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(-) Description

Title :  SOLUTION STRUCTURE OF THE HUC RBD1-RBD2 COMPLEXED WITH THE AU-RICH ELEMENT
 
Authors :  M. Inoue, M. Hirao, K. Kasashima, I. -S. Kim, G. Kawai, T. Kigawa, H. Sakamoto, Y. Muto, S. Yokoyama
Date :  24 Aug 00  (Deposition) - 24 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  H,R  (21x)
Keywords :  Rna-Binding Domain, Protein-Rna Complex, Immune System/Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Inoue, M. Hirao, K. Kasashima, I. -S. Kim, G. Kawai, T. Kigawa, H. Sakamoto, Y. Muto, S. Yokoyama
Solution Structure Of Mouse Huc Rna-Binding Domains Complexed With An Au-Rich Element Reveals Determinants Of Neuronal Differentiation
To Be Published 2000
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HU ANTIGEN C
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: THE FIRST AND THE SECOND RNA-BINDING DOMAINS
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - AU-RICH RNA ELEMENT
    Chains: R
    Engineered: YES
    Other Details: RNA DECAMER
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure (21x): 

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1FNX)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

NMR Structure (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RRMPS50102 Eukaryotic RNA Recognition Motif (RRM) profile.ELAV3_MOUSE39-117
125-205
284-362		  2H:39-117
H:125-205
-

(-) Exons   (0, 0)

(no "Exon" information available for 1FNX)

(-) 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 H from PDB  Type:PROTEIN  Length:174
 aligned with ELAV3_MOUSE | Q60900 from UniProtKB/Swiss-Prot  Length:367

    Alignment length:174
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204    
          ELAV3_MOUSE    35 DDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNPSQ 208
               SCOP domains d1fnxh1 H:35-120 Hu antigen C (Huc)                                                   d1fnxh2 H:121-208 Hu antigen C (Huc)                                                     SCOP domains
               CATH domains ------1fnxH01 H:41-111  [code=3.30.70.330, no name defined]                  ---------------1fnxH02 H:127-203  [code=3.30.70.330, no name defined]                       ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeee......hhhhhhhhhhh.....eeee...........eeeee..hhhhhhhhhhhheeee....eeeeee............eeee......hhhhhhhhhhh...eeeeeee..........eeeeee.hhhhhhhhhhh.............eeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----RRM  PDB: H:39-117 UniProt: 39-117                                             -------RRM  PDB: H:125-205 UniProt: 125-205                                             --- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1fnx H  35 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNPSQ 208
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204    


Chain R from PDB  Type:RNA  Length:10
                                          
                 1fnx R   0 UAUUUAUUUU   9
                                     9
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain H   (ELAV3_MOUSE | Q60900)
molecular function
    GO:0017091    AU-rich element binding    Interacting selectively and non-covalently with a region of RNA containing frequent adenine and uridine bases.
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0030154    cell differentiation    The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:0007399    nervous system development    The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ELAV3_MOUSE | Q60900: 1d8z 1d9a

(-) Related Entries Specified in the PDB File

1d8z SOLUTION STRUCTURE OF HUC RBD1
1d9a SOLUTION STRUCTURE OF HUC RBD2