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1yx5

Solution Structure of S5a UIM-1/Ubiquitin Complex

Method: SOLUTION NMR
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1. Protein Identity and Related Structures Protein Identity & Related Structures

26S proteasome non-ATPase regulatory subunit 4

Homo sapiens

UniProt P55036

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Ubiquitin × 1 （P62988） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1p9c 1yx4

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1p9d 1uel 1yx5 1yx6 2kde 2kdf 5gjq 5gjr 5l4k 5ln3 5m32 5t0c

123 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name PSD4_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 22–132； UniProt 196–306

Ubiquitin

Homo sapiens

UniProt P62988

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 26S proteasome non-ATPase regulatory subunit 4 × 1 （P55036） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1c3t 1d3z 1g6j 1sif 1ubi 1ubq 2gbj 2gbj 2gbk 2gbk 2gbk 2gbk

48 assemblies; showing the first 12

Homodimer
1tbe 2bgf 2gbk 2gbk 2gbr 2jf5 2pe9 2pea 2xk5 3h7p 3h7s 3nob

16 assemblies; showing the first 12

Homotetramer
1f9j 2o6v 2o6v 2o6v 2xew 2xew 2xew

7 assemblies

Other homooligomers
2gbr 2zcb 3eec 3eec

4 assemblies

Heteromeric or nucleic-acid complex
1fxt 1nbf 1nbf 1q5w 1s1q 1s1q 1xd3 1xd3 1yx5 1yx6 2ayo 2ayo

64 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name UBIQ_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–76； UniProt 1–76

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id1yx5
Deposition date deposition_date2005-02-19
Structure title titleSolution Structure of S5a UIM-1/Ubiquitin Complex
Keywords keywordspolyubiquitin, proteasome, S5a, UIM, HYDROLASE; HYDROLASE
Experimental Method methodSOLUTION NMR
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1yx5__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1yx5__assembly_1__model_1 | I(q)

10-2 10-1 105 106 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1yx5__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）34.85 Å
Rg (electron density)35.44 Å
Total Rg35.46 Å
Atom count2847
Residues188
Excluded volume25269 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1yx5__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 2 1yx5__assembly_1__model_2 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 3 1yx5__assembly_1__model_3 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 4 1yx5__assembly_1__model_4 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 5 1yx5__assembly_1__model_5 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 6 1yx5__assembly_1__model_6 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 7 1yx5__assembly_1__model_7 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 8 1yx5__assembly_1__model_8 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 9 1yx5__assembly_1__model_9 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 10 1yx5__assembly_1__model_10 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 11 1yx5__assembly_1__model_11 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 12 1yx5__assembly_1__model_12 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 13 1yx5__assembly_1__model_13 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 14 1yx5__assembly_1__model_14 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 15 1yx5__assembly_1__model_15 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 16 1yx5__assembly_1__model_16 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 17 1yx5__assembly_1__model_17 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 18 1yx5__assembly_1__model_18 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (2)

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6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1yx5b_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.1 — Ubiquitin-like
Family Family familyd.15.1.0 — automated matches

CATH v4.4 (3 domains)

Domain ID domain_id1yx5A01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily380 —
Domain ID domain_id1yx5A02
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology300 — cAMP-dependent Protein Kinase, Chain A
Homologous superfamily homologous superfamily40 —
Domain ID domain_id1yx5B00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily90 — Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
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7. Citations (1)