6AVO Hydrolase Hydrolase Inhibitor date Sep 04, 2017
title Cryo-Em Structure Of Human Immunoproteasome With A Novel Noncompetitive Inhibitor That Selectively Inhibits Activate Lymphocytes
authors H.Li, R.Santos, L.Bai
compound source
Molecule: Proteasome Subunit Beta Type-9
Chain: A, F
Synonym: Proteasome Subunit Beta Type-6, Low Molecular Mass 2, Macropain Chain 7, Multicatalytic Endopeptidase Complex Proteasome Chain 7, Proteasome Subunit Beta-1i, Really Inte New Gene 12 Protein;
Ec: 3.4.25.1
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-10
Chain: B, E
Synonym: Proteasome Subunit Beta Type-7, Low Molecular Mass 10, Macropain Subunit Mecl-1, Multicatalytic Endopeptidase Subunit Mecl-1, Proteasome Mecl-1, Proteasome Subunit Beta-
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-8
Chain: C, D
Synonym: Proteasome Subunit Beta Type-5, Low Molecular Mass 7, Macropain Subunit C13, Multicatalytic Endopeptidase Comp Subunit C13, Proteasome Component C13, Proteasome Subunit B Really Interesting New Gene 10 Protein;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-1
Chain: G, L
Synonym: 30 Kda Prosomal Protein, Pros-30, Macropain Subuni Multicatalytic Endopeptidase Complex Subunit C2, Proteasome C2, Proteasome Nu Chain;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-5
Chain: H, M
Synonym: Macropain Zeta Chain, Multicatalytic Endopeptidase Zeta Chain, Proteasome Zeta Chain;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-7
Chain: I, N
Synonym: Proteasome Subunit Rc6-1, Proteasome Subunit Xapc7
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-3
Chain: J, Q
Synonym: Macropain Subunit C8, Multicatalytic Endopeptidase Subunit C8, Proteasome Component C8;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-6
Chain: K, R
Synonym: 27 Kda Prosomal Protein, P27k, Macropain Iota Chai Multicatalytic Endopeptidase Complex Iota Chain, Proteasome Chain;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-4
Chain: O, Z
Synonym: Macropain Subunit C9, Multicatalytic Endopeptidase Subunit C9, Proteasome Component C9, Proteasome Subunit L;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Alpha Type-2
Chain: P, b
Synonym: Macropain Subunit C3, Multicatalytic Endopeptidase Subunit C3, Proteasome Component C3;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-1
Chain: S, X
Synonym: Macropain Subunit C5, Multicatalytic Endopeptidase Subunit C5, Proteasome Component C5, Proteasome Gamma Chain
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-2
Chain: T, V
Synonym: Macropain Subunit C7-I, Multicatalytic Endopeptida Subunit C7-I, Proteasome Component C7-I;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-3
Chain: U, Y
Synonym: Proteasome Chain 13, Proteasome Component C10-II, Theta Chain;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Proteasome Subunit Beta Type-4
Chain: W, a
Synonym: 26 Kda Prosomal Protein, Pros-26, Macropain Beta C Multicatalytic Endopeptidase Complex Beta Chain, Proteasome Chain,Proteasome Chain 3, Hsn3;
Ec: 3.4.25.1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.80 Å
ligand BZ7 enzyme Hydrolase E.C.3.4.25.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, D


E, B


F, A


K, R
  • positive regulation of NF-ka...

  • L, G


    M, H


    N, I


    P, b


    Q, J


    S, X


    T, V


    Y, U


    Z, O


    a, W


    Primary referenceStructure of human immunoproteasome with a reversible and noncompetitive inhibitor that selectively inhibits activated lymphocytes., Santos RLA, Bai L, Singh PK, Murakami N, Fan H, Zhan W, Zhu Y, Jiang X, Zhang K, Assker JP, Nathan CF, Li H, Azzi J, Lin G, Nat Commun. 2017 Nov 22;8(1):1692. doi: 10.1038/s41467-017-01760-5. PMID:29167449
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (870 Kb) [Save to disk]
  • Biological Unit Coordinates (6avo.pdb1.gz) 861 Kb
  • LPC: Ligand-Protein Contacts for 6AVO
  • CSU: Contacts of Structural Units for 6AVO
  • Retrieve 6AVO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6AVO from S2C, [Save to disk]
  • View 6AVO in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6AVO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6avo from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6avo_M] [6avo_L] [6avo_Z] [6avo_W] [6avo_b] [6avo_P] [6avo_E] [6avo_D] [6avo_B] [6avo_A] [6avo_G] [6avo_X] [6avo_F] [6avo_J] [6avo_S] [6avo_V] [6avo_R] [6avo_N] [6avo_U] [6avo_T] [6avo_K] [6avo_Q] [6avo_O] [6avo_C] [6avo_I] [6avo_Y] [6avo_a] [6avo_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6AVO
  • Community annotation for 6AVO at PDBWiki (http://pdbwiki.org)

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