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(-) Description

Title :  SOLUTION STRUCTURE OF RSGI RUH-034, A HOMEODOMAIN FROM MOUSE CDNA
 
Authors :  A. Z. M. Ruhul Momen, H. Onuki, H. Hirota, T. Tomizawa, S. Koshiba, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  20 May 05  (Deposition) - 20 Nov 05  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Homeodomain, Dna Binding Domain, Transcription, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Z. M. Ruhul Momen, H. Onuki, H. Hirota, T. Tomizawa, S. Koshiba, T. Kigawa, S. Yokoyama
Solution Structure Of Rsgi Ruh-034, A Homeodomain From Mouse Cdna
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LAG1 LONGEVITY ASSURANCE HOMOLOG 5
    ChainsA
    EngineeredYES
    Expression System PlasmidP040727-13
    Expression System Vector TypePLASMID
    FragmentRESIDUES 8-66
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    Other DetailsCELL-FREE PROTEIN SYNTHESIS (E. COLI)
    SynonymTRANSLOCATING CHAIN-ASSOCIATING MEMBRANE PROTEIN HOMOLOG 4, TRAM HOMOLOG 4, HOMEODOMAIN

 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 2CQX)

(-) Sites  (0, 0)

(no "Site" information available for 2CQX)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HOMEOBOX_2PS50071 'Homeobox' domain profile.CERS5_MOUSE92-136  1A:23-66
2TLCPS50922 TLC domain profile.CERS5_MOUSE139-340  1A:69-71

(-) Exons   (0, 0)

(no "Exon" information available for 2CQX)

(-) 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:72
 aligned with CERS5_MOUSE | Q9D6K9 from UniProtKB/Swiss-Prot  Length:414

    Alignment length:152
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183  
          CERS5_MOUSE    34 GPGDGYGYPRAQHVLSVFPLAVCIFSVRMLFERFIAKPCALRVGIKDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPPTLTKFCESMWRFTYYLCIFCYGIRFLWSMPWFWDTRQCWYNYPYQPLSR 185
               SCOP domains -------------------------------------------d2cqxa1 A:8-66 LAG1 longevity assurance homolog 5, LASS5   -------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......------------------------------------.............hhhhhhhhhh.....hhhhhhhhhhh...hhhhhhhhhhhhhhh...--------------------------------------------..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------HOMEOBOX_2  PDB: A:23-66 UniProt: 92-136     --TLC  PDB: A:69-71 UniProt: 139-340              PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cqx A   1 GSSGSSG------------------------------------GIKDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS--------------------------------------------GPSSG  72
                                  |  -         -         -         -   |    14        24        34        44        54        64  |      -         -         -         -       |70  
                                  7                                    8                                                         67                                           68    

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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  (1, 1)

NMR Structure

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (CERS5_MOUSE | Q9D6K9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0050291    sphingosine N-acyltransferase activity    Catalysis of the reaction: acyl-CoA + sphingosine = CoA + N-acylsphingosine.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0046513    ceramide biosynthetic process    The chemical reactions and pathways resulting in the formation of ceramides, any N-acylated sphingoid.
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0030148    sphingolipid biosynthetic process    The chemical reactions and pathways resulting in the formation of sphingolipids, any of a class of lipids containing the long-chain amine diol sphingosine or a closely related base (a sphingoid).
    GO:0006665    sphingolipid metabolic process    The chemical reactions and pathways involving sphingolipids, any of a class of lipids containing the long-chain amine diol sphingosine or a closely related base (a sphingoid).
cellular component
    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:0005789    endoplasmic reticulum membrane    The lipid bilayer surrounding the endoplasmic reticulum.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0031965    nuclear membrane    Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane 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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CERS5_MOUSE | Q9D6K95e8n 5e8o 5e8p

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