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(-) Description

Title :  STRUCTURE OF THE LICT BACTERIAL ANTITERMINATOR PROTEIN IN COMPLEX WITH ITS RNA TARGET
 
Authors :  Y. Yang, N. Declerck, X. Manival, S. Aymerich, M. Kochoyan
Date :  15 Feb 02  (Deposition) - 27 Mar 02  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C
Keywords :  Protein Rna Complex, Antiterminator Complex, Rna Hairpin, Transcription/Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Yang, N. Declerck, X. Manival, S. Aymerich, M. Kochoyan
Solution Structure Of The Lict-Rna Antitermination Complex: Cat Clamping Rat.
Embo J. V. 21 1987 2002
PubMed-ID: 11953318  |  Reference-DOI: 10.1093/EMBOJ/21.8.1987
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTION ANTITERMINATOR LICT
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PGEX2T (AMERSHAM)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RNA BINDING DOMAIN (RESIDUES 1-55)
    Gene: LICT
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
 
Molecule 2 - LICT MRNA ANTITERMINATOR HAIRPIN
    Chains: C
    Engineered: YES
    Other Details: LICT MRNA ANTITERMINATOR HAIRPIN MUTATED IN APICAL LOOP AND BASAL STEM TO INCREASE STABILITY. OBTAINED BY IN VITRO TRANSCRIPTION AND CHEMICAL SYNTHESIS.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure : 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1L1C)

(-) Sites  (0, 0)

(no "Site" information available for 1L1C)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1L1C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1L1C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1L1C)

(-) 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:55
 aligned with LICT_BACSU | P39805 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:55
                                    10        20        30        40        50     
            LICT_BACSU    1 MKIAKVINNNVISVVNEQGKELVVMGRGLAFQKKSGDDVDEARIEKVFTLDNKDV 55
               SCOP domains d1l1ca_ A: LicT                                         SCOP domains
               CATH domains 1l1cA00 A:1-55 Transcription Regulation, Sacy; Chain A  CATH domains
               Pfam domains ------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeeee.....eeeee..............hhhhh.eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                  1l1c A  1 MKIAKVINNNVISVVNEQGKELVVMGRGLAFQKKSGDDVDEARIEKVFTLDNKDV 55
                                    10        20        30        40        50     


Chain B from PDB  Type:PROTEIN  Length:55
 aligned with LICT_BACSU | P39805 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:55
                                    10        20        30        40        50     
            LICT_BACSU    1 MKIAKVINNNVISVVNEQGKELVVMGRGLAFQKKSGDDVDEARIEKVFTLDNKDV 55
               SCOP domains d1l1cb_ B: LicT                                         SCOP domains
               CATH domains 1l1cB00 B:1-55 Transcription Regulation, Sacy; Chain A  CATH domains
           Pfam domains (1) CAT_RBD-1l1cB01 B:1-55                                  Pfam domains (1)
           Pfam domains (2) CAT_RBD-1l1cB02 B:1-55                                  Pfam domains (2)
         Sec.struct. author ..eeeeee..eeeee.....eeeee..............hhhhh.eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                  1l1c B  1 MKIAKVINNNVISVVNEQGKELVVMGRGLAFQKKSGDDVDEARIEKVFTLDNKDV 55
                                    10        20        30        40        50     


Chain C from PDB  Type:RNA  Length:29
                                                            
                  1l1c C  1 GGAUUGUUACUGCUACGGCAGGCAAAACC 29
                                    10        20
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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: All beta proteins (24004)

(-) CATH Domains  (1, 2)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: no clan defined [family: CAT_RBD] (2)

(-) Gene Ontology  (4, 4)

NMR Structure(hide GO term definitions)
Chain A,B   (LICT_BACSU | P39805)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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  1l1c
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 Related Entries

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

UniProtKB/Swiss-Prot
        LICT_BACSU | P39805: 1h99 1tlv

(-) Related Entries Specified in the PDB File

1auu RNA BINDING DOMAIN OF THE HOMOLOGUOUS PROTEIN SACY
1h99 ACTIVATED PRD DOMAIN OF THE LICT PROTEIN