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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL TROPOMYOSIN FRAGMENT WITH N- AND C-TERMINAL EXTENSIONS OF THE LEUCINE ZIPPER AT 1.8 ANGSTROMS RESOLUTION
 
Authors :  S. Minakata, Y. Nitanai, K. Maeda, N. Oda, K. Wakabayashi, Y. Maeda
Date :  23 Feb 07  (Deposition) - 04 Mar 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Destabilizing Cluster, Hydrophobic Core, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Minakata, Y. Nitanai, K. Maeda, N. Oda, K. Wakabayashi, Y. Maeda
Two Crystal Structures Of Tropomyosin C-Terminal Fragment 176-273: Exposure Of The Hydrophobic Core To The Solvent Destabilizes The Tropomyosin Molecule
To Be Published
PubMed: search

(-) 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 147-175, RESIDUES 176-301
    Mutation: YES
    Organism Common: BAKER'S YEAST, RABBIT
    Organism Scientific: SACCHAROMYCES CEREVISIAE, ORYCTOLAGUS CUNICULUS
    Organism Taxid: 4932,9986
    Other Details: N-TERMINAL SEQUENCE DATABASE RESIDUES 249-277 OF GCN4 LEUCINE ZIPPER AND THEN C-TERMINAL SEQUENCE DATABASE RESIDUES 176-273 OF RABBIT SKELETAL MUSCLE ALPHA-TROPOMYOSIN
    Strain: ,

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 2EFR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TROPOMYOSINPS00326 Tropomyosins signature.TPM1_RABIT232-240
 
 
 		  4A:232-240
B:232-240
C:232-240
D:232-240
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TROPOMYOSINPS00326 Tropomyosins signature.TPM1_RABIT232-240
 
 
 		  2A:232-240
B:232-240
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TROPOMYOSINPS00326 Tropomyosins signature.TPM1_RABIT232-240
 
 
 		  2-
-
C:232-240
D:232-240

(-) Exons   (0, 0)

(no "Exon" information available for 2EFR)

(-) 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:155
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:267
                                                                                                                                                                                                                                                                          275            276     284   
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274|        -     | 280   |   
           TPM1_RABIT    35 RSKQLEDELVSLQKKLKGTEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD--------------HALNDMTSI---   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh----------------------------------------------------hhhhhhhh-------------------------------------------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2efr A 147 RMKQLEDK----------------------------------------------------VEELLSKN-------------------------------------------------YHLEN-------EVAR----LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLENEVARLKKL 301
                                   | -         -         -         -         -         -|      | -         -         -         -         -       165 |     168  |    174       184       194       204       214       224       234       244       254       264       274       284       294       
                                 154                                                  155    162                                               163 167     168  |  172                                                                                                                                 
                                                                                                                                                              171                                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:154
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:266
                                                                                                                                                                                                                                                                         275            276     284   
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275         -    |  281  |   
           TPM1_RABIT    36 SKQLEDELVSLQKKLKGTEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD--------------HALNDMTSI---   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh----------------------------------------------------hhhhhhhh-------------------------------------------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2efr B 148 MKQLEDK----------------------------------------------------VEELLSKN-------------------------------------------------YHLEN-------EVAR----LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLENEVARLKKL 301
                                  |  -         -         -         -         -       155      |  -         -         -         -         -      |166|      169 |    |175       185       195       205       215       225       235       245       255       265       275       285       295      
                                154                                                  155    162                                               163 167     168  |  172                                                                                                                                 
                                                                                                                                                             171                                                                                                                                      


Chain C from PDB  Type:PROTEIN  Length:154
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:266
                                                                                                                                                                                                                                                                         275            276     284   
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275         -    |  281  |   
           TPM1_RABIT    36 SKQLEDELVSLQKKLKGTEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD--------------HALNDMTSI---   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh----------------------------------------------------hhhhhhhh-------------------------------------------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2efr C 148 MKQLEDK----------------------------------------------------VEELLSKN-------------------------------------------------YHLEN-------EVAR----LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLENEVARLKKL 301
                                  |  -         -         -         -         -       155      |  -         -         -         -         -      |166|      169 |    |175       185       195       205       215       225       235       245       255       265       275       285       295      
                                154                                                  155    162                                               163 167     168  |  172                                                                                                                                 
                                                                                                                                                             171                                                                                                                                      


Chain D from PDB  Type:PROTEIN  Length:155
 aligned with TPM1_RABIT | P58772 from UniProtKB/Swiss-Prot  Length:284

    Alignment length:267
                                                                                                                                                                                                                                                                          275            276     284   
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274|        -     | 280   |   
           TPM1_RABIT    35 RSKQLEDELVSLQKKLKGTEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD--------------HALNDMTSI---   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh----------------------------------------------------hhhhhhhh-------------------------------------------------hhhhh-------hhhh----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TROPOMYOS------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2efr D 147 RMKQLEDK----------------------------------------------------VEELLSKN-------------------------------------------------YHLEN-------EVAR----LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLENEVARLKKL 301
                                   | -         -         -         -         -         -|      | -         -         -         -         -       165 |     168  |    174       184       194       204       214       224       234       244       254       264       274       284       294       
                                 154                                                  155    162                                               163 167     168  |  172                                                                                                                                 
                                                                                                                                                              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  (0, 0)

(no "SCOP Domain" information available for 2EFR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (28, 28)

Asymmetric 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 2d3e 2dgc 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: 2d3e 2efs 2tma 2w49 2w4u 2z5h 2z5i 4a7f 4a7h 4a7l

(-) Related Entries Specified in the PDB File

2efs