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(-) Description

Title :  SOLUTION STRUCTURE OF CALCIUM LOADED S100A6 BOUND TO C-TERMINAL SIAH-1 INTERACTING PROTEIN
 
Authors :  Y. Lee, W. J. Chazin
Date :  06 Aug 07  (Deposition) - 19 Aug 08  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C,D  (20x)
Keywords :  S100A6, Siah-1 Interacting Protein, Ubiquitination, E3 Ligase Complex, Beta-Catenin, Calcium, Cell Cycle, Mitogen, Cytoplasm, Nucleus, Phosphorylation, Ubl Conjugation Pathway, Calcium Binding Protein/Antitumor Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. T. Lee, Y. N. Dimitrova, G. Schneider, W. B. Ridenour, S. Bhattacharya, S. E. Soss, R. M. Caprioli, A. Filipek, W. J. Chazin
Structure Of The S100A6 Complex With A Fragment From The C-Terminal Domain Of Siah-1 Interacting Protein: A Novel Mode For S100 Protein Target Recognition.
Biochemistry V. 47 10921 2008
PubMed-ID: 18803400  |  Reference-DOI: 10.1021/BI801233Z
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN S100-A6
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Vector: PET1120
    Gene: S100A6
    Organism Common: RABBIT
    Organism Scientific: ORYCTOLAGUS CUNICULUS
    Synonym: S100 CALCIUM-BINDING PROTEIN A6, CALCYCLIN, LUNG 10 KDA PROTEIN
 
Molecule 2 - CALCYCLIN-BINDING PROTEIN
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Vector: PBG102
    Fragment: S100A6 BINDING DOMAIN
    Gene: CACYBP, SIP
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Synonym: CACYBP, SIAH-INTERACTING PROTEIN

 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 2JTT)

(-) Sites  (0, 0)

(no "Site" information available for 2JTT)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (3, 6)

NMR Structure (3, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EF_HAND_2PS50222 EF-hand calcium-binding domain profile.S10A6_RABIT48-83
 		  2A:48-83
B:48-83
2S100_CABPPS00303 S-100/ICaBP type calcium binding protein signature.S10A6_RABIT56-77
 		  2A:56-77
B:56-77
3EF_HAND_1PS00018 EF-hand calcium-binding domain.S10A6_RABIT61-73
 		  2A:61-73
B:61-73

(-) Exons   (0, 0)

(no "Exon" information available for 2JTT)

(-) 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:90
 aligned with S10A6_RABIT | P30801 from UniProtKB/Swiss-Prot  Length:90

    Alignment length:90
                                    10        20        30        40        50        60        70        80        90
          S10A6_RABIT     1 MASPLDQAIGLLIGIFHKYSGKEGDKHTLSKKELKELIQKELTIGSKLQDAEIVKLMDDLDRNKDQEVNFQEYITFLGALAMIYNEALKG  90
               SCOP domains d2jtta_ A: Calcyclin (S100)                                                                SCOP domains
               CATH domains 2jttA00 A:1-90 EF-hand                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhhhh......hhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------------------------------------------EF_HAND_2  PDB: A:48-83             ------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------S100_CABP  PDB: A:56-7------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------EF_HAND_1    ----------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 2jtt A   1 MASPLDQAIGLLIGIFHKYSGKEGDKHTLSKKELKELIQKELTIGSKLQDAEIVKLMDDLDRNKDQEVNFQEYITFLGALAMIYNEALKG  90
                                    10        20        30        40        50        60        70        80        90


Chain B from PDB  Type:PROTEIN  Length:90
 aligned with S10A6_RABIT | P30801 from UniProtKB/Swiss-Prot  Length:90

    Alignment length:90
                                    10        20        30        40        50        60        70        80        90
          S10A6_RABIT     1 MASPLDQAIGLLIGIFHKYSGKEGDKHTLSKKELKELIQKELTIGSKLQDAEIVKLMDDLDRNKDQEVNFQEYITFLGALAMIYNEALKG  90
               SCOP domains d2jttb_ B: Calcyclin (S100)                                                                SCOP domains
               CATH domains 2jttB00 B:1-90 EF-hand                                                                     CATH domains
           Pfam domains (1) ----S_100-2jttB01 B:5-44                    ---------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----S_100-2jttB02 B:5-44                    ---------------------------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhhhh...hhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------------------------------------------EF_HAND_2  PDB: B:48-83             ------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------S100_CABP  PDB: B:56-7------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------EF_HAND_1    ----------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 2jtt B   1 MASPLDQAIGLLIGIFHKYSGKEGDKHTLSKKELKELIQKELTIGSKLQDAEIVKLMDDLDRNKDQEVNFQEYITFLGALAMIYNEALKG  90
                                    10        20        30        40        50        60        70        80        90


Chain C from PDB  Type:PROTEIN  Length:31
 aligned with CYBP_MOUSE | Q9CXW3 from UniProtKB/Swiss-Prot  Length:229

    Alignment length:31
                                   198       208       218 
           CYBP_MOUSE   189 SEGLMNVLKKIYEDGDDDMKRTINKAWVESR 219
               SCOP domains ------------------------------- SCOP domains
               CATH domains ------------------------------- CATH domains
               Pfam domains ------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh....hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
                 Transcript ------------------------------- Transcript
                 2jtt C 189 SEGLMNVLKKIYEDGDDDMKRTINKAWVESR 219
                                   198       208       218 


Chain D from PDB  Type:PROTEIN  Length:31
 aligned with CYBP_MOUSE | Q9CXW3 from UniProtKB/Swiss-Prot  Length:229

    Alignment length:31
                                   198       208       218 
           CYBP_MOUSE   189 SEGLMNVLKKIYEDGDDDMKRTINKAWVESR 219
               SCOP domains ------------------------------- SCOP domains
               CATH domains ------------------------------- CATH domains
           Pfam domains (1) SGS-2jttD01 D:189-219           Pfam domains (1)
           Pfam domains (2) SGS-2jttD02 D:189-219           Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhh...hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
                 Transcript ------------------------------- Transcript
                 2jtt D 189 SEGLMNVLKKIYEDGDDDMKRTINKAWVESR 219
                                   198       208       218
   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: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 4)

NMR Structure
(-)
Clan: EF_hand (270)
(-)
Clan: no clan defined [family: SGS] (1)
(-)
Family: SGS (1)
(-)
Mus musculus (Mouse) (1)
2aSGS-2jttD01D:189-219
2bSGS-2jttD02D:189-219

(-) Gene Ontology  (22, 26)

NMR Structure(hide GO term definitions)
Chain A,B   (S10A6_RABIT | P30801)
molecular function
    GO:0044548    S100 protein binding    Interacting selectively and non-covalently with a S100 protein. S100 is a small calcium and zinc binding protein produced in astrocytes that is implicated in Alzheimer's disease, Down Syndrome and ALS.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0048306    calcium-dependent 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), in the presence of calcium.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
    GO:0005523    tropomyosin binding    Interacting selectively and non-covalently with tropomyosin, a protein associated with actin filaments both in cytoplasm and, in association with troponin, in the thin filament of striated muscle.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    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:0031234    extrinsic component of cytoplasmic side of plasma membrane    The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005635    nuclear envelope    The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
    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:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0001726    ruffle    Projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork.

Chain C,D   (CYBP_MOUSE | Q9CXW3)
molecular function
    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).
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
cellular component
    GO:0030877    beta-catenin destruction complex    A cytoplasmic protein complex containing glycogen synthase kinase-3-beta (GSK-3-beta), the adenomatous polyposis coli protein (APC), and the scaffolding protein axin, among others; phosphorylates beta-catenin, targets it for degradation by the proteasome.
    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:0005641    nuclear envelope lumen    The region between the two lipid bilayers of the nuclear envelope; 20-40 nm wide.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CYBP_MOUSE | Q9CXW3: 1ysm
        S10A6_RABIT | P30801: 1a03 1cnp 1jwd 2cnp

(-) Related Entries Specified in the PDB File

1jwd ENTRY CONTAINING RESTRAINTS OF S100A6