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(-) Description

Title :  HUMAN MOF CRYSTAL STRUCTURE WITH ACTIVE SITE LYSINE PARTIALLY ACETYLATED
 
Authors :  H. Yuan, E. C. Ding, R. Marmorstein
Date :  04 Sep 11  (Deposition) - 09 Nov 11  (Release) - 18 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Myst Protein, Hat Domain, Zinc Finger, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Yuan, D. Rossetto, H. Mellert, W. Dang, M. Srinivasan, J. Johnson, S. Hodawadekar, E. C. Ding, K. Speicher, N. Abshiru, R. Perry, J. Wu, C. Yang, Y. G. Zheng, D. W. Speicher, P. Thibault, A. Verreault, F. B. Johnson, S. L. Berger, R. Sternglanz, S. B. Mcmahon, J. Cote, R. Marmorstein
Myst Protein Acetyltransferase Activity Requires Active Sit Lysine Autoacetylation.
Embo J. V. 31 58 2011
PubMed-ID: 22020126  |  Reference-DOI: 10.1038/EMBOJ.2011.382

(-) Compounds

Molecule 1 - HISTONE ACETYLTRANSFERASE MYST1
    ChainsA
    EC Number2.3.1.48
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 177-447
    GeneMYST1, MOF, PP7073
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymMYST-1, MOZ, YBF2/SAS3, SAS2 AND TIP60 PROTEIN 1, HMOF

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2CL2Ligand/IonCHLORIDE ION
3EDO2Ligand/Ion1,2-ETHANEDIOL
4ZN1Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:210 , CYS A:213 , HIS A:226 , CYS A:230BINDING SITE FOR RESIDUE ZN A 501
2AC2SOFTWAREASP A:190BINDING SITE FOR RESIDUE CL A 502
3AC3SOFTWAREASP A:190 , ALA A:191 , SER A:222 , PHE A:225 , HIS A:226BINDING SITE FOR RESIDUE CL A 503
4AC4SOFTWARELEU A:318 , THR A:319 , GLN A:324 , SER A:354 , LEU A:356BINDING SITE FOR RESIDUE EDO A 504
5AC5SOFTWARELYS A:306 , GLU A:307 , GLU A:343BINDING SITE FOR RESIDUE EDO A 505

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:351 -Pro A:352

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (7, 7)

Asymmetric/Biological Unit (7, 7)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002197971aENSE00001911992chr16:31128985-31129213229KAT8_HUMAN1-71710--
1.2ENST000002197972ENSE00000675932chr16:31131507-3113158175KAT8_HUMAN71-96260--
1.3ENST000002197973ENSE00000675933chr16:31131660-31131835176KAT8_HUMAN96-154590--
1.4ENST000002197974ENSE00000675934chr16:31138356-3113840954KAT8_HUMAN155-172180--
1.5ENST000002197975ENSE00000675935chr16:31138510-31138674165KAT8_HUMAN173-227551A:177-22751
1.6ENST000002197976ENSE00000675936chr16:31139371-3113946090KAT8_HUMAN228-257301A:228-25730
1.7ENST000002197977ENSE00000675937chr16:31141338-31141478141KAT8_HUMAN258-304471A:258-30448
1.8ENST000002197978ENSE00000675939chr16:31141588-3114168194KAT8_HUMAN305-336321A:305-33632
1.9ENST000002197979ENSE00000675940chr16:31141777-31141927151KAT8_HUMAN336-386511A:336-386 (gaps)51
1.10aENST0000021979710aENSE00000675941chr16:31142067-31142221155KAT8_HUMAN386-438531A:386-438 (gaps)53
1.10cENST0000021979710cENSE00001172748chr16:31142516-31142714199KAT8_HUMAN438-458211A:438-44710

(-) 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:266
 aligned with KAT8_HUMAN | Q9H7Z6 from UniProtKB/Swiss-Prot  Length:458

    Alignment length:272
                                                                                                                             275                                                                                                                                                                            
                                                                                                                           274 |                                                                                                                                                                            
                                   186       196       206       216       226       236       246       256       266       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445  
           KAT8_HUMAN   177 KYVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHK-TLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSLNMVKYWKGQHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAP 447
               SCOP domains d3toaa_ A: automated matches                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee..eeee.......hhhhhhh..eee......ee.hhhhhhhhhhhh.......eeeeee..eeeeeee...hhhhhhhhhhhhhh..............eeeeeeeee....eeeeeeeeee......eee.eeee.hhhh..hhhhhhhhhhhhhhhhh....ee....hhhhhhhhhhhhhhhhhhhhhh--...hhhhhhhhhh.hhhhhhhhhhhh..eeee..eeee..hhhhhhhhhhh.----.....hhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5  PDB: A:177-227 UniProt: 173-227          Exon 1.6  PDB: A:228-257      Exon 1.7  PDB: A:258-304 UniProt: 258-304       Exon 1.8  PDB: A:305-336        -------------------------------------------------Exon 1.10a  PDB: A:386-438 (gaps) UniProt: 386-438   --------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:336-386 (gaps) UniProt: 336-386   ---------------------------------------------------Exon 1.10c Transcript 1 (2)
                 3toa A 177 KYVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHkKTLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRD--GTLSIKDLSQMTSITQNDIISTLQSLNMVKYWKGQHVICVTPKLVEEHLKSA----PPITVDSVCLKWAP 447
                                   186       196       206       216       226       236       246       256       266       275       285       295       305       315       325       335       345       355       365       375  |    385       395       405       415       425   |   435       445  
                                                                                                                           274-ALY                                                                                               375  |                                                429  434             
                                                                                                                                                                                                                                    378                                                                     

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (30, 30)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (KAT8_HUMAN | Q9H7Z6)
molecular function
    GO:0016407    acetyltransferase activity    Catalysis of the transfer of an acetyl group to an acceptor molecule.
    GO:0019899    enzyme binding    Interacting selectively and non-covalently with any enzyme.
    GO:0004402    histone acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + histone = CoA + acetyl-histone.
    GO:0046972    histone acetyltransferase activity (H4-K16 specific)    Catalysis of the reaction: acetyl-CoA + histone H4 L-lysine (position 16) = CoA + histone H4 N6-acetyl-L-lysine (position 16). This reaction represents the addition of an acetyl group to the lysine at position 16 of histone H4.
    GO:0043995    histone acetyltransferase activity (H4-K5 specific)    Catalysis of the reaction: acetyl-CoA + histone H4 L-lysine (position 5) = CoA + histone H4 N6-acetyl-L-lysine (position 5).
    GO:0043996    histone acetyltransferase activity (H4-K8 specific)    Catalysis of the reaction: acetyl-CoA + histone H4 L-lysine (position 8) = CoA + histone H4 N6-acetyl-L-lysine (position 8).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0035064    methylated histone binding    Interacting selectively and non-covalently with a histone in which a residue has been modified by methylation. Histones are any of a group of water-soluble proteins found in association with the DNA of eukaroytic chromosomes.
    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:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
    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.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
    GO:0016747    transferase activity, transferring acyl groups other than amino-acyl groups    Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
biological process
    GO:0043984    histone H4-K16 acetylation    The modification of histone H4 by the addition of an acetyl group to a lysine residue at position 16 of the histone.
    GO:0043981    histone H4-K5 acetylation    The modification of histone H4 by the addition of an acetyl group to a lysine residue at position 5 of the histone.
    GO:0043982    histone H4-K8 acetylation    The modification of histone H4 by the addition of an acetyl group to a lysine residue at position 8 of the histone.
    GO:0016573    histone acetylation    The modification of a histone by the addition of an acetyl group.
    GO:0030099    myeloid cell differentiation    The process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte, megakaryocyte, thrombocyte, or erythrocyte lineages.
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0010506    regulation of autophagy    Any process that modulates the frequency, rate or extent of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm.
    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:0071339    MLL1 complex    A protein complex that can methylate lysine-4 of histone H3. MLL1/MLL is the catalytic methyltransferase subunit, and the complex also contains the core components ASH2L, HCFC1/HCF1 WDR5 and RBBP5.
    GO:0072487    MSL complex    A histone acetyltransferase complex that catalyzes the acetylation of a histone H4 lysine residue at position 16. In human, it contains the catalytic subunit MOF, and MSL1, MSL2 and MSL3.
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    GO:0000123    histone acetyltransferase complex    A protein complex that possesses histone acetyltransferase activity.
    GO:0000776    kinetochore    A multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules.
    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
        KAT8_HUMAN | Q9H7Z62giv 2pq8 2y0m 3qah 3tob 4dnc 5j8c 5j8f

(-) Related Entries Specified in the PDB File

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3tob HUMAN MOF E350Q CRYSTAL STRUCTURE WITH ACTIVE SITE LYSINE PARTIALLY ACETYLATED