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(-) Description

Title :  CRYSTAL STURUCTURE OF TT0801 FROM THERMUS THERMOPHILUS
 
Authors :  Y. Bessho, R. Shibata, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  29 May 04  (Deposition) - 29 Nov 04  (Release) - 21 Oct 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Rna Binding Protein, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Bessho, R. Shibata, S. Sekine, K. Murayama, K. Higashijima, C. Hori-Takemoto, M. Shirouzu, S. Kuramitsu, S. Yokoyama
Structural Basis For Functional Mimicry Of Long-Variable-Arm Trna By Transfer-Messenger Rna.
Proc. Natl. Acad. Sci. Usa V. 104 8293 2007
PubMed-ID: 17488812  |  Reference-DOI: 10.1073/PNAS.0700402104
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SSRA-BINDING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-122
    Gene: TT0801
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274
    Synonym: SMALL PROTEIN B

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:11 , ASP A:12 , HIS A:81 , HIS A:83BINDING SITE FOR RESIDUE K A 151

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SSRPPS01317 SsrA-binding protein.SSRP_THET822-34  1A:21-33

(-) Exons   (0, 0)

(no "Exon" information available for 1WJX)

(-) Sequences/Alignments

Asymmetric/Biological 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    
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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:112
 aligned with SSRP_THET8 | Q8RR57 from UniProtKB/Swiss-Prot  Length:144

    Alignment length:120
                                    13        23        33        43        53        63        73        83        93       103       113       123
           SSRP_THET8     4 VLENRRARHDYEILETYEAGIALKGTEVKSLRAGKVDFTGSFARFEDGELYLENLYIAPYEKGSYANVDPRRKRKLLLHKHELRRLLGKVEQKGLTLVPLKIYFNERGYAKVLLGLARGK 123
               SCOP domains d1wjxa_ A: Small protein B (SmpB)                                                                                        SCOP domains
               CATH domains 1wjxA00 A:3-122  [code=2.40.280.10, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eehhhhhhheeeeeeeeeee....hhhhhhhh..ee....eeeee..eeeee..ee..--------......eeee.hhhhhhhhh.......eeeeeeeeee.....eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------SSRP         ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 1wjx A   3 VLENRRARHDYEILETYEAGIALKGTEVKSLRAGKVDFTGSFARFEDGELYLENLYIAP--------VDPRRKRKLLLHKHELRRLLGKVEQKGLTLVPLKIYFNERGYAKVLLGLARGK 122
                                    12        22        32        42        52        |-       |72        82        92       102       112       122
                                                                                     61       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  (1, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SSRP_THET8 | Q8RR57)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0019843    rRNA binding    Interacting selectively and non-covalently with ribosomal RNA.
biological process
    GO:0070929    trans-translation    A translational elongation process in which transfer of a translating ribosome from one mRNA to another RNA template takes place. Trans-translation occurs during tmRNA release of stalled ribosomes.
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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  1wjx
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  SSRP_THET8 | Q8RR57
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 Related Entries

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

UniProtKB/Swiss-Prot
        SSRP_THET8 | Q8RR57: 1j1h 2czj 3iyq 3iyr 3iz4 4v6t 4v8q

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1WJX)