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(-) Description

Title :  SOLUTION NMR STRUCTURE OF THE PROTEASE-RESISTENT DOMAIN OF XENOPUS LAEVIS EPABP2
 
Authors :  J. Song, J. L. Markley, Center For Eukaryotic Structural Genomics (Cesg)
Date :  16 Oct 07  (Deposition) - 30 Oct 07  (Release) - 02 Mar 10  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (20x)
Keywords :  Epabp2, Poly(A) Binding, Structural Genomics, Protein Structure Initiative, Psi-2, Center For Eukaryotic Structural Genomics, Cytoplasm Rna-Binding, Cesg, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Song, J. V. Mcgivern, K. W. Nichols, J. L. Markley, M. D. Sheets
Structural Basis For Rna Recognition By A Type Ii Poly(A)-Binding Protein.
Proc. Natl. Acad. Sci. Usa V. 105 15317 2008
PubMed-ID: 18824697  |  Reference-DOI: 10.1073/PNAS.0801274105

(-) Compounds

Molecule 1 - EMBRYONIC POLYADENYLATE-BINDING PROTEIN 2-B
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVP56K
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: PROTEASE-RESISTENT DOMAIN: RESIDUES 60-180
    Gene: EPABP2-B
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
    Synonym: EMBRYONIC POLY(A)-BINDING PROTEIN 2-B, EMBRYONIC POLY(A)-BINDING PROTEIN TYPE II-B, EPABP2-B, XEPABP2-B
    Tissue: OOCYTE

 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 2JWN)

(-) Sites  (0, 0)

(no "Site" information available for 2JWN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

NMR Structure (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RRMPS50102 Eukaryotic RNA Recognition Motif (RRM) profile.EPA2B_XENLA93-170
 		  2A:37-114
B:37-114

(-) Exons   (0, 0)

(no "Exon" information available for 2JWN)

(-) 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:124
 aligned with EPA2B_XENLA | Q6TY21 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:124
                                    66        76        86        96       106       116       126       136       146       156       166       176    
          EPA2B_XENLA    57 STRPCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISSTDR 180
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------2jwnA01 A:13-112  [code=3.30.70.330, no name defined]                                               ------------ CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........................hhhhhhhhhhheeeeeee....hhhhhhhhhhh...eeeeeeeee......eeeeeeee.hhhhhhhhhh....ee..ee.eeee............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------RRM  PDB: A:37-114 UniProt: 93-170                                            ---------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jwn A   1 AIAPCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISSTDR 124
                                    10        20        30        40        50        60        70        80        90       100       110       120    


Chain B from PDB  Type:PROTEIN  Length:124
 aligned with EPA2B_XENLA | Q6TY21 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:124
                                    66        76        86        96       106       116       126       136       146       156       166       176    
          EPA2B_XENLA    57 STRPCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISSTDR 180
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------2jwnB01 B:13-112  [code=3.30.70.330, no name defined]                                               ------------ CATH domains
           Pfam domains (1) --------------------------------------RRM_1-2jwnB01 B:39-108                                                ---------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------RRM_1-2jwnB02 B:39-108                                                ---------------- Pfam domains (2)
         Sec.struct. author ..........................hhhhhhhhhhheeeeeeee...hhhhhhhhhhh...eeeeeeeee......eeeeeeee.hhhhhhhhhh...eee..eeeeeee............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------RRM  PDB: B:37-114 UniProt: 93-170                                            ---------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jwn B   1 AIAPCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISSTDR 124
                                    10        20        30        40        50        60        70        80        90       100       110       120
   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 2JWN)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: RRM (206)

(-) Gene Ontology  (6, 6)

NMR Structure(hide GO term definitions)
Chain A,B   (EPA2B_XENLA | Q6TY21)
molecular function
    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.
    GO:0008143    poly(A) binding    Interacting selectively and non-covalently with a sequence of adenylyl residues in an RNA molecule, such as the poly(A) tail, a sequence of adenylyl residues at the 3' end of eukaryotic mRNA.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
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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