5L5A

Yeast 20S proteasome with human beta5i (1-138; R57T)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.200

Literature

Macromolecules
Sequence Display for 5L5A

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 731326.81

Macromolecule Entities
Molecule Chains Length Organism Details
Proteasome subunit alpha type-2 A, O 250 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE8 PRS4 YML092C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit alpha type-3 B, P 258 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE9 PRS5 YGR135W
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit alpha type-4 C, Q 254 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE6 YOL038W
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit alpha type-5 D, R 260 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP2 DOA5 YGR253C G9155
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit alpha type-6 E, S 234 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE5 YMR314W YM9924.06
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Probable proteasome subunit alpha type-7 F, T 288 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE10 PRC1 Gene View PRS1 YOR362C O6650
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit alpha type-1 G, U 252 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): SCL1 PRC2 PRS2 YGL011C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-2 H, V 232 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP1 YOR157C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-3 I, W 205 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP3 YER094C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-4 J, X 198 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE1 YER012W
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-8,Proteasome subunit beta type-5 K, Y 211 Saccharomyces cerevisiae Homo sapiens EC#: 3.4.25.1 IUBMB
Mutation: R57T
Gene Name(s): PSMB8 Gene View LMP7 PSMB5i RING10 Y2 PRE2 DOA3 PRG1 YPR103W P8283.10
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-6 L, Z 222 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE7 PRS3 PTS1 YBL041W YBL0407
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-7 M, a 246 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE4 YFR050C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Proteasome subunit beta type-1 N, b 196 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE3 YJL001W J1407
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

G, U CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

G, H, I, J, K, L, N, Z MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.200
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 135.14 α = 90.00
b = 301.15 β = 112.57
c = 145.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-05-28
  • Released Date: 2016-11-09
  • Deposition author(s): Groll, M., Huber, E.M.

Revision History

  • Version 1_0: 2016-11-09

    Type: Initial release

  • Version 1_1: 2016-12-14

    Type: Database references