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(-) Description

Title :  SOLUTION STRUCTURE OF THE RPN13 DEUBAD DOMAIN
 
Authors :  X. Chen, B. Lee, D. Finley, K. J. Walters
Date :  25 Nov 09  (Deposition) - 26 May 10  (Release) - 23 Dec 15  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (35x)
NMR Structure *:  A  (1x)
Keywords :  Proteasome, Uch37-Binding Domain, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  X. Chen, B. H. Lee, D. Finley, K. J. Walters
Structure Of Proteasome Ubiquitin Receptor Hrpn13 And Its Activation By The Scaffolding Protein Hrpn2.
Mol. Cell V. 38 404 2010
PubMed-ID: 20471946  |  Reference-DOI: 10.1016/J.MOLCEL.2010.04.019

(-) Compounds

Molecule 1 - PROTEASOMAL UBIQUITIN RECEPTOR ADRM1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPLASMID
    Expression System Vector TypePGEX4T1
    GeneADRM1, GP110
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymADHESION-REGULATING MOLECULE 1, ARM-1, 110 KDA CELL MEMBRANE GLYCOPROTEIN, GP110, RPN13 HOMOLOG, PROTEASOME REGULATORY PARTICLE NON-ATPASE 13, HRPN13

 Structural Features

(-) Chains, Units

  1
NMR Structure (35x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2KQZ)

(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2KQZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2KQZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2KQZ)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2KQZ)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:155
 aligned with ADRM1_HUMAN | Q16186 from UniProtKB/Swiss-Prot  Length:407

    Alignment length:155
                                   262       272       282       292       302       312       322       332       342       352       362       372       382       392       402     
          ADRM1_HUMAN   253 STAASPTQPIQLSDLQSILATMNVPAGPAGGQQVDLASVLTPEIMAPILANADVQERLLPYLPSGESLPQTADEIQNTLTSPQFQQALGMFSAALASGQLGPLMCQFGLPAEAVEAANKGDVEAFAKAMQNNAKPEQKEGDTKDKKDEEEDMSLD 407
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------UCH37_bd-2kqzA01 A:286-381                                                                      -------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhh.........hhhhhhhhh....hhhhhhhhhhhhhhhhhh........hhhhhhh...hhhhhhhhhhhhhhhhh..hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...................... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2kqz A 253 STAASPTQPIQLSDLQSILATMNVPAGPAGGQQVDLASVLTPEIMAPILANADVQERLLPYLPSGESLPQTADEIQNTLTSPQFQQALGMFSAALASGQLGPLMCQFGLPAEAVEAANKGDVEAFAKAMQNNAKPEQKEGDTKDKKDEEEDMSLD 407
                                   262       272       282       292       302       312       322       332       342       352       362       372       382       392       402     

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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2KQZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2KQZ)

(-) Pfam Domains  (1, 1)

NMR Structure

(-) Gene Ontology  (14, 14)

NMR Structure(hide GO term definitions)
Chain A   (ADRM1_HUMAN | Q16186)
molecular function
    GO:0061133    endopeptidase activator activity    Increases the activity of an endopeptidase, any enzyme that hydrolyzes nonterminal peptide bonds in polypeptides.
    GO:0002020    protease binding    Interacting selectively and non-covalently with any protease or peptidase.
    GO:0070628    proteasome binding    Interacting selectively and non-covalently with a proteasome, a large multisubunit protein complex that catalyzes protein degradation.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0010950    positive regulation of endopeptidase activity    Any process that increases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
    GO:0043248    proteasome assembly    The aggregation, arrangement and bonding together of a mature, active proteasome complex.
    GO:0006368    transcription elongation from RNA polymerase II promoter    The extension of an RNA molecule after transcription initiation and promoter clearance at an RNA polymerase II promoter by the addition of ribonucleotides catalyzed by RNA polymerase II.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0000502    proteasome complex    A large multisubunit complex which catalyzes protein degradation, found in eukaryotes, archaea and some bacteria. In eukaryotes, this complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ADRM1_HUMAN | Q161862kr0 2l5v 2mkz 2nbk 2nbv 4uel 4uem 4wlq 4wlr 5irs 5v1y 5v1z

(-) Related Entries Specified in the PDB File

2r2y CRYSTAL STRUCTURE OF THE PROTEASOMAL RPN13 PRU-DOMAIN
2z4d NMR STRUCTURES OF YEAST PROTEASOME COMPONENT RPN13
2z59 COMPLEX STRUCTURES OF MOUSE RPN13 (22-130AA) AND UBIQUITIN
3ihr CRYSTAL STRUCTURE OF UCH37