4OWP: 26S proteasome regulatory subunit RPN8

Crystal structure of rpn11 in a heterodimer complex with rpn8, representing the active portion of the proteasome lid. Determined by X-ray diffraction at 2.35 Å resolution. Released 5 Aug 2015.

Method: X-ray diffraction
Resolution: 2.35 Å
Organism: Saccharomyces cerevisiae
Chains: 2
Atoms: 2,804
Mol. weight: 47.88 kDa
Ligands: ZN
Released: 5 Aug 2015

Explore 4OWP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4OWP contains 12 α-helices and 19 β-strands across 2 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: 5 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	7-10	4	1
α-helix	12-24	13
β-strand	34-40	7	1
β-strand	45-53	9	1
β-strand	56-58	3	2
β-strand	66-68	3	2
α-helix	70-83	14
β-strand	88-94	7	1
α-helix	103-111	9
α-helix	118	1
β-strand	119-123	5	1
β-strand	134-142	9	1
β-strand	151-157	7	1
β-strand	159-161	3	1
α-helix	165-174	10

Chain B: 7 helices, 9 β-strands

Element	Residues	Length	Sheet
β-strand	26-30	5	3
α-helix	31-44	14
β-strand	50-59	10	3
β-strand	62-70	9	3
α-helix	71-73	3
α-helix	80-82	3
α-helix	85-96	12
β-strand	103-110	8	3
α-helix	120-132	13
β-strand	137-141	5	3
β-strand	147	1	4
β-strand	150	1	4
β-strand	153-158	6	3
β-strand	196-204	9	3
α-helix	207-213	7
α-helix	218-220	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
26S proteasome regulatory subunit RPN8	A	protein	186	Saccharomyces cerevisiae	Q08723 (AlphaFold model)
26S proteasome regulatory subunit RPN11	B	protein	239	Saccharomyces cerevisiae	P43588 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>4OWP_1 26S proteasome regulatory subunit RPN8 (chains A)
MSLQHEKVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDE
KNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLL
LIVDVKQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRD
QAAGGL

Sequence of entity 2 (B), FASTA

>4OWP_2 26S proteasome regulatory subunit RPN11 (chains B)
MHHHHHHGSGSERLQRLMMNSKVGSADTGRDDTKETVYISSIALLKMLKHGRAGVPMEVM
GLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMDMLKQTGRDQMVVGWYHS
HPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLIDTGALINNLEP
RQTTSNTGLLNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKEQWQSGLKMYD

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1

Primary citation

Crystal structure of rpn11 in a heterodimer complex with rpn8, representing the active portion of the proteasome lid.In preparation. Yu, Z., Mansour, W., Nakasone, M.A. et al. To be published.

Other PDB entries of the same protein (UniProt Q08723 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5W83 1.55 Å, Rpn8/Rpn11 dimer complex
4O8Y 1.95 Å, Zinc-free Rpn11 in complex with Rpn8
4OCM 1.99 Å, Crystal Structure of the Rpn8-Rpn11 MPN domain heterodimer, crystal form Ib
4O8X 1.99 Å, Zinc-bound Rpn11 in complex with Rpn8
4OCN 2.25 Å, Crystal Structure of the Rpn8-Rpn11 MPN domain heterodimer, crystal form II
4OCL 2.4 Å, Crystal Structure of the Rpn8-Rpn11 MPN domain heterodimer, crystal form Ia
5U4P 2.5 Å, Protein-protein complex between 26S proteasome regulatory subunit RPN8, RPN11, and…
3JCK 3.5 Å, Structure of the yeast 26S proteasome lid sub-complex
9CGC 3.61 Å, Yeast 26S proteasome non-substrate-engaged (S1 state)
6J2Q 3.8 Å, Yeast proteasome in Ub-accepted state (C1-b)
6J2X 3.8 Å, Yeast proteasome in resting state (C1-a)
5MPD 4.1 Å, 26S proteasome in presence of ATP (s1)

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