5HPL: Rsp5

System-wide modulation of HECT E3 ligases with selective ubiquitin variant probes: Rsp5 and UbV R5.4. Determined by X-ray diffraction at 2.31 Å resolution. Released 16 Mar 2016.

Method
X-ray diffraction
Resolution
2.31 Å
Organisms
Saccharomyces cerevisiae, Homo sapiens
Chains
4
Atoms
7,749
Mol. weight
109.48 kDa
Released
16 Mar 2016

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

Secondary structure: helices and β-sheets

5HPL contains 61 α-helices and 44 β-strands across 4 chains. 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: 26 helices, 15 β-strands

ElementResiduesLengthSheet
α-helix435-4439
α-helix446-4483
α-helix4501
β-strand451-45991
α-helix461-4633
α-helix464-47310
α-helix479-4813
β-strand482-48871
α-helix496-51116
α-helix514-5163
β-strand519-52132
β-strand529-53132
α-helix535-5373
α-helix541-55717
β-strand56612
α-helix568-5747
α-helix581-5866
α-helix589-60012
β-strand61013
β-strand612-61764
β-strand620-62564
α-helix630-6323
β-strand63413
α-helix640-64910
α-helix650-6545
α-helix657-66812
α-helix673-6764
α-helix681-6899
α-helix696-7016
β-strand703-70645
α-helix713-72412
α-helix727-73812
α-helix742-7443
α-helix748-7503
β-strand752-75326
β-strand756-75726
β-strand760-76345
α-helix771-7722
β-strand773-77535
β-strand780-78235
α-helix789-80113
Chain B: 26 helices, 15 β-strands
ElementResiduesLengthSheet
α-helix434-44310
α-helix446-4483
α-helix4501
β-strand451-460107
α-helix461-4633
α-helix464-47310
β-strand482-48987
α-helix496-51116
α-helix514-5163
β-strand519-52138
β-strand529-53138
α-helix535-5373
α-helix541-55717
β-strand56618
α-helix568-5747
α-helix581-5833
α-helix584-5874
α-helix589-60012
β-strand61019
β-strand612-617610
β-strand620-625610
α-helix630-6323
β-strand63419
α-helix640-65213
α-helix654-6563
α-helix657-66812
α-helix673-6764
α-helix681-6899
α-helix696-7016
β-strand703-706411
α-helix713-72311
α-helix727-73812
α-helix742-7443
α-helix748-7503
β-strand752-753212
β-strand756-757212
β-strand760-763411
α-helix771-7722
β-strand773-775311
β-strand780-782311
α-helix789-80113
Chain C: 5 helices, 7 β-strands
ElementResiduesLengthSheet
β-strand1-6613
β-strand12-17613
β-strand22114
α-helix23-3412
α-helix38-403
β-strand41-45513
β-strand48-49213
α-helix50-512
β-strand55114
α-helix57-593
β-strand65-71713
α-helix72-732
Chain D: 4 helices, 7 β-strands
ElementResiduesLengthSheet
β-strand1-6615
β-strand12-17615
β-strand22116
α-helix23-3412
α-helix38-403
β-strand41-45515
β-strand48-49215
α-helix50-512
β-strand55116
β-strand66-71615
α-helix72-732

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Rsp5A, Bprotein380Saccharomyces cerevisiaeP39940 (AlphaFold model)
Ubiquitin variant R5.4C, Dprotein86Homo sapiensP62987 (AlphaFold model)
Sequence of entity 1 (A, B), FASTA
>5HPL_1 Rsp5 (chains A, B)
QYKRDFRRKVIYFRSQPALRILPGQCHIKVRRKNIFEDAYQEIMRQTPEDLKKRLMIKFD
GEEGLDYGGVSREFFFLLSHEMFNPFYCLFEYSAYDNYTIQINPNSGINPEHLNYFKFIG
RVVGLGVFHRRFLDAFFVGALYKMMLRKKVVLQDMEGVDAEVYNSLNWMLENSIDGVLDL
TFSADDERFGEVVTVDLKPDGRNIEVTDGNKKEYVELYTQWRIVDRVQEQFKAFMDGFNE
LIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTDYRGYQESDEVIQWFWKCVSEWDNEQ
RARLLQFTTGTSRIPVNGFKDLQGSDGPRRFTIEKAGEVQQLPKSHTCFNRVDLPQYVDY
DSMKQKLTLAVEETIGFGQE
Sequence of entity 2 (C, D), FASTA
>5HPL_2 Ubiquitin variant R5.4 (chains C, D)
MGHHHHHHMQIFVKTPTRKSISLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED
GRTLSDYNIQKESTLHLVLRLPGTIK

Primary citation

System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes. Zhang, W., Wu, K.P., Sartori, M.A. et al. Mol Cell (2016) 62:121-136. DOI 10.1016/j.molcel.2016.02.005 · PubMed

Other PDB entries of the same protein (UniProt P39940 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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