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(-) Description

Title :  STRUCTURAL BASIS OF THE NON-CODING RNA RSMZ ACTING AS PROTEIN SPONGE: CONFORMER L OF RSMZ(1-72)/RSME(DIMER) 1TO3 COMPLEX
 
Authors :  O. Duss, E. Michel, M. Yulikov, M. Schubert, G. Jeschke, F. H. -T. Allain
Date :  02 Oct 13  (Deposition) - 21 May 14  (Release) - 02 Jul 14  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C,D,E,F,G  (20x)
NMR Structure *:  A,B,C,D,E,F,G  (1x)
Keywords :  Protein/Rna, Non-Coding Rna, Translation Repressor Protein, Pseudomonas Aeruginosa, Messenger Rna, Protein Sequestration, Two Conformations, Rnase E Cleave Sites, Homo-Dimeric Proteins, Cooperativity, Multiple Protein Binding Sites, Translation Activation, Ribosome Binding Site, Large Solution Structure, Electron Paramagnetic Resonance, Protein Sponge, Rnp Assembly, Rna Binding Protein-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Duss, E. Michel, M. Yulikov, M. Schubert, G. Jeschke, F. H. Allain
Structural Basis Of The Non-Coding Rna Rsmz Acting As A Protein Sponge.
Nature V. 509 588 2014
PubMed-ID: 24828038  |  Reference-DOI: 10.1038/NATURE13271

(-) Compounds

Molecule 1 - CARBON STORAGE REGULATOR HOMOLOG
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET28A
    Gene: RSME, CSRA, PFL_2095
    Organism Scientific: PSEUDOMONAS PROTEGENS PF-5
    Organism Taxid: 220664
    Strain: CHA0
 
Molecule 2 - RNA_(72-MER)
    Chains: G
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234567
NMR Structure (20x): ABCDEFG
NMR Structure * (1x): ABCDEFG

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2MF0)

(-) Sites  (0, 0)

(no "Site" information available for 2MF0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2MF0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2MF0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2MF0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2MF0)

(-) Exons   (0, 0)

(no "Exon" information available for 2MF0)

(-) 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:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 A  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain B from PDB  Type:PROTEIN  Length:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 B  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain C from PDB  Type:PROTEIN  Length:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 C  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain D from PDB  Type:PROTEIN  Length:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 D  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain E from PDB  Type:PROTEIN  Length:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 E  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain F from PDB  Type:PROTEIN  Length:59
 aligned with Q4KEY0_PSEF5 | Q4KEY0 from UniProtKB/TrEMBL  Length:64

    Alignment length:59
                                    10        20        30        40        50         
          Q4KEY0_PSEF5    1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
               SCOP domains ----------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeee...eeeeeeeee..eeeeeee......eeehhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2mf0 F  1 MLILTRKVGESINIGDDITITILGVSGQQVRIGINAPKDVAVHREEIYQRIQAGLTAPD 59
                                    10        20        30        40        50         


Chain G from PDB  Type:RNA  Length:72
                                                                                                       
                  2mf0 G  1 UGUCGACGGAUAGACACAGCCAUCAAGGACGAUGGUCAGGACAUCGCAGGAAGCGAUUCAUCAGGACGAUGA 72
                                    10        20        30        40        50        60        70
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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 2MF0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2MF0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2MF0)

(-) Gene Ontology  (3, 3)

NMR Structure(hide GO term definitions)
Chain A,B,C,D,E,F   (Q4KEY0_PSEF5 | Q4KEY0)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0006402    mRNA catabolic process    The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes.
    GO:0006109    regulation of carbohydrate metabolic process    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving carbohydrates.

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 Related Entries

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

UniProtKB/TrEMBL
        Q4KEY0_PSEF5 | Q4KEY0: 2mf1

(-) Related Entries Specified in the PDB File

2mf1