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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL FRAGMENT OF RABBIT SKELETAL ALPHA-TROPOMYOSIN
 
Authors :  Y. Nitanai, K. Maeda, N. Oda, S. Minakata, Y. Maeda
Date :  27 Sep 05  (Deposition) - 12 Sep 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Coiled Coil, Alanine Cluster, Bendable Region, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nitanai, K. Maeda, N. Oda, S. Minakata, Y. Maeda
The Crystal Structure Of C-Terminal Fragment Of Rabbit Skeletal Alpha-Tropomyosin; Crystallographic Evidence Of Tropomyosin Bending
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GENERAL CONTROL PROTEIN GCN4 AND TROPOMYOSIN 1 ALPHA CHAIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET3D
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 151-175, RESIDUES 176-284
    Organism Common: BAKER'S YEAST, RABBIT
    Organism Scientific: SACCHAROMYCES CEREVISIAE, ORYCTOLAGUS CUNICULUS
    Organism Taxid: 4932,9986
    Other Details: N-TERMINAL METHIONINE FOLLOWED BY SEQUENCE DATABASE RESIDUES 254-278 OF GCN4 LEUCINE ZIPPER AND THEN C-TERMINAL SEQUENCE DATABASE RESIDUES 176-284 OF RABBIT SKELETAL MUSCLE ALPHA-TROPOMYOSIN
    Strain: ,
    Synonym: ALPHA-TROPOMYOSIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2D3E)

(-) Sites  (0, 0)

(no "Site" information available for 2D3E)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2D3E)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2D3E)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2D3E)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TROPOMYOSINPS00326 Tropomyosins signature.TPM1_RABIT232-240
 
 
 		  4A:232-240
B:232-240
C:232-240
D:232-240

(-) Exons   (0, 0)

(no "Exon" information available for 2D3E)

(-) 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    
   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:130
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:183
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279   
           TPM1_RABIT   100 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
               SCOP domains ------------------------------------d2              d3ea1        A:1    61-282 Tropomyosin                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh----------------------------hh--------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d3e A 153 DKVEELLS----------------------------KN--------------YHLEN-------EVAR----LKKLLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
                                   | -         -         -      || -         -  |   |  -    |  | -  |    179       189       199       209       219       229       239       249       259       269       279   
                                 160                          161|            163 167     168  |  172                                                                                                              
                                                               162                           171                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:130
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:183
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279   
           TPM1_RABIT   100 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
               SCOP domains d2d3eb_                             B:               Trop       omyo    sin                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh----------------------------hh--------------hhhhh-------hhhh----hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d3e B 153 DKVEELLS----------------------------KN--------------YHLEN-------EVAR----LKKLLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
                                   | -         -         -      || -         -  |   |  -    |  | -  |    179       189       199       209       219       229       239       249       259       269       279   
                                 160                          161|            163 167     168  |  172                                                                                                              
                                                               162                           171                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:130
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:183
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279   
           TPM1_RABIT   100 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
               SCOP domains d2d3ec_                             C:               Trop       omyo    sin                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh----------------------------hh--------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d3e C 153 DKVEELLS----------------------------KN--------------YHLEN-------EVAR----LKKLLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
                                   | -         -         -      || -         -  |   |  -    |  | -  |    179       189       199       209       219       229       239       249       259       269       279   
                                 160                          161|            163 167     168  |  172                                                                                                              
                                                               162                           171                                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:130
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:183
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279   
           TPM1_RABIT   100 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
               SCOP domains d2d3ed_                             D:               Trop       omyo    sin                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh----------------------------hh--------------hhhhh-------hhhh----hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d3e D 153 DKVEELLS----------------------------KN--------------YHLEN-------EVAR----LKKLLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282
                                   | -         -         -      || -         -  |   |  -    |  | -  |    179       189       199       209       219       229       239       249       259       269       279   
                                 160                          161|            163 167     168  |  172                                                                                                              
                                                               162                           171
   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, 4)

Asymmetric/Biological Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2D3E)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2D3E)

(-) Gene Ontology  (28, 28)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (TPM1_RABIT | P58772)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
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.

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  TPM1_RABIT | P58772
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 Related Entries

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

UniProtKB/Swiss-Prot
        GCN4_YEAST | P03069: 1ce9 1dgc 1env 1fav 1fmh 1gcl 1gcm 1gk6 1gzl 1ihq 1ij0 1ij1 1ij2 1ij3 1kql 1ld4 1llm 1nkn 1piq 1rb4 1rb5 1rb6 1swi 1tmz 1unt 1unu 1unv 1unw 1unx 1uny 1unz 1uo0 1uo1 1uo2 1uo3 1uo4 1uo5 1w5g 1w5h 1w5i 1w5j 1w5k 1w5l 1ysa 1zii 1zij 1zik 1zil 1zim 1zta 2ahp 2b1f 2b22 2bni 2cce 2ccf 2ccn 2dgc 2efr 2efs 2g9j 2hy6 2ipz 2k8x 2lpb 2n9b 2nrn 2o7h 2ovn 2vky 2vnl 2wg5 2wg6 2wpy 2wpz 2wq0 2wq1 2wq2 2wq3 2yny 2ynz 2yo0 2yo1 2yo2 2yo3 2z5h 2z5i 2zta 3azd 3bas 3bat 3ck4 3crp 3g9r 3gjp 3i1g 3i5c 3k7z 3m48 3p8m 3zmf 4c46 4dmd 4g2k 4hu5 4hu6 4niz 4nj0 4nj1 4nj2 4owi 4tl1 5app 5apq 5aps 5apt 5apu 5apv 5apw 5apx 5apy 5apz 5iew 5iir 5iiv 5kht
        TPM1_RABIT | P58772: 2efr 2efs 2tma 2w49 2w4u 2z5h 2z5i 4a7f 4a7h 4a7l

(-) Related Entries Specified in the PDB File

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