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(-) Description

Title :  MOLECULAR BASIS FOR THE AUTOREGULATION OF THE PROTEIN ACETYL TRANSFERASE RTT109
 
Authors :  A. Hoelz, P. Stavropoulos
Date :  28 Apr 08  (Deposition) - 09 Sep 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Chromatin Stability, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Stavropoulos, V. Nagy, G. Blobel, A. Hoelz
Molecular Basis For The Autoregulation Of The Protein Acety Transferase Rtt109
Proc. Natl. Acad. Sci. Usa V. 105 12236 2008
PubMed-ID: 18719104  |  Reference-DOI: 10.1073/PNAS.0805813105

(-) Compounds

Molecule 1 - REGULATOR OF TY1 TRANSPOSITION PROTEIN 109
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Cell LineBL21-CODONPLUS(DE3)-RIL
    Expression System VectorPET28A
    GeneRTT109, KIM2, REM50
    Organism CommonYEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1ACO1Ligand/IonACETYL COENZYME *A
2ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
3MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:87 , ALA A:88 , ASP A:89 , THR A:90 , VAL A:98 , SER A:99 , VAL A:100 , ARG A:101 , PHE A:192 , ARG A:194 , PRO A:195 , ALA A:196 , TYR A:199 , LYS A:210 , HIS A:211 , ILE A:212 , LEU A:213 , LEU A:218 , TRP A:221 , TRP A:222 , HOH A:413 , HOH A:549 , HOH A:560 , HOH A:569 , HOH A:587BINDING SITE FOR RESIDUE ACO A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3CZ7)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:127B-Ser A:127C

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3CZ7)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RTT109_HATPS51728 Rtt109-type histone acetyltransferase (HAT) domain profile.RT109_YEAST2-404  1A:2-403

(-) Exons   (0, 0)

(no "Exon" information available for 3CZ7)

(-) 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:364
 aligned with RT109_YEAST | Q07794 from UniProtKB/Swiss-Prot  Length:436

    Alignment length:403
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400   
         RT109_YEAST      1 MSLNDFLSSVLPVSEQFEYLSLQSIPLETHAVVTPNKDDKRVPKSTIKTQHFFSLFHQGKVFFSLEVYVYVTLWDEADAERLIFVSKADTNGYCNTRVSVRDITKIILEFILSIDPNYYLQKVKPAIRSYKKISPELISAASTPARTLRILARRLKQSGSTVLKEIESPRFQQDLYLSFTCPREILTKICLFTRPASQYLFPDSSKNSKKHILNGEELMKWWGFILDRLLIECFQNDTQAKLRIPGEDPARVRSYLRGMKYPLWQVGDIFTSKENSLAVYNIPLFPDDPKARFIHQLAEEDRLLKVSLSSFWIELQERQEFKLSVTSSVMGISGYSLATPSLFPSSADVIVPKSRKQFRAIKKYITGEEYDTEEGAIEAFTNIRDFLLLRMATNLQSLTGKRE  403
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh....eeeeeeee...eee...............eeeeeeeeeeeee..eeeeeeeeeeeeeeee..eeeeeeeeeeeee........hhhhhhhhhhhhhhh..hhhhhh.......----------------------------...-----------...............eeeeeeee.........hhhhh......hhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhh......eee.....hhhhhhhhhh......hhhhhhhhhhhhh......hhhhhhhhhhhh.........eeeeeee...................hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh...eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -RTT109_HAT  PDB: A:2-403 UniProt: 2-404                                                                                                                                                                                                                                                                                                                                                                            PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3cz7 A    1 mSLNDFLSSVLPVSEQFEYLSLQSIPLETHAVVTPNKDDKRVPKSTIKTQHFFSLFHQGKVFFSLEVYVYVTLWDEADAERLIFVSKADTNGYCNTRVSVRDITKIILEFILSIDPNYYLQKVKPAIG----------------------------GSG-----------FQQDLYLSFTCPREILTKICLFTRPASQYLFPDSSKNSKKHILNGEELmKWWGFILDRLLIECFQNDTQAKLRIPGEDPARVRSYLRGmKYPLWQVGDIFTSKENSLAVYNIPLFPDDPkARFIHQLAEEDRLLKVSLSSFWIELQERQEFKLSVTSSVmGISGYSLATPSLFPSSADVIVPKSRKQFRAIKKYITGEEYDTEEGAIEAFTNIRDFLLLRmATNLQSLTGKRE  403
                            |       10        20        30        40        50        60        70        80        90       100       110       120       | -         -         -      |||-         -|      180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390|      400   
                            |                                                                                                                           127A                         127B||         171                                             219-MSE                                 259-MSE                        290-ALY                                 330-MSE                                                      391-MSE        
                            1-MSE                                                                                                                                                     127C|                                                                                                                                                                                                                                                    
                                                                                                                                                                                       127D                                                                                                                                                                                                                                                    

   Legend:   → Mismatch (orange background)
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  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 3CZ7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3CZ7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3CZ7)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RT109_YEAST | Q07794)
molecular function
    GO:0010484    H3 histone acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + histone H3 = CoA + acetyl-histone H3.
    GO:0004402    histone acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + histone = CoA + acetyl-histone.
    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:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0006303    double-strand break repair via nonhomologous end joining    The repair of a double-strand break in DNA in which the two broken ends are rejoined with little or no sequence complementarity. Information at the DNA ends may be lost due to the modification of broken DNA ends. This term covers instances of separate pathways, called classical (or canonical) and alternative nonhomologous end joining (C-NHEJ and A-NHEJ). These in turn may further branch into sub-pathways, but evidence is still unclear.
    GO:0043966    histone H3 acetylation    The modification of histone H3 by the addition of an acetyl group.
    GO:0016573    histone acetylation    The modification of a histone by the addition of an acetyl group.
    GO:0043007    maintenance of rDNA    Any process involved in sustaining the fidelity and copy number of rDNA repeats.
    GO:0010526    negative regulation of transposition, RNA-mediated    Any process that decreases the frequency, rate or extent of RNA-mediated transposition. RNA-mediated transposition is a type of transpositional recombination which occurs via an RNA intermediate.
    GO:0010468    regulation of gene expression    Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
    GO:0043618    regulation of transcription from RNA polymerase II promoter in response to stress    Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    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
        RT109_YEAST | Q077942rim 2zfn 3q33 3q35 3q66 3q68 3qm0

(-) Related Entries Specified in the PDB File

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