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(-) Description

Title :  TM9A251-284: A PEPTIDE MODEL OF THE C-TERMINUS OF A RAT STRIATED ALPHA TROPOMYOSIN
 
Authors :  N. J. Greenfield, G. V. T. Swapna, Y. Huang, T. Palm, S. Graboski, G. T. Montelione, S. E. Hitchcock-Degregori
Date :  24 Sep 02  (Deposition) - 18 Feb 03  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (10x)
Keywords :  Tropomyosin, Exon 9A, Actin-Binding, Troponin Binding, Muscle, Alpha-Helix, Coiled-Coil, Dimer, Peptide-Model, Two- Chained, Disulfide Cross-Linked, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. J. Greenfield, G. V. T. Swapna, Y. Huang, T. Palm, S. Graboski, G. T. Montelione, S. E. Hitchcock-Degregori
The Structure Of The Carboxyl Terminus Of Striated Alpha-Tropomyosin In Solution Reveals An Unusual Parallel Arrangement Of Interacting Alpha-Helices
Biochemistry V. 42 614 2003
PubMed-ID: 12534273  |  Reference-DOI: 10.1021/BI026989E
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TROPOMYOSIN 1 ALPHA CHAIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTA
    Expression System Strain: DH5
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL (RESIDUES 251-284)
    Gene: TPM1
    Organism Common: NORWAY RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: ALPHA-TROPOMYOSIN
    Tissue: SKELETAL MUSCLE

 Structural Features

(-) Chains, Units

  
NMR Structure (10x): 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1MV4)

(-) Sites  (0, 0)

(no "Site" information available for 1MV4)

(-) SS Bonds  (1, 1)

NMR Structure
No.Residues
1A:249 -B:249

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MV4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MV4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1MV4)

(-) Exons   (3, 6)

NMR Structure (3, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSRNOT000000408081ENSRNOE00000390314chr8:71358063-71357844220TPM1_RAT1-38380--
1.2ENSRNOT000000408082ENSRNOE00000176519chr8:71357072-71356947126TPM1_RAT39-80420--
1.5ENSRNOT000000408085ENSRNOE00000289049chr8:71344964-71344831134TPM1_RAT81-125450--
1.6ENSRNOT000000408086ENSRNOE00000337985chr8:71342905-71342788118TPM1_RAT125-164400--
1.7ENSRNOT000000408087ENSRNOE00000229797chr8:71341716-7134164671TPM1_RAT165-188240--
1.8ENSRNOT000000408088ENSRNOE00000176098chr8:71341393-7134131876TPM1_RAT188-213262A:248-250 (gaps)
B:248-250 (gaps)		4
4
1.10ENSRNOT0000004080810ENSRNOE00000310303chr8:71340384-7134032263TPM1_RAT214-234210--
1.11ENSRNOT0000004080811ENSRNOE00000229785chr8:71340066-7133999770TPM1_RAT235-258242A:251-258
B:251-258		8
8
1.15ENSRNOT0000004080815ENSRNOE00000322655chr8:71332155-71331307849TPM1_RAT258-284272A:258-284
B:258-284		27
27

(-) 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:37
 aligned with TPM1_RAT | P04692 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:97
                                   197       207       217       227       237       247       257       267       277       
             TPM1_RAT   188 GKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMTSI 284
               SCOP domains d 1m                                                           v4a_ A: Tropomyosin                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-..-----------------------------------------------------------..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1-------------------------Exon 1.10  PDB: -    Exon 1.11  PDB: A:251-25-------------------------- Transcript 1 (1)
           Transcript 1 (2) Exon 1.8 UniProt: 188-213 --------------------------------------------Exon 1.15  PDB: A:258-284   Transcript 1 (2)
                 1mv4 A 248 G-CG-----------------------------------------------------------KSIDDLEDELYAQKLKYKAISEELDHALKDMTSI 284
                            | ||     -         -         -         -         -         -   |   257       267       277       
                            | ||                                                         251                                 
                          248 ||                                                                                             
                            249|                                                                                             
                             250                                                                                             


Chain B from PDB  Type:PROTEIN  Length:37
 aligned with TPM1_RAT | P04692 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:97
                                   197       207       217       227       237       247       257       267       277       
             TPM1_RAT   188 GKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMTSI 284
               SCOP domains d 1m                                                           v4b_ B: Tropomyosin                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------Tropomyosin-1mv4B01 B:251-284      Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------Tropomyosin-1mv4B02 B:251-284      Pfam domains (2)
         Sec.struct. author .-..-----------------------------------------------------------..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1-------------------------Exon 1.10  PDB: -    Exon 1.11  PDB: B:251-25-------------------------- Transcript 1 (1)
           Transcript 1 (2) Exon 1.8 UniProt: 188-213 --------------------------------------------Exon 1.15  PDB: B:258-284   Transcript 1 (2)
                 1mv4 B 248 G-CG-----------------------------------------------------------KSIDDLEDELYAQKLKYKAISEELDHALKDMTSI 284
                            | ||     -         -         -         -         -         -   |   257       267       277       
                          248 ||                                                         251                                 
                            249|                                                                                             
                             250
   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: Coiled coil proteins (689)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1MV4)

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: Tropomyosin-lke (4)

(-) Gene Ontology  (18, 18)

NMR Structure(hide GO term definitions)
Chain A,B   (TPM1_RAT | P04692)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0051015    actin filament binding    Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
    GO:0047485    protein N-terminus binding    Interacting selectively and non-covalently with a protein N-terminus, the end of any peptide chain at which the 2-amino (or 2-imino) function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
    GO:0051693    actin filament capping    The binding of a protein or protein complex to the end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
    GO:0060048    cardiac muscle contraction    Muscle contraction of cardiac muscle tissue.
    GO:0006936    muscle contraction    A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis.
    GO:0030049    muscle filament sliding    The sliding of actin thin filaments and myosin thick filaments past each other in muscle contraction. This involves a process of interaction of myosin located on a thick filament with actin located on a thin filament. During this process ATP is split and forces are generated.
    GO:0030336    negative regulation of cell migration    Any process that stops, prevents, or reduces the frequency, rate or extent of cell migration.
    GO:0032781    positive regulation of ATPase activity    Any process that activates or increases the rate of ATP hydrolysis by an ATPase.
    GO:0045785    positive regulation of cell adhesion    Any process that activates or increases the frequency, rate or extent of cell adhesion.
    GO:0051496    positive regulation of stress fiber assembly    Any process that activates or increases the frequency, rate or extent of the assembly of a stress fiber, a bundle of microfilaments and other proteins found in fibroblasts.
    GO:0043462    regulation of ATPase activity    Any process that modulates the rate of ATP hydrolysis by an ATPase.
    GO:0031529    ruffle organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a ruffle, a projection at the leading edge of a crawling cell.
    GO:0042060    wound healing    The series of events that restore integrity to a damaged tissue, following an injury.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TPM1_RAT | P04692: 1ihq 1tmz 2b9c 2g9j 3azd

(-) Related Entries Specified in the PDB File

1ic2 1IC2 IS DECIPHERING THE DESIGN OF THE TROPOMYOSIN MOLECULE
1ihq 1IHQ IS GLYTM1BZIP: A CHIMERIC PEPTIDE MODEL OF THE N- TERMINUS OF A RAT SHORT ALPHA TROPOMYOSIN WITH THE N- TERMINUS ENCODED BY EXON 1B
1tmz 1TMZ IS TMZIP: A CHIMERIC PEPTIDE MODEL OF THE N-TERMINUS OF ALPHA TROPOMYOSIN, NMR, 15 STRUCTURES