6UYI: HRpn13:hRpn2:K48-diubiquitin

hRpn13:hRpn2:K48-diubiquitin. Determined by solution NMR. Released 11 Mar 2020.

Method: Solution NMR
Organism: Homo sapiens
Chains: 4
Atoms: 2,267
Mol. weight: 36.34 kDa
Released: 11 Mar 2020

Explore 6UYI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6UYI contains 6 α-helices and 24 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: 1 helix, 9 β-strands

Element	Residues	Length	Sheet
β-strand	21-34	14	5
β-strand	37-51	15	5
β-strand	57-63	7	5
β-strand	69-75	7	5
β-strand	80-84	5	5
β-strand	89	1	6
β-strand	91	1	6
β-strand	93-98	6	5
β-strand	104-109	6	5
α-helix	117-128	12

Chain B: 1 helix, 1 β-strand

Element	Residues	Length	Sheet
α-helix	942-944	3
β-strand	948-949	2	5

Chain C: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	1
β-strand	12-15	4	1
β-strand	22	1	2
α-helix	23-33	11
β-strand	42-45	4	1
β-strand	48-49	2	1
β-strand	55	1	2
α-helix	56-59	4
β-strand	65-70	6	1

Chain D: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	3
β-strand	12-15	4	3
β-strand	22	1	4
α-helix	23-33	11
β-strand	41-45	5	3
β-strand	48-49	2	3
β-strand	55	1	4
α-helix	56-59	4
β-strand	65-71	7	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ubiquitin	C	protein	77	Homo sapiens	P0CG47 (AlphaFold model)
Ubiquitin	D	protein	76	Homo sapiens	P0CG47 (AlphaFold model)
Proteasomal ubiquitin receptor ADRM1	A	protein	154	Homo sapiens	Q16186 (AlphaFold model)
26S proteasome non-ATPase regulatory subunit 1	B	protein	18	Homo sapiens	Q99460 (AlphaFold model)

Sequence of entity 1 (C), FASTA

>6UYI_1 Ubiquitin (chains C)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGGD

Sequence of entity 2 (D), FASTA

>6UYI_2 Ubiquitin (chains D)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Sequence of entity 3 (A), FASTA

>6UYI_3 Proteasomal ubiquitin receptor ADRM1 (chains A)
GPGSMTTSGALFPSLVPGSRGASNKYLVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSL
IHFCWKDRTSGNVEDDLIIFPDDCEFKRVPQCPSGRVYVLKFKAGSKRLFFWMQEPKTDQ
DEEHCRKVNEYLNNPPMPGALGASGSSGHELSAL

Sequence of entity 4 (B), FASTA

>6UYI_4 26S proteasome non-ATPase regulatory subunit 1 (chains B)
GPGSQEPEPPEPFEYIDD

Primary citation

An Extended Conformation for K48 Ubiquitin Chains Revealed by the hRpn2:Rpn13:K48-Diubiquitin Structure. Lu, X., Ebelle, D.L., Matsuo, H. et al. Structure (2020) 28:495. DOI 10.1016/j.str.2020.02.007 · PubMed

Other PDB entries of the same protein (UniProt P0CG47 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NVG 1.07 Å, Thr12 Phosphorylated Ubiquitin
5TOG 1.08 Å, Room temperature structure of ubiquitin variant u7ub25.2540
5TOF 1.12 Å, Room temperature structure of ubiquitin variant u7ub25
4XOF 1.15 Å, Observing the overall rocking motion of a protein in a crystal - Orthorhombic Ubiquitin…
5GOD 1.15 Å, Lys27-linked di-ubiquitin
5GOB 1.15 Å, Lys6-linked di-ubiquitin
5W46 1.18 Å, Structure of S65D Phosphomimetic Ubiquitin Refined at 1.2 Angstroms Resolution
7S6O 1.25 Å, The crystal structure of Lys48-linked di-ubiquitin
8IC9 1.25 Å, Lys48-linked K48C-diubiquitin
5DK8 1.32 Å, Human ubiquitin in the P1 space group
7CAP 1.33 Å, Cyclic Lys48-linked triubiquitin
5V1Y 1.42 Å, Crystal structure of the ternary RPN13 PRU-RPN2 (940-953)-ubiquitin complex

Browse structure collections

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