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(-) Description

Title :  STRUCTURED DOMAIN OF DROSOPHILA MELANOGASTER BOCA P65 2 2 CRYSTAL FORM
 
Authors :  M. N. Collins, W. A. Hendrickson
Date :  14 Aug 10  (Deposition) - 02 Mar 11  (Release) - 02 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Mesd, Molecular Chaperone, Protein Folding, Ywtd Propeller, Lrp, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. N. Collins, W. A. Hendrickson
Structural Characterization Of The Boca/Mesd Maturation Factors For Ldl-Receptor-Type Beta-Propeller Domains
Structure 2011
PubMed: search

(-) Compounds

Molecule 1 - LDLR CHAPERONE BOCA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SEQUENCE DATABASE RESIDUES 88-172
    Gene: BOCA, CG30498
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
3NA1Ligand/IonSODIUM ION
4SO43Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:21 , THR A:101 , GLY A:102 , LYS A:161 , NA A:174BINDING SITE FOR RESIDUE SO4 A 1
2AC2SOFTWAREHOH A:13 , HOH A:15 , HOH A:19 , GLN A:146BINDING SITE FOR RESIDUE SO4 A 2
3AC3SOFTWAREHOH A:33 , GLY A:102 , ASN A:103 , ARG A:159 , LYS A:168BINDING SITE FOR RESIDUE SO4 A 3
4AC4SOFTWARELYS A:89 , GLY A:91 , ARG A:92 , THR A:93BINDING SITE FOR RESIDUE ACT A 173
5AC5SOFTWARESO4 A:1BINDING SITE FOR RESIDUE NA A 174

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OFF)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OFF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OFF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OFF)

(-) Exons   (0, 0)

(no "Exon" information available for 3OFF)

(-) 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    
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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:85
 aligned with MESD_DROME | Q8T9B6 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:85
                                    97       107       117       127       137       147       157       167     
           MESD_DROME    88 SKKGRTLMTFVSVTGNPTREESDTITKLWQTSLWNNHIQAERYMVDDNRAIFLFKDGTQAWDAKDFLIEQERCKGVTIENKEYPG 172
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains -Mesd-3offA01 A:89-172                                                                Pfam domains
         Sec.struct. author ......eeeeeee....hhhhhhhhhhhhhhhhhhh...eeeeeee..eeeeee.hhhhhhhhhhhhh....eeeeee..eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 3off A  88 mKKGRTLmTFVSVTGNPTREESDTITKLWQTSLWNNHIQAERYmVDDNRAIFLFKDGTQAWDAKDFLIEQERCKGVTIENKEYPG 172
                            |      |97       107       117       127   |   137       147       157       167     
                            |     95-MSE                             131-MSE                                     
                           88-MSE
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  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 3OFF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OFF)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Mesd] (8)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MESD_DROME | Q8T9B6)
biological process
    GO:0006888    ER to Golgi vesicle-mediated transport    The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.
    GO:0016055    Wnt signaling pathway    The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell and ending with a change in cell state.
    GO:0032799    low-density lipoprotein receptor particle metabolic process    The chemical reactions and pathways involving low-density lipoprotein receptors.
    GO:0048477    oogenesis    The complete process of formation and maturation of an ovum or female gamete from a primordial female germ cell. Examples of this process are found in Mus musculus and Drosophila melanogaster.
    GO:0048728    proboscis development    The process whose specific outcome is the progression of the proboscis over time, from its formation to the mature structure.
    GO:0006612    protein targeting to membrane    The process of directing proteins towards a membrane, usually using signals contained within the protein.
cellular component
    GO:0045177    apical part of cell    The region of a polarized cell that forms a tip or is distal to a base. For example, in a polarized epithelial cell, the apical region has an exposed surface and lies opposite to the basal lamina that separates the epithelium from other tissue.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0012505    endomembrane system    A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi bodies, vesicles, cell membrane and nuclear envelope. Members of the endomembrane system pass materials through each other or though the use of vesicles.
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    GO:0005788    endoplasmic reticulum lumen    The volume enclosed by the membranes of the endoplasmic reticulum.

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  3off
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 Related Entries

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

UniProtKB/Swiss-Prot
        MESD_DROME | Q8T9B6: 3ofe

(-) Related Entries Specified in the PDB File

2i9s NMR SOLUTION STRUCTURE OF MESD STRUCTURE DOMAIN
2rqk NMR SOLUTION STRUCTURE OF MESD
2rqm NMR SOLUTION STRUCTURE OF MESD
3ofe ORTHOLOG
3ofg ORTHOLOG
3ofh ORTHOLOG