6OF3
 
 | | Precursor ribosomal RNA processing complex, State 1. | | Descriptor: | CLP1_P domain-containing protein, MAGNESIUM ION, PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER, ... | | Authors: | Pillon, M.C, Hsu, A.L, Krahn, J.M, Williams, J.G, Goslen, K.H, Sobhany, M, Borgnia, M.J, Stanley, R.E. | | Deposit date: | 2019-03-28 | | Release date: | 2019-09-11 | | Last modified: | 2024-03-20 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Cryo-EM reveals active site coordination within a multienzyme pre-rRNA processing complex.
Nat.Struct.Mol.Biol., 26, 2019
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6OF4
 | | Precursor ribosomal RNA processing complex, apo-state. | | Descriptor: | CLP1_P domain-containing protein, Ribonuclease | | Authors: | Pillon, M.C, Hsu, A.L, Krahn, J.M, Williams, J.G, Goslen, K.H, Sobhany, M, Borgnia, M.J, Stanley, R.E. | | Deposit date: | 2019-03-28 | | Release date: | 2019-09-11 | | Last modified: | 2024-03-20 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Cryo-EM reveals active site coordination within a multienzyme pre-rRNA processing complex.
Nat.Struct.Mol.Biol., 26, 2019
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6Q00
 | | TDP2 UBA Domain Bound to Ubiquitin at 0.85 Angstroms Resolution, Crystal Form 1 | | Descriptor: | POTASSIUM ION, Tyrosyl-DNA phosphodiesterase 2, Ubiquitin | | Authors: | Schellenberg, M.J, Krahn, J.M, Williams, R.S. | | Deposit date: | 2019-08-01 | | Release date: | 2020-04-29 | | Last modified: | 2020-06-24 | | Method: | X-RAY DIFFRACTION (0.85 Å) | | Cite: | Ubiquitin stimulated reversal of topoisomerase 2 DNA-protein crosslinks by TDP2.
Nucleic Acids Res., 48, 2020
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6Q01
 | | TDP2 UBA Domain Bound to Ubiquitin at 0.85 Angstroms Resolution, Crystal Form 2 | | Descriptor: | 1,2-ETHANEDIOL, BENZOIC ACID, MAGNESIUM ION, ... | | Authors: | Schellenberg, M.J, Krahn, J.M, Williams, R.S. | | Deposit date: | 2019-08-01 | | Release date: | 2020-04-29 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (0.851 Å) | | Cite: | Ubiquitin stimulated reversal of topoisomerase 2 DNA-protein crosslinks by TDP2.
Nucleic Acids Res., 48, 2020
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2FMS
 | | DNA Polymerase beta with a gapped DNA substrate and dUMPNPP with magnesium in the catalytic site | | Descriptor: | 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, 5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3', ... | | Authors: | Batra, V.K, Beard, W.A, Shock, D.D, Krahn, J.M, Pedersen, L.C, Wilson, S.H. | | Deposit date: | 2006-01-09 | | Release date: | 2006-04-25 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Magnesium-induced assembly of a complete DNA polymerase catalytic complex.
Structure, 14, 2006
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2FMQ
 | | Sodium in active site of DNA Polymerase Beta | | Descriptor: | 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, 5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3', ... | | Authors: | Batra, V.K, Beard, W.A, Shock, D.D, Krahn, J.M, Pedersen, L.C, Wilson, S.H. | | Deposit date: | 2006-01-09 | | Release date: | 2006-04-25 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Magnesium-induced assembly of a complete DNA polymerase catalytic complex.
Structure, 14, 2006
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2FMP
 | | DNA Polymerase beta with a terminated gapped DNA substrate and ddCTP with sodium in the catalytic site | | Descriptor: | 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, 5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(DOC))-3', ... | | Authors: | Batra, V.K, Beard, W.A, Shock, D.D, Krahn, J.M, Pedersen, L.C, Wilson, S.H. | | Deposit date: | 2006-01-09 | | Release date: | 2006-04-25 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | Magnesium-induced assembly of a complete DNA polymerase catalytic complex.
Structure, 14, 2006
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7TJ2
 | | SARS-CoV-2 endoribonuclease Nsp15 bound to dsRNA | | Descriptor: | RNA (31-MER), Uridylate-specific endoribonuclease nsp15 | | Authors: | Frazier, M.N, Krahn, J.M, Butay, K.J, Dillard, L.B, Borgnia, M.J, Stanley, R.E. | | Deposit date: | 2022-01-14 | | Release date: | 2022-03-23 | | Last modified: | 2022-12-07 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Flipped over U: structural basis for dsRNA cleavage by the SARS-CoV-2 endoribonuclease.
Nucleic Acids Res., 50, 2022
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7TQV
 | | SARS-CoV-2 endoribonuclease Nsp15 bound to dsRNA | | Descriptor: | RNA (33-MER), Uridylate-specific endoribonuclease | | Authors: | Frazier, M.N, Krahn, J.M, Butay, K.J, Dillard, L.B, Borgnia, M.J, Stanley, R.E. | | Deposit date: | 2022-01-27 | | Release date: | 2022-03-23 | | Last modified: | 2022-12-07 | | Method: | ELECTRON MICROSCOPY (3.43 Å) | | Cite: | Flipped over U: structural basis for dsRNA cleavage by the SARS-CoV-2 endoribonuclease.
Nucleic Acids Res., 50, 2022
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1XSL
 | | Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap | | Descriptor: | 5'-D(*CP*GP*GP*CP*AP*GP*CP*GP*CP*AP*C)-3', 5'-D(*GP*TP*GP*CP*GP*C)-3', 5'-D(P*GP*CP*CP*G)-3', ... | | Authors: | Garcia-Diaz, M, Bebenek, K, Krahn, J.M, Kunkel, T.A, Pedersen, L.C. | | Deposit date: | 2004-10-19 | | Release date: | 2005-01-18 | | Last modified: | 2018-01-24 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | A closed conformation for the Pol lambda catalytic cycle.
Nat.Struct.Mol.Biol., 12, 2005
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1XSP
 | | Crystal Structure of human DNA polymerase lambda in complex with nicked DNA and pyrophosphate | | Descriptor: | 5'-D(*CP*AP*GP*TP*AP*CP*G)-3', 5'-D(*CP*GP*GP*CP*CP*GP*TP*AP*CP*TP*G)-3', 5'-D(P*GP*CP*CP*G)-3', ... | | Authors: | Garcia-Diaz, M, Bebenek, K, Krahn, J.M, Kunkel, T.A, Pedersen, L.C. | | Deposit date: | 2004-10-19 | | Release date: | 2005-01-18 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | A closed conformation for the Pol lambda catalytic cycle.
Nat.Struct.Mol.Biol., 12, 2005
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1XSN
 | | Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap and ddTTP | | Descriptor: | 1,2-ETHANEDIOL, 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, 5'-D(*CP*AP*GP*TP*AP*(2DT))-3', ... | | Authors: | Garcia-Diaz, M, Bebenek, K, Krahn, J.M, Kunkel, T.A, Pedersen, L.C. | | Deposit date: | 2004-10-19 | | Release date: | 2005-01-18 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | A closed conformation for the Pol lambda catalytic cycle.
Nat.Struct.Mol.Biol., 12, 2005
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1ECJ
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4IM8
 | | low resolution crystal structure of mouse RAGE | | Descriptor: | Advanced glycation end-products receptor | | Authors: | Xu, D, Young, J.H, Krahn, J.M, Song, D, Corbett, K.D, Chazin, W.J, Pedersen, L.C, Esko, J.D. | | Deposit date: | 2013-01-02 | | Release date: | 2013-08-14 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (3.503 Å) | | Cite: | Stable RAGE-Heparan Sulfate Complexes Are Essential for Signal Transduction.
Acs Chem.Biol., 8, 2013
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4KSE
 | | Crystal structure of a HIV p51 (219-230) deletion mutant | | Descriptor: | 1,2-ETHANEDIOL, HIV p51 subunit | | Authors: | Zheng, X, Mueller, G.A, Derose, E.F, Pedersen, L.C, Gabel, S.A, Cuneo, M.J, Krahn, J.M, London, R.E. | | Deposit date: | 2013-05-17 | | Release date: | 2014-08-13 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (2.677 Å) | | Cite: | Selective unfolding of one Ribonuclease H domain of HIV reverse transcriptase is linked to homodimer formation.
Nucleic Acids Res., 42, 2014
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3K4E
 | | Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site A | | Descriptor: | RNA (5'-R(P*CP*UP*UP*GP*UP*AP*UP*AP*UP*A)-3'), mRNA-binding protein PUF3 | | Authors: | Zhu, D, Stumpf, C.R, Krahn, J.M, Wickens, M, Hall, T.M.T. | | Deposit date: | 2009-10-05 | | Release date: | 2009-10-27 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | A 5' cytosine binding pocket in Puf3p specifies regulation of mitochondrial mRNAs.
Proc.Natl.Acad.Sci.USA, 106, 2009
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3K49
 | | Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site B | | Descriptor: | CITRIC ACID, RNA (5'-R(*CP*CP*UP*GP*UP*AP*AP*AP*UP*A)-3'), mRNA-binding protein PUF3 | | Authors: | Zhu, D, Stumpf, C.R, Krahn, J.M, Wickens, M, Hall, T.M.T. | | Deposit date: | 2009-10-05 | | Release date: | 2009-10-27 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | A 5' cytosine binding pocket in Puf3p specifies regulation of mitochondrial mRNAs.
Proc.Natl.Acad.Sci.USA, 106, 2009
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3MQ1
 | | Crystal Structure of Dust Mite Allergen Der p 5 | | Descriptor: | (4R)-2-METHYLPENTANE-2,4-DIOL, (4S)-2-METHYL-2,4-PENTANEDIOL, Mite allergen Der p 5, ... | | Authors: | Mueller, G.A, Gosavi, R.A, Krahn, J.M, Edwards, L.L, Cuneo, M.J, Glesner, J, Pomes, A, Chapman, M.D, London, R.E, Pedersen, L.C. | | Deposit date: | 2010-04-27 | | Release date: | 2010-06-02 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Der p 5 crystal structure provides insight into the group 5 dust mite allergens.
J.Biol.Chem., 285, 2010
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3PC6
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3PC7
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3PC8
 | | X-ray crystal structure of the heterodimeric complex of XRCC1 and DNA ligase III-alpha BRCT domains. | | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DNA ligase 3, DNA repair protein XRCC1, ... | | Authors: | Cuneo, M.J, Krahn, J.M, London, R.E. | | Deposit date: | 2010-10-21 | | Release date: | 2011-06-15 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.31 Å) | | Cite: | The structural basis for partitioning of the XRCC1/DNA ligase III-{alpha} BRCT-mediated dimer complexes.
Nucleic Acids Res., 39, 2011
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3QVG
 | | XRCC1 bound to DNA ligase | | Descriptor: | DNA ligase 3, DNA repair protein XRCC1 | | Authors: | Cuneo, M.J, Krahn, J.M, London, R.E. | | Deposit date: | 2011-02-25 | | Release date: | 2011-06-15 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.26 Å) | | Cite: | The structural basis for partitioning of the XRCC1/DNA ligase III-{alpha} BRCT-mediated dimer complexes.
Nucleic Acids Res., 39, 2011
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7SCE
 | | Ternary complex of fixed-arm Trx-3ost5 (I299E) with 8mer-2 octasaccharide substrate and co-factor product PAP | | Descriptor: | 2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid, ADENOSINE-3'-5'-DIPHOSPHATE, Thioredoxin 1,Heparan sulfate glucosamine 3-O-sulfotransferase 5 | | Authors: | Wander, R, Kaminski, A.M, Krahn, J.M, Liu, J, Pedersen, L.C. | | Deposit date: | 2021-09-27 | | Release date: | 2022-01-19 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.75 Å) | | Cite: | Structural and Substrate Specificity Analysis of 3-O-Sulfotransferase Isoform 5 to Synthesize Heparan Sulfate
Acs Catalysis, 11, 2021
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7SCD
 | | Ternary complex of fixed-arm Trx-3ost5 (I299E) with 8mer-1 octasaccharide substrate and co-factor product PAP | | Descriptor: | 2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid, ADENOSINE-3'-5'-DIPHOSPHATE, Thioredoxin 1,Heparan sulfate glucosamine 3-O-sulfotransferase 5 | | Authors: | Wander, R, Kaminski, A.M, Krahn, J.M, Liu, J, Pedersen, L.C. | | Deposit date: | 2021-09-27 | | Release date: | 2022-01-19 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structural and Substrate Specificity Analysis of 3-O-Sulfotransferase Isoform 5 to Synthesize Heparan Sulfate
Acs Catalysis, 11, 2021
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1T8T
 | | Crystal Structure of human 3-O-Sulfotransferase-3 with bound PAP | | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, CITRIC ACID, heparan sulfate D-glucosaminyl 3-O-sulfotransferase 3A1 | | Authors: | Moon, A.F, Edavettal, S.C, Krahn, J.M, Munoz, E.M, Negishi, M, Linhardt, R.J, Liu, J, Pedersen, L.C. | | Deposit date: | 2004-05-13 | | Release date: | 2004-08-31 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Structural analysis of the sulfotransferase (3-o-sulfotransferase isoform 3) involved in the biosynthesis of an entry receptor for herpes simplex virus 1
J.Biol.Chem., 279, 2004
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