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(-) Description

Title :  SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF DC-UBP/UBTD2
 
Authors :  A. Song, C. Zhou, X. Guan, K. Sze, H. Hu
Date :  08 Jan 10  (Deposition) - 19 May 10  (Release) - 19 May 10  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (10x)
Keywords :  Ubtd2, Dc-Ubp, Ubiquitin, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Song, C. Zhou, X. Guan, K. Sze, H. Hu
Solution Structure Of The N-Terminal Domain Of Dc-Ubp/Ubtd2 And Its Interaction With Ubiquitin
Protein Sci. V. 19 1104 2010
PubMed-ID: 20440844  |  Reference-DOI: 10.1002/PRO.386

(-) Compounds

Molecule 1 - UBIQUITIN DOMAIN-CONTAINING PROTEIN 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET-22B
    Expression System Vector Type: VECTOR
    Fragment: UNP RESIDUES 14-141
    Gene: UBTD2, DCUBP, SB72
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DENDRITIC CELL-DERIVED UBIQUITIN-LIKE PROTEIN, DC-UBP, UBIQUITIN-LIKE PROTEIN SB72

 Structural Features

(-) Chains, Units

  
NMR Structure (10x): 

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 2KSN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_052694M129IUBTD2_HUMANPolymorphism17074452AM129I
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2KSN)

(-) Exons   (3, 3)

NMR Structure (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003937921ENSE00001728104chr5:171711075-171710600476UBTD2_HUMAN1-24241A:14-2411
1.2ENST000003937922ENSE00001653344chr5:171661362-171661126237UBTD2_HUMAN24-103801A:24-10380
1.3ENST000003937923ENSE00001226299chr5:171639231-1716366442588UBTD2_HUMAN103-2341321A:103-14139

(-) 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:128
 aligned with UBTD2_HUMAN | Q8WUN7 from UniProtKB/Swiss-Prot  Length:234

    Alignment length:128
                                    23        33        43        53        63        73        83        93       103       113       123       133        
          UBTD2_HUMAN    14 SLNENSEGTGVALGRNQPLKKEKPKWKSDYPMTDGQLRSKRDEFWDTAPAFEGRKEIWDALKAAAHAFESNDHELAQAIIDGANITLPHGALTECYDELGNRYQLPVYCLAPPINMIEEKSDIETLDI 141
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.........eeee...eeee.hhhhh.................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------I------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1   ------------------------------------------------------------------------------Exon 1.3  PDB: A:103-141 [INCOMPLETE]   Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.2  PDB: A:24-103 UniProt: 24-103                                         -------------------------------------- Transcript 1 (2)
                 2ksn A  14 SLNENSEGTGVALGRNQPLKKEKPKWKSDYPMTDGQLRSKRDEFWDTAPAFEGRKEIWDALKAAAHAFESNDHELAQAIIDGANITLPHGALTECYDELGNRYQLPVYCLAPPINMIEEKSDIETLDI 141
                                    23        33        43        53        63        73        83        93       103       113       123       133
   Legend:   → Mismatch (orange background)
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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 2KSN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2KSN)

(-) Gene Ontology  (2, 2)

NMR Structure(hide GO term definitions)
Chain A   (UBTD2_HUMAN | Q8WUN7)
molecular function
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  UBTD2_HUMAN | Q8WUN7
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 Related Entries

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

UniProtKB/Swiss-Prot
        UBTD2_HUMAN | Q8WUN7: 1ttn

(-) Related Entries Specified in the PDB File

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