1RYP

CRYSTAL STRUCTURE OF THE 20S PROTEASOME FROM YEAST AT 2.4 ANGSTROMS RESOLUTION

Structural Biology Knowledgebase: 1RYP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.330
  • R-Value Work: 0.286

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RYP

Classification: MULTICATALYTIC PROTEINASE

Total Structure Weight: 706521.75

Macromolecule Entities
Molecule Chains Length Organism Details
20S PROTEASOME A, O 243 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): SCL1 PRC2 PRS2 YGL011C
20S PROTEASOME B, P 250 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE8 PRS4 YML092C
20S PROTEASOME C, Q 244 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE9 PRS5 YGR135W
20S PROTEASOME D, R 241 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE6 YOL038W
20S PROTEASOME E, S 242 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP2 DOA5 YGR253C G9155
20S PROTEASOME F, T 233 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE5 YMR314W YM9924.06
20S PROTEASOME G, U 244 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE10 PRC1 Gene View PRS1 YOR362C O6650
20S PROTEASOME H, V 205 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Mutation: T1A
Gene Name(s): PRE3 YJL001W J1407
20S PROTEASOME I, W 222 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP1 YOR157C
20S PROTEASOME J, X 204 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PUP3 YER094C
20S PROTEASOME K, Y 198 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE1 YER012W
20S PROTEASOME L, Z 212 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Mutation: K33R
Gene Name(s): PRE2 DOA3 PRG1 YPR103W P8283.10
20S PROTEASOME 1, M 222 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE7 PRS3 PTS1 YBL041W YBL0407
20S PROTEASOME 2, N 233 Saccharomyces cerevisiae EC#: 3.4.25.1 IUBMB
Gene Name(s): PRE4 YFR050C

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

1, A, E, G, H, I, J, L, M, O, S, U, V, W, X, Z MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.330
  • R-Value Work: 0.286
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 135.49 α = 90.00
b = 300.70 β = 112.89
c = 144.42 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1997-02-26
  • Released Date: 1998-04-15
  • Deposition author(s): Groll, M., Ditzel, L., Loewe, J., Stock, D., Bochtler, M., Bartunik, H.D., Huber, R.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4