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(-) Description

Authors :  C. Zhao, T. Tomizawa, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  28 May 04  (Deposition) - 28 Nov 04  (Release) - 24 Feb 09  (Revision)
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Ubiquitin Associated Protein 1 (Ubap1), Uba Domain, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  C. Zhao, T. Tomizawa, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structure Of Uba Domain Of Human Ubiquitin Associated Protein 1 (Ubap1)
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

    Expression System PlasmidP040301-63
    Expression System Vector TypePLASMID
    FragmentUBA DOMAIN
    GeneIMS CDNA STM00561
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 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 1WGN)

(-) Sites  (0, 0)

(no "Site" information available for 1WGN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
1UBAPS50030 Ubiquitin-associated domain (UBA) profile.UBAP1_HUMAN389-430

(-) Exons   (3, 3)

NMR Structure (3, 3)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.7ENST000003595447ENSE00001089269chr9:34250656-34250757102UBAP1_HUMAN423-456341A:50-63 (gaps)15

(-) 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:63
 aligned with UBAP1_HUMAN | Q9NZ09 from UniProtKB/Swiss-Prot  Length:502

    Alignment length:85
                                   362       372       382       392       402       412       422       432     
               SCOP domains d1wgna_                      A: Ubiquitin-associated protein 1, UBAP1                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......---------------------..hhhh...hhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhhhh....-. Sec.struct. author
                 SAPs(SNPs) ----K-------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------UBA  PDB: A:16-57 UniProt: 389-430        ------- PROSITE
               Transcript 1 Exon 1.5 Exon 1.6  PDB: A:8-49 UniProt: 362-422 [INCOMPLETE]          Exon 1.7        Transcript 1
                                  |  -         -        |9        19        29        39        49        59  | |
                                  7                     8                                                    62 |

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 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1WGN)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

NMR Structure(hide GO term definitions)
Chain A   (UBAP1_HUMAN | Q9NZ09)
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).
    GO:0043130    ubiquitin binding    Interacting selectively and non-covalently with ubiquitin, a protein that when covalently bound to other cellular proteins marks them for proteolytic degradation.
biological process
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0043162    ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway    The chemical reactions and pathways resulting in the breakdown of a protein or peptide covalently tagged with ubiquitin, via the multivesicular body (MVB) sorting pathway; ubiquitin-tagged proteins are sorted into MVBs, and delivered to a lysosome/vacuole for degradation.
cellular component
    GO:0000813    ESCRT I complex    An endosomal sorting complex required for transport. It consists of the class E vacuolar protein sorting (Vps) proteins and interacts with ubiquitinated cargoes.
    GO:0005794    Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    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

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

        UBAP1_HUMAN | Q9NZ094ae4 5lm1

(-) Related Entries Specified in the PDB File

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