7QO6 | pdb_00007qo6

26S proteasome Rpt1-RK -Ubp6-UbVS complex in the s2 state

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
W [auth 2]	SCOP2 Family	Proteasome subunits	8106863	4002254	SCOP2 (2022-06-29)
W [auth 2]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106864	3000131	SCOP2 (2022-06-29)
V [auth 1]	SCOP2B Superfamily	Class II glutamine amidotransferases	8036787	3000131	SCOP2B (2022-06-29)
H [auth h]	SCOP2B Superfamily	Class II glutamine amidotransferases	8036787	3000131	SCOP2B (2022-06-29)
G [auth g]	SCOP2 Family	Proteasome subunits	8106865	4002254	SCOP2 (2022-06-29)
G [auth g]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106866	3000131	SCOP2 (2022-06-29)
F [auth f]	SCOP2 Family	Proteasome subunits	8106847	4002254	SCOP2 (2022-06-29)
F [auth f]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106848	3000131	SCOP2 (2022-06-29)
E [auth e]	SCOP2 Family	Proteasome subunits	8106853	4002254	SCOP2 (2022-06-29)
E [auth e]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106854	3000131	SCOP2 (2022-06-29)
R [auth D]	SCOP2 Family	Proteasome subunits	8106861	4002254	SCOP2 (2022-06-29)
R [auth D]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106862	3000131	SCOP2 (2022-06-29)
WA [auth 9]	SCOP2B Superfamily	Ubiquitin-like	8104287	3000157	SCOP2B (2022-06-29)
VA [auth 8]	SCOP2 Family	USP domain-like	8106855	4003158	SCOP2 (2022-06-29)
VA [auth 8]	SCOP2 Superfamily	Cysteine proteinases	8106856	3001808	SCOP2 (2022-06-29)
C [auth c]	SCOP2 Family	Proteasome subunits	8106851	4002254	SCOP2 (2022-06-29)
C [auth c]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106852	3000131	SCOP2 (2022-06-29)
NA [auth U]	SCOP2B Superfamily	JAB1/MPN domain-like	8053272	3001105	SCOP2B (2022-06-29)
NA [auth U]	SCOP2B Superfamily	EIF3 subunit F C-terminal domain-like	8053273	3002167	SCOP2B (2022-06-29)
B [auth b]	SCOP2 Family	Proteasome subunits	8106873	4002254	SCOP2 (2022-06-29)
B [auth b]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106874	3000131	SCOP2 (2022-06-29)
GA [auth Y]	SCOP2B Superfamily	DSS1/SEM1 protein family	8053395	3002183	SCOP2B (2022-06-29)
FA [auth X]	SCOP2 Family	PRU domain-like	8106849	4005018	SCOP2 (2022-06-29)
FA [auth X]	SCOP2 Superfamily	PH domain-like	8106850	3000134	SCOP2 (2022-06-29)
AA [auth 6]	SCOP2 Family	Proteasome subunits	8106859	4002254	SCOP2 (2022-06-29)
AA [auth 6]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106860	3000131	SCOP2 (2022-06-29)
Z [auth 5]	SCOP2 Family	Proteasome subunits	8106867	4002254	SCOP2 (2022-06-29)
Z [auth 5]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106868	3000131	SCOP2 (2022-06-29)
A [auth a]	SCOP2 Family	Proteasome subunits	8106857	4002254	SCOP2 (2022-06-29)
A [auth a]	SCOP2 Superfamily	Class II glutamine amidotransferases	8106858	3000131	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
W [auth 2]	VEGFR-1-like_Ig-like	e7qo621	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
I [auth i]	VEGFR-1-like_Ig-like	e7qo6i1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
V [auth 1]	VEGFR-1-like_Ig-like	e7qo611	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
H [auth h]	VEGFR-1-like_Ig-like	e7qo6h1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
U [auth G]	VEGFR-1-like_Ig-like	e7qo6G1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
G [auth g]	VEGFR-1-like_Ig-like	e7qo6g1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
T [auth F]	VEGFR-1-like_Ig-like	e7qo6F1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
F [auth f]	VEGFR-1-like_Ig-like	e7qo6f1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
S [auth E]	VEGFR-1-like_Ig-like	e7qo6E1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
E [auth e]	PK_C	e7qo6e1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PK_C	ECOD (v295)
R [auth D]	VEGFR-1-like_Ig-like	e7qo6D1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
D [auth d]	VEGFR-1-like_Ig-like	e7qo6d1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
WA [auth 9]	VEGFR-1-like_Ig-like	e7qo691	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
VA [auth 8]	VEGFR-1-like_Ig-like	e7qo681	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
UA [auth J]	AAA_lid_RFC1	e7qo6J1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_lid_RFC1	ECOD (v295)
TA [auth M]	AAA_lid_RFC1	e7qo6M1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_lid_RFC1	ECOD (v295)
SA [auth L]	VEGFR-1-like_Ig-like	e7qo6L1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
RA [auth K]	VEGFR-1-like_Ig-like	e7qo6K1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
Q [auth C]	VEGFR-1-like_Ig-like	e7qo6C1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
C [auth c]	VEGFR-1-like_Ig-like	e7qo6c1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
QA [auth I]	VEGFR-1-like_Ig-like	e7qo6I1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
PA [auth H]	AAA_lid_RFC1	e7qo6H1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_lid_RFC1	ECOD (v295)
OA [auth O]	VEGFR-1-like_Ig-like	e7qo6O1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
NA [auth U]	VEGFR-1-like_Ig-like	e7qo6U1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
MA [auth R]	VEGFR-1-like_Ig-like	e7qo6R1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
LA [auth Q]	VEGFR-1-like_Ig-like	e7qo6Q1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
KA [auth P]	VEGFR-1-like_Ig-like	e7qo6P1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
JA [auth S]	VEGFR-1-like_Ig-like	e7qo6S1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
IA [auth N]	VEGFR-1-like_Ig-like	e7qo6N1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
HA [auth Z]	VEGFR-1-like_Ig-like	e7qo6Z1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
P [auth B]	VEGFR-1-like_Ig-like	e7qo6B1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
B [auth b]	VEGFR-1-like_Ig-like	e7qo6b1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
FA [auth X]	VEGFR-1-like_Ig-like	e7qo6X1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
EA [auth T]	VEGFR-1-like_Ig-like	e7qo6T1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
DA [auth V]	VEGFR-1-like_Ig-like	e7qo6V1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
CA [auth W]	VEGFR-1-like_Ig-like	e7qo6W1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
N [auth n]	VEGFR-1-like_Ig-like	e7qo6n1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
BA [auth 7]	VEGFR-1-like_Ig-like	e7qo671	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
M [auth m]	VEGFR-1-like_Ig-like	e7qo6m1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
AA [auth 6]	VEGFR-1-like_Ig-like	e7qo661	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
Z [auth 5]	VEGFR-1-like_Ig-like	e7qo651	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
L [auth l]	VEGFR-1-like_Ig-like	e7qo6l1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
Y [auth 4]	VEGFR-1-like_Ig-like	e7qo641	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
K [auth k]	VEGFR-1-like_Ig-like	e7qo6k1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
X [auth 3]	VEGFR-1-like_Ig-like	e7qo631	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
J [auth j]	VEGFR-1-like_Ig-like	e7qo6j1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
O [auth A]	VEGFR-1-like_Ig-like	e7qo6A1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: VEGFR-1-like_Ig-like	ECOD (v295)
A [auth a]	PK_C	e7qo6a1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PK_C	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
WA [auth 9]	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain
OA [auth O]	PF18261	Rpn9 C-terminal helix (Rpn9_C)	Rpn9 C-terminal helix	-	Family
OA [auth O]	PF22037	PSD13 N-terminal repeats (PSD13_N)	PSD13 N-terminal repeats	-	Repeat
OA [auth O]	PF01399	PCI domain (PCI)	PCI domain	This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) [1].	Domain
NA [auth U]	PF13012	Maintenance of mitochondrial structure and function (MitMem_reg)	Maintenance of mitochondrial structure and function	-	Family
NA [auth U]	PF01398	JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB)	JAB1/Mov34/MPN/PAD-1 ubiquitin protease	Proteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or J ...	Proteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or JAMM domain [7]. These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signalling and protein turnover pathways in eukaryotes [7]. Versions of the domain in prokaryotic cognates of the ubiquitin-modification pathway are shown to have a similar role, and the archaeal protein from Haloferax volcanii is found to cleave ubiquitin-like small archaeal modifier proteins (SAMP1/2) from protein conjugates [8,9].	Domain
IA [auth N]	PF13646	HEAT repeats (HEAT_2)	HEAT repeats	-	Repeat
IA [auth N]	PF00227	Proteasome subunit (Proteasome)	Proteasome subunit	The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity ...	The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity: from HslV (heat shock locus v), which is encoded by 1 gene in bacteria, to the eukaryotic 20S proteasome, which is encoded by more than 14 genes [1]. Recently evidence of two novel groups of bacterial proteasomes was proposed. The first is Anbu, which is sparsely distributed among cyanobacteria and proteobacteria [1]. The second is call beta-proteobacteria proteasome homologue (BPH) [1].	Domain
IA [auth N]	PF18004	26S proteasome regulatory subunit RPN2 C-terminal domain (RPN2_C)	26S proteasome regulatory subunit RPN2 C-terminal domain	This is the C-terminal domain found in S. cerevisiae Rpn2 (26S proteasome regulatory subunit RPN2) as well as other eukaryotic species. A study revealed that the C-terminal 52 residues of the Rpn2 C-terminal domain are responsible for mediating inter ...	This is the C-terminal domain found in S. cerevisiae Rpn2 (26S proteasome regulatory subunit RPN2) as well as other eukaryotic species. A study revealed that the C-terminal 52 residues of the Rpn2 C-terminal domain are responsible for mediating interactions with the ubiquitin-binding subunit Rpn13. Futhermore, the extreme C-terminal 20 or 21 residues of Rpn2 (926-945 or 925-945) of S. cerevisiae, were shown to be equally effective at binding Rpn13. Multiple sequence alignments indicate that Rpn2 orthologs are highly conserved in this C-terminal region and share characteristic acidic, aromatic, and proline residues, suggesting a common function. In the structure of Rpn2 from S. cerevisiae , this region is exposed and disordered, and is thus accessible for associating with Rpn13. The Rpn2 binding surface of human Rpn13 has been mapped by nuclear magnetic resonance titration to one surface of its Pru domain [1].	Domain
IA [auth N]	PF21505	26S proteasome subunit RPN2, N-terminal domain (RPN2_N)	26S proteasome subunit RPN2, N-terminal domain	-	Repeat
IA [auth N]	PF01851	Proteasome/cyclosome repeat (PC_rep)	Proteasome/cyclosome repeat	-	Repeat
HA [auth Z]	PF17781	RPN1 N-terminal domain (RPN1_RPN2_N)	RPN1 N-terminal domain	-	Repeat
HA [auth Z]	PF01851	Proteasome/cyclosome repeat (PC_rep)	Proteasome/cyclosome repeat	-	Repeat
HA [auth Z]	PF18051	26S proteasome non-ATPase regulatory subunit RPN1 C-terminal (RPN1_C)	26S proteasome non-ATPase regulatory subunit RPN1 C-terminal	This is the C-terminal domain found in RPN1 proteins (26S proteasome non-ATPase regulatory subunit 2). The 26S proteasome holocomplex consists of a 28-subunit barrel-shaped core particle (CP) in the center capped at the top and bottom by 19-subunit ...	This is the C-terminal domain found in RPN1 proteins (26S proteasome non-ATPase regulatory subunit 2). The 26S proteasome holocomplex consists of a 28-subunit barrel-shaped core particle (CP) in the center capped at the top and bottom by 19-subunit regulatory particles (RPs). The CP forms the catalytic chamber and the RP is formed from two subcomplexes known as the lid and the base [1]. The lid comprises nine Rpn subunits in yeast (Rpn3/5/6/7/8/9/11/12/15) and the base comprises three Rpn subunits (Rpn1/2/13) and six ATPases (Rpt1-6) [2].	Domain
GA [auth Y]	PF05160	DSS1/SEM1 family (DSS1_SEM1)	DSS1/SEM1 family	-	Family
BA [auth 7], N [auth n]	PF00227	Proteasome subunit (Proteasome)	Proteasome subunit	The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity ...	The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity: from HslV (heat shock locus v), which is encoded by 1 gene in bacteria, to the eukaryotic 20S proteasome, which is encoded by more than 14 genes [1]. Recently evidence of two novel groups of bacterial proteasomes was proposed. The first is Anbu, which is sparsely distributed among cyanobacteria and proteobacteria [1]. The second is call beta-proteobacteria proteasome homologue (BPH) [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth i], W [auth 2]	Proteasome endopeptidase complex	-	-	-
H [auth h], V [auth 1]	Proteasome subunit beta type-1	peptidase activity catalytic activity, acting on a protein threonine-type peptidase activity hydrolase activity catalytic activity endopeptidase activity threonine-type endopeptidase activity	catabolic process proteasomal protein catabolic process metabolic process cellular process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process proteasomal ubiquitin-independent protein catabolic process macromolecule catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex proteasome core complex intracellular protein-containing complex proteasome core complex, beta-subunit complex intracellular organelle organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex proteasome core complex intracellular protein-containing complex proteasome core complex, beta-subunit complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle proteasome storage granule membrane-bounded organelle nucleus intracellular membrane-bounded organelle
G [auth g], U [auth G]	Probable proteasome subunit alpha type-7	-	-	-
F [auth f], T [auth F]	BJ4_G0043800.mRNA.1.CDS.1	-	-	-
E [auth e], S [auth E]	EM14S01-3B_G0035190.mRNA.1.CDS.1	-	-	-
D [auth d], R [auth D]	HLJ1_G0048980.mRNA.1.CDS.1	-	-	-
WA [auth 9]	Polyubiquitin-B	-	-	membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane cytoplasm organelle membrane nucleus
VA [auth 8]	Ubiquitin carboxyl-terminal hydrolase	-	-	-
UA [auth J]	26S proteasome regulatory subunit 8 homolog	-	-	-
TA [auth M]	26S proteasome regulatory subunit 6A	-	-	-
SA [auth L]	26S proteasome subunit RPT4	-	-	-
RA [auth K]	26S proteasome regulatory subunit 6B homolog	-	-	-
C [auth c], Q [auth C]	BJ4_G0021480.mRNA.1.CDS.1	-	-	-
QA [auth I]	26S proteasome regulatory subunit 4 homolog	-	-	-
PA [auth H]	26S proteasome regulatory subunit 7 homolog	-	-	-
OA [auth O]	26S proteasome regulatory subunit RPN9	structural molecule activity	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular component organization cellular component biogenesis proteasome assembly catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular component organization cellular component biogenesis proteasome assembly cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome regulatory particle proteasome regulatory particle, lid subcomplex proteasome accessory complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome regulatory particle proteasome regulatory particle, lid subcomplex proteasome accessory complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle proteasome storage granule membrane-bounded organelle nucleus intracellular membrane-bounded organelle
NA [auth U]	26S proteasome regulatory subunit RPN8	peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular anatomical structure proteasome regulatory particle proteasome regulatory particle, lid subcomplex proteasome accessory complex cellular anatomical structure intracellular organelle organelle membraneless organelle protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular anatomical structure proteasome regulatory particle proteasome regulatory particle, lid subcomplex proteasome accessory complex cellular anatomical structure intracellular organelle organelle membraneless organelle intracellular membraneless organelle cytoplasm proteasome storage granule
MA [auth R]	26S proteasome regulatory subunit RPN7	-	-	-
LA [auth Q]	26S proteasome regulatory subunit RPN6	-	-	-
KA [auth P]	26S proteasome regulatory subunit RPN5	-	-	-
JA [auth S]	26S proteasome regulatory subunit RPN3	-	-	-
IA [auth N]	26S proteasome regulatory subunit RPN2	ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding enzyme regulator activity molecular function regulator activity	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of biological process regulation of cellular process regulation of protein metabolic process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process regulation of catabolic process regulation of primary metabolic process regulation of metabolic process regulation of protein catabolic process cellular component organization cellular component biogenesis proteasome assembly cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome regulatory particle proteasome accessory complex cellular anatomical structure proteasome regulatory particle, base subcomplex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular organelle organelle membraneless organelle protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome regulatory particle proteasome accessory complex cellular anatomical structure proteasome regulatory particle, base subcomplex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle cytoplasm proteasome storage granule membrane-bounded organelle nucleus intracellular membrane-bounded organelle
HA [auth Z]	26S proteasome regulatory subunit RPN1	enzyme regulator activity molecular function regulator activity protein-macromolecule adaptor activity molecular adaptor activity	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of biological process regulation of cellular process regulation of protein metabolic process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process regulation of catabolic process regulation of primary metabolic process regulation of metabolic process regulation of protein catabolic process proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome regulatory particle proteasome accessory complex cellular anatomical structure proteasome regulatory particle, base subcomplex proteasome complex endopeptidase complex intracellular protein-containing complex cytoplasm intracellular organelle organelle protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome regulatory particle proteasome accessory complex cellular anatomical structure proteasome regulatory particle, base subcomplex proteasome complex endopeptidase complex intracellular protein-containing complex cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle proteasome storage granule membrane-bounded organelle nucleus intracellular membrane-bounded organelle endoplasmic reticulum endomembrane system
B [auth b], P [auth B]	HLJ1_G0039880.mRNA.1.CDS.1	-	-	-
GA [auth Y]	26S proteasome complex subunit SEM1	molecular adaptor activity protein folding chaperone	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process chromosome organization DNA metabolic process maintenance of DNA repeat elements catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process chromosome organization DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process organelle organization cellular component organization or biogenesis maintenance of DNA trinucleotide repeats cellular response to stimulus double-strand break repair response to stimulus DNA recombination cellular response to stress DNA damage response response to stress recombinational repair double-strand break repair via homologous recombination DNA repair growth filamentous growth SAGA complex localization to transcription regulatory region localization macromolecule localization protein-containing complex localization cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport intercellular transport mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport intracellular transport gene expression establishment of localization macromolecule biosynthetic process RNA export from nucleus establishment of RNA localization biosynthetic process cellular component biogenesis proteasome assembly cellular component assembly protein-containing complex organization protein-containing complex assembly regulation of biological process regulation of cellular process biological regulation cell cycle regulation of cell cycle RNA metabolic process nucleobase-containing compound biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle transcription export complex 2 proteasome regulatory particle proteasome regulatory particle, lid subcomplex proteasome accessory complex membraneless organelle intracellular membraneless organelle proteasome storage granule
FA [auth X]	HLJ1_G0030700.mRNA.1.CDS.1	-	-	-
EA [auth T]	EM14S01-3B_G0050020.mRNA.1.CDS.1	-	-	-
DA [auth V]	26S proteasome regulatory subunit RPN11	-	-	-
CA [auth W]	26S proteasome regulatory subunit RPN10	-	-	-
BA [auth 7], N [auth n]	Proteasome subunit beta type-7	-	catabolic process proteasomal protein catabolic process metabolic process cellular process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process proteasomal ubiquitin-independent protein catabolic process macromolecule catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process catabolic process proteasomal protein catabolic process metabolic process cellular process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process proteasomal ubiquitin-independent protein catabolic process macromolecule catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process cellular component organization cellular component biogenesis proteasome assembly cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex proteasome core complex intracellular protein-containing complex proteasome core complex, beta-subunit complex intracellular organelle organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex proteasome core complex intracellular protein-containing complex proteasome core complex, beta-subunit complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle proteasome storage granule membrane-bounded organelle nucleus intracellular membrane-bounded organelle
AA [auth 6], M [auth m]	HLJ1_G0013750.mRNA.1.CDS.1	-	-	-
L [auth l], Z [auth 5]	Proteasome subunit beta type-5	-	-	-
K [auth k], Y [auth 4]	Proteasome subunit beta	-	-	-
J [auth j], X [auth 3]	Proteasome endopeptidase complex	-	-	-
A [auth a], O [auth A]	BJ4_G0020160.mRNA.1.CDS.1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
H [auth h], V [auth 1]	IPR016050	Proteasome beta-type subunit, conserved site	Conserved Site
H [auth h], V [auth 1]	IPR029055	Nucleophile aminohydrolases, N-terminal	Homologous Superfamily
H [auth h], V [auth 1]	IPR023333	Proteasome B-type subunit	Family
H [auth h], V [auth 1]	IPR001353	Proteasome, subunit alpha/beta	Family
H [auth h], V [auth 1]	IPR000243	Peptidase T1A, proteasome beta-subunit	Family
WA [auth 9]	IPR019956	Ubiquitin domain	Domain
WA [auth 9]	IPR019954	Ubiquitin conserved site	Conserved Site
WA [auth 9]	IPR050158	Ubiquitin and ubiquitin-like	Family
WA [auth 9]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
WA [auth 9]	IPR000626	Ubiquitin-like domain	Domain
OA [auth O]	IPR054179	PSD13, N-terminal	Domain
OA [auth O]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
OA [auth O]	IPR035298	26S Proteasome non-ATPase regulatory subunit 13	Family
OA [auth O]	IPR000717	Proteasome component (PCI) domain	Domain
OA [auth O]	IPR040798	Rpn9, C-terminal helix	Domain
NA [auth U]	IPR024969	EIF3F/CSN6-like, C-terminal	Domain
NA [auth U]	IPR037518	MPN domain	Domain
NA [auth U]	IPR033858	26S Proteasome non-ATPase regulatory subunit 7/8	Family
NA [auth U]	IPR000555	JAB1/MPN/MOV34 metalloenzyme domain	Domain
IA [auth N]	IPR040623	26S proteasome regulatory subunit RPN2, C-terminal	Domain
IA [auth N]	IPR016024	Armadillo-type fold	Homologous Superfamily
IA [auth N]	IPR002015	Proteasome/cyclosome repeat	Repeat
IA [auth N]	IPR011989	Armadillo-like helical	Homologous Superfamily
IA [auth N]	IPR048570	26S proteasome non-ATPase regulatory subunit 1/RPN2, N-terminal domain	Domain
IA [auth N]	IPR016642	26S proteasome regulatory complex, non-ATPase subcomplex, Rpn2/Psmd1 subunit	Family
HA [auth Z]	IPR041433	26S proteasome non-ATPase regulatory subunit RPN1, C-terminal	Domain
HA [auth Z]	IPR016024	Armadillo-type fold	Homologous Superfamily
HA [auth Z]	IPR002015	Proteasome/cyclosome repeat	Repeat
HA [auth Z]	IPR016643	26S proteasome regulatory complex, non-ATPase subcomplex, Rpn1 subunit	Family
HA [auth Z]	IPR011989	Armadillo-like helical	Homologous Superfamily
HA [auth Z]	IPR040892	RPN1, N-terminal	Domain
GA [auth Y]	IPR007834	DSS1/SEM1	Family
BA [auth 7], N [auth n]	IPR016050	Proteasome beta-type subunit, conserved site	Conserved Site
BA [auth 7], N [auth n]	IPR023333	Proteasome B-type subunit	Family
BA [auth 7], N [auth n]	IPR029055	Nucleophile aminohydrolases, N-terminal	Homologous Superfamily
BA [auth 7], N [auth n]	IPR016295	Proteasome subunit beta 4	Family
BA [auth 7], N [auth n]	IPR001353	Proteasome, subunit alpha/beta	Family

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.