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(-) Description

Title :  SOLUTION STRUCTURE OF THE UBIQUITIN-LIKE DOMAIN OF HPLIC-2
 
Authors :  K. J. Walters, M. F. Kleijnen, A. M. Goh, G. Wagner, P. M. Howley
Date :  21 May 01  (Deposition) - 20 Mar 02  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Ubiquitin-Like Domain, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. J. Walters, M. F. Kleijnen, A. M. Goh, G. Wagner, P. M. Howley
Structural Studies Of The Interaction Between Ubiquitin Family Proteins And Proteasome Subunit S5A.
Biochemistry V. 41 1767 2002
PubMed-ID: 11827521  |  Reference-DOI: 10.1021/BI011892Y
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UBIQUITIN-LIKE PROTEIN HPLIC-2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET
    Fragment: N-TERMINAL DOMAIN (RESIDUES 1-103)
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1J8C)

(-) Sites  (0, 0)

(no "Site" information available for 1J8C)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1J8C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J8C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1J8C)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UBIQUITIN_2PS50053 Ubiquitin domain profile.UBQL2_HUMAN33-107  1A:33-103

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003382221ENSE00001368073X:56590072-565933283257UBQL2_HUMAN1-7037031A:1-103103

(-) 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:103
 aligned with UBQL2_HUMAN | Q9UHD9 from UniProtKB/Swiss-Prot  Length:624

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
          UBQL2_HUMAN     1 MAENGESSGPPRPSRGPAAAQGSAAAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103
               SCOP domains d1j8ca_ A: Ubiquitin-like N-terminal domain of PLIC-2                                                   SCOP domains
               CATH domains 1j8cA00 A:1-103 Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................eeeeee....eeeeee....hhhhhhhhhhhhhh.....eeeee..eee..............eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------UBIQUITIN_2  PDB: A:33-103 UniProt: 33-107                              PROSITE
               Transcript 1 Exon 1.1  PDB: A:1-103 UniProt: 1-703 [INCOMPLETE]                                                      Transcript 1
                 1j8c A   1 MAENGESSGPPRPSRGPAAAQGSAAAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103
                                    10        20        30        40        50        60        70        80        90       100
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 1)

NMR Structure
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J8C)

(-) Gene Ontology  (14, 14)

NMR Structure(hide GO term definitions)
Chain A   (UBQL2_HUMAN | Q9UHD9)
molecular function
    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:0006914    autophagy    The process in which cells digest parts of their own cytoplasm; allows for both recycling of macromolecular constituents under conditions of cellular stress and remodeling the intracellular structure for cell differentiation.
    GO:1904021    negative regulation of G-protein coupled receptor internalization    Any process that stops, prevents or reduces the frequency, rate or extent of G-protein coupled receptor internalization.
    GO:1900186    negative regulation of clathrin-dependent endocytosis    Any process that stops, prevents or reduces the frequency, rate or extent of clathrin-mediated endocytosis.
    GO:1903071    positive regulation of ER-associated ubiquitin-dependent protein catabolic process    Any process that activates or increases the frequency, rate or extent of ER-associated ubiquitin-dependent protein catabolic process.
    GO:2000785    regulation of autophagosome assembly    Any process that modulates the frequency, rate or extent of autophagosome assembly.
    GO:0016241    regulation of macroautophagy    Any process that modulates the frequency, rate or extent of macroautophagy.
    GO:0030433    ubiquitin-dependent ERAD pathway    The series of steps necessary to target endoplasmic reticulum (ER)-resident proteins for degradation by the cytoplasmic proteasome. Begins with recognition of the ER-resident protein, includes retrotranslocation (dislocation) of the protein from the ER to the cytosol, protein ubiquitination necessary for correct substrate transfer, transport of the protein to the proteasome, and ends with degradation of the protein by the cytoplasmic proteasome.
cellular component
    GO:0005776    autophagosome    A double-membrane-bounded compartment that engulfs endogenous cellular material as well as invading microorganisms to target them to the vacuole/lysosome for degradation as part of macroautophagy.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    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.

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 Related Entries

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UniProtKB/Swiss-Prot
        UBQL2_HUMAN | Q9UHD9: 2nbv

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