM ION, TAR binding protein 6.9, TRANS-ACTIVATION RESPONSE ELEMENT
Authors:Chavali, S.S, Jenkins, J.L, Wedekind, J.E.
Deposit date:2020-06-18
Release date:2020-10-14
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.
J.Biol.Chem., 295, 2020
6XLV
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Crystal structure of leukemia-associated N196K mutant of U2AF65 bound to AdML splice site
Descriptor: DNA/RNA (5'-R(P*UP*UP*(UD)P*UP*U)-D(P*(BRU))-R(P*CP*C)-3'), Splicing factor U2AF 65 kDa subunit
Authors:Maji, D, Jenkins, J.L, Kielkopf, C.L.
Deposit date:2020-06-29
Release date:2020-10-07
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing.
J.Biol.Chem., 295, 2020

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