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(-) Description

Title :  SOLUTION STRUCTURE OF HUMAN TRANSLATIONALLY CONTROLLED TUMOR PROTEIN
 
Authors :  Y. Feng, D. Liu, H. Yao, J. Wang
Date :  20 Jul 06  (Deposition) - 08 Aug 06  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Tumor Protein, Apoptosis, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Feng, D. Liu, H. Yao, J. Wang
Solution Structure And Mapping Of A Very Weak Calcium-Binding Site Of Human Translationally Controlled Tumor Protein By Nmr
Arch. Biochem. Biophys. V. 48 57 2007
PubMed-ID: 17897616  |  Reference-DOI: 10.1016/J.ABB.2007.08.021
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSLATIONALLY-CONTROLLED TUMOR PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET22B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneTPT1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTCTP, P23, HISTAMINE-RELEASING FACTOR, HRF, FORTILIN

 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 2HR9)

(-) Sites  (0, 0)

(no "Site" information available for 2HR9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2HR9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2HR9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_052273V146FTCTP_HUMANPolymorphism3087989AV146F

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (3, 3)

NMR Structure (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TCTP_3PS51797 Translationally controlled tumor protein (TCTP) domain profile.TCTP_HUMAN1-172  1A:1-172
2TCTP_1PS01002 Translationally controlled tumor protein (TCTP) domain signature 1.TCTP_HUMAN48-58  1A:48-58
3TCTP_2PS01003 Translationally controlled tumor protein (TCTP) domain signature 2.TCTP_HUMAN129-151  1A:129-151

(-) Exons   (0, 0)

(no "Exon" information available for 2HR9)

(-) 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:174
 aligned with TCTP_HUMAN | P13693 from UniProtKB/Swiss-Prot  Length:172

    Alignment length:174
                                                                                                                                                                                                     172  
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170 |  
           TCTP_HUMAN     1 MIIYRDLISHDEMFSDIYKIREIADGLCLEVEGKMVSRTEGNIDDSLIGGNASAEGPEGEGTESTVITGVDIVMNHHLQETSFTKEAYKKYIKDYMKSIKGKLEEQRPERVKPFMTGAAEQIKHILANFKNYQFFIGENMNPDGMVALLDYREDGVTPYMIFFKDGLEMEKC--   -
               SCOP domains d2hr9a_ A: Translationally controlled tumor protein TCTP (histamine-releasing factor)                                                                                          SCOP domains
               CATH domains 2hr9A01 A:1-169 Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A                                                                                       ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee.....eeee...eeeee....eeeee..ee................................eehhhhhh..eee..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.....eeee..........eeeee......eeeeee...eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------F---------------------------- SAPs(SNPs)
                PROSITE (1) TCTP_3  PDB: A:1-172 UniProt: 1-172                                                                                                                                         -- PROSITE (1)
                PROSITE (2) -----------------------------------------------TCTP_1     ----------------------------------------------------------------------TCTP_2  PDB: A:129-151 ----------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2hr9 A   1 MIIYRDLISHDEMFSDIYKIREIADGLCLEVEGKMVSRTEGNIDDSLIGGNASAEGPEGEGTESTVITGVDIVMNHHLQETSFTKEAYKKYIKDYMKSIKGKLEEQRPERVKPFMTGAAEQIKHILANFKNYQFFIGENMNPDGMVALLDYREDGVTPYMIFFKDGLEMEKCLE 174
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170    

   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, 1)

NMR Structure

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2HR9)

(-) Gene Ontology  (14, 15)

NMR Structure(hide GO term definitions)
Chain A   (TCTP_HUMAN | P13693)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0006816    calcium ion transport    The directed movement of calcium (Ca) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006874    cellular calcium ion homeostasis    Any process involved in the maintenance of an internal steady state of calcium ions at the level of a cell.
    GO:0043066    negative regulation of apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
    GO:1902230    negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage    Any process that stops, prevents or reduces the frequency, rate or extent of intrinsic apoptotic signaling pathway in response to DNA damage.
    GO:0042981    regulation of apoptotic process    Any process that modulates the occurrence or rate of cell death by apoptotic process.
    GO:0009615    response to virus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a virus.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005771    multivesicular body    A type of endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0045298    tubulin complex    A heterodimer of tubulins alpha and beta that constitutes the protomer for microtubule assembly.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TCTP_HUMAN | P136931yz1 3ebm 4z9v

(-) Related Entries Specified in the PDB File

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