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(-) Description

Title :  BACILLUS HALODURANS TRP RNA-BINDING ATTENUATION PROTEIN (TRAP): A 12-SUBUNIT ASSEMBLY
 
Authors :  C. Chen, C. Smits, G. G. Dodson, M. B. Shevtsov, N. Merlino, P. Gollnick, A. A. Antson
Date :  01 Sep 11  (Deposition) - 12 Oct 11  (Release) - 26 Oct 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.67
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (4x)
Keywords :  Transcription, Transcription Regulation, Protein Engineering (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chen, C. Smits, G. G. Dodson, M. B. Shevtsov, N. Merlino, P. Gollnick A. A. Antson
How To Change The Oligomeric State Of A Circular Protein Assembly: Switch From 11-Subunit To 12-Subunit Trap Suggests A General Mechanism
Plos One V. 6 25296 2011
PubMed-ID: 21984911  |  Reference-DOI: 10.1371/JOURNAL.PONE.0025296

(-) Compounds

Molecule 1 - TRANSCRIPTION ATTENUATION PROTEIN MTRB
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector: PET17B
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665
    Other Details: POLYPEPTIDE INCLUDING RESIDUE 7-76
    Synonym: TRP RNA-BINDING ATTENUATION PROTEIN, TRAP, TRYPTOPHAN RNA-BINDING ATTENUATOR PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (4x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1TRP6Ligand/IonTRYPTOPHAN
Biological Unit 1 (1, 24)
No.NameCountTypeFull Name
1TRP24Ligand/IonTRYPTOPHAN

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:23 , GLN A:47 , THR A:49 , THR A:52 , VAL A:55 , HOH A:2060 , THR C:25 , ARG C:26 , GLY C:27 , ASP C:29 , THR C:30 , SER C:53BINDING SITE FOR RESIDUE TRP A 81
2AC2SOFTWARESER A:7 , ASN A:8 , ARG A:26 , PHE A:48 , THR A:49 , GLU A:50 , HOH A:2001 , HOH A:2078 , HOH A:2079 , HOH A:2080 , HOH A:2082 , GLN B:47BINDING SITE FOR RESIDUE TRP A 100
3AC3SOFTWARETHR A:25 , ARG A:26 , GLY A:27 , ASP A:29 , THR A:30 , SER A:53 , HOH A:2033 , GLY B:23 , ALA B:46 , GLN B:47 , THR B:49 , THR B:52BINDING SITE FOR RESIDUE TRP B 81
4AC4SOFTWARESER B:7 , ARG B:26 , PHE B:48 , THR B:49 , GLU B:50 , HOH B:2002 , HOH B:2088 , HOH B:2090 , GLN C:47BINDING SITE FOR RESIDUE TRP B 100
5AC5SOFTWARETHR B:25 , ARG B:26 , GLY B:27 , ASP B:29 , THR B:30 , SER B:53 , HOH B:2033 , GLY C:23 , GLN C:47 , THR C:49 , THR C:52 , VAL C:55BINDING SITE FOR RESIDUE TRP C 81
6AC6SOFTWAREGLN A:47 , HOH A:2002 , HOH B:2090 , SER C:7 , ASN C:8 , ARG C:26 , PHE C:48 , THR C:49 , GLU C:50 , HOH C:2001 , HOH C:2057 , HOH C:2058BINDING SITE FOR RESIDUE TRP C 100

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3ZZL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3ZZL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ZZL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3ZZL)

(-) Exons   (0, 0)

(no "Exon" information available for 3ZZL)

(-) Sequences/Alignments

Asymmetric Unit
   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:70
 aligned with MTRB_BACHD | Q9KCC6 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:70
                                    16        26        36        46        56        66        76
            MTRB_BACHD    7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
               SCOP domains d3zzla_ A: automated matches                                           SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....eeeeeee......eeeeeee....eeeee....eeeeeee..eeeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3zzl A  7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
                                    16        26        36        46        56        66        76


Chain B from PDB  Type:PROTEIN  Length:70
 aligned with MTRB_BACHD | Q9KCC6 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:70
                                    16        26        36        46        56        66        76
            MTRB_BACHD    7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
               SCOP domains d3zzlb_ B: automated matches                                           SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....eeeeeee......eeeeeee....eeeee....eeeeeee..eeeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3zzl B  7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
                                    16        26        36        46        56        66        76


Chain C from PDB  Type:PROTEIN  Length:70
 aligned with MTRB_BACHD | Q9KCC6 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:70
                                    16        26        36        46        56        66        76
            MTRB_BACHD    7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
               SCOP domains d3zzlc_ C: automated matches                                           SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....eeeeeee......eeeeeee....eeeee....eeeeeee..eeeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3zzl C  7 SNFFVIKAKENGVNVFGMTRGTDTRFHHSEKLDKGEVMIAQFTEHTSAVKIRGKAIIQTSYGTLDTEKDE 76
                                    16        26        36        46        56        66        76
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 3)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3ZZL)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZZL)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (MTRB_BACHD | Q9KCC6)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0006353    DNA-templated transcription, termination    The cellular process that completes DNA-templated transcription; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
    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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 Related Entries

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(-) Related Entries Specified in the PDB File

3zzq ENGINEERED 12-SUBUNIT BACILLUS SUBTILIS TRP RNA-BINDING ATTENUATION PROTEIN (TRAP)