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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN MOF IN COMPLEX WITH MSL1
 
Authors :  J. Huang, M. Lei
Date :  08 Feb 12  (Deposition) - 25 Jul 12  (Release) - 25 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A,B,D,E
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,E  (1x)
Biol. Unit 3:  A,B,D,E  (1x)
Keywords :  Histone Acetyltransferase, Mof, Msl, Nsl, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Huang, B. Wan, L. Wu, Y. Yang, Y. Dou, M. Lei
Structural Insight Into The Regulation Of Mof In The Male-Specific Lethal Complex And The Non-Specific Lethal Complex.
Cell Res. V. 22 1078 2012
PubMed-ID: 22547026  |  Reference-DOI: 10.1038/CR.2012.72

(-) Compounds

Molecule 1 - HISTONE ACETYLTRANSFERASE KAT8
    ChainsA, B
    EC Number2.3.1.48
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    FragmentHAT DOMAIN (UNP RESIDUES 170-458)
    GeneKAT8, MOF, MYST1, PP7073
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymLYSINE ACETYLTRANSFERASE 8, MOZ, YBF2/SAS3, SAS2 AND TIP60 PROTEIN 1, MYST-1, HMOF
 
Molecule 2 - MALE-SPECIFIC LETHAL 1 HOMOLOG
    ChainsD, E
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    FragmentMOF-BINDING MOTIF (UNP RESIDUES 473-520)
    GeneMSL1, MSL1L1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymMSL-1, MALE-SPECIFIC LETHAL 1-LIKE 1, MSL1-LIKE 1, MALE- SPECIFIC LETHAL-1 HOMOLOG 1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABDE
Biological Unit 1 (1x)A D 
Biological Unit 2 (1x) B E
Biological Unit 3 (1x)ABDE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ALY2Mod. Amino AcidN(6)-ACETYLLYSINE
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2ZN-1Ligand/IonZINC ION
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1ALY2Mod. Amino AcidN(6)-ACETYLLYSINE
2ZN-1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:210 , CYS A:213 , HIS A:226 , CYS A:230BINDING SITE FOR RESIDUE ZN A 501
2AC2SOFTWARECYS B:210 , CYS B:213 , HIS B:226 , CYS B:230BINDING SITE FOR RESIDUE ZN B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4DNC)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:351 -Pro A:352
2Lys B:351 -Pro B:352

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DNC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4DNC)

(-) Exons   (7, 14)

Asymmetric Unit (7, 14)
 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_HUMAN173-227552A:178-227
B:177-227
50
51
1.6ENST000002197976ENSE00000675936chr16:31139371-3113946090KAT8_HUMAN228-257302A:228-257
B:228-257
30
30
1.7ENST000002197977ENSE00000675937chr16:31141338-31141478141KAT8_HUMAN258-304472A:258-304
B:258-304
47
47
1.8ENST000002197978ENSE00000675939chr16:31141588-3114168194KAT8_HUMAN305-336322A:305-336
B:305-336
32
32
1.9ENST000002197979ENSE00000675940chr16:31141777-31141927151KAT8_HUMAN336-386512A:336-386
B:336-386
51
51
1.10aENST0000021979710aENSE00000675941chr16:31142067-31142221155KAT8_HUMAN386-438532A:386-438
B:386-438 (gaps)
53
53
1.10cENST0000021979710cENSE00001172748chr16:31142516-31142714199KAT8_HUMAN438-458212A:438-449
B:438-447
12
10

(-) Sequences/Alignments

Asymmetric 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:272
 aligned with KAT8_HUMAN | Q9H7Z6 from UniProtKB/Swiss-Prot  Length:458

    Alignment length:272
                                   187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447  
           KAT8_HUMAN   178 YVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHKTLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSLNMVKYWKGQHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAPPK 449
               SCOP domains d4dnca_ A: automated matches                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.........hhhhh.eeee......ee.hhhhhhhhhhhh.......eeeeee..eeeeeee...hhhhhhhhhhhhhh.............eeeeeeeee....eeeeeeeeee......eee..eee.hhhh..hhhhhhhhhhhhhhhhh....ee....hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhh..eeee..eeee..hhhhhhhhhhh..........hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5  PDB: A:178-227 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 UniProt: 386-438          ----------- Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:336-386 UniProt: 336-386          ---------------------------------------------------Exon 1.10c   Transcript 1 (2)
                 4dnc A 178 YVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHkTLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSLNMVKYWKGQHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAPPK 449
                                   187       197       207       217       227       237       247       257       267      |277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447  
                                                                                                                          274-ALY                                                                                                                                                                           

Chain B from PDB  Type:PROTEIN  Length:268
 aligned with KAT8_HUMAN | Q9H7Z6 from UniProtKB/Swiss-Prot  Length:458

    Alignment length:271
                                   186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446 
           KAT8_HUMAN   177 KYVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHKTLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSLNMVKYWKGQHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAP 447
               SCOP domains d4dncb_ B: automated matches                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee..eeee.......hhhhhhh.eeee......ee.hhhhhhhhhhhh.......eeeeee..eeeeeee...hhhhhhhhhhhhhh.............eeeeeeeeee..eeeeeeeeeee......eee..eee.hhhh..hhhhhhhhhhhhhhhhh....ee....hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhh..ee.---..ee..hhhhhhhhhhhhhhh......hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5  PDB: B:177-227 UniProt: 173-227          Exon 1.6  PDB: B:228-257      Exon 1.7  PDB: B:258-304 UniProt: 258-304      Exon 1.8  PDB: B:305-336        -------------------------------------------------Exon 1.10a  PDB: B:386-438 (gaps) UniProt: 386-438   --------- Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: B:336-386 UniProt: 336-386          ---------------------------------------------------Exon 1.10c Transcript 1 (2)
                 4dnc B 177 KYVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWLCEYCLKYMKYEKSYRFHLGQCQWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHkTLYFDVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSLNMVKY---QHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAP 447
                                   186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406 |   | 416       426       436       446 
                                                                                                                           274-ALY                                                                                                                               408 412                                   

Chain D from PDB  Type:PROTEIN  Length:42
 aligned with MSL1_HUMAN | Q68DK7 from UniProtKB/Swiss-Prot  Length:614

    Alignment length:47
                                   482       492       502       512       
           MSL1_HUMAN   473 LAVPSWRDHSVEPLRDPNPSDLLENLDDSVFSKRHAKLELDEKRRKR 519
               SCOP domains ----------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------- Pfam domains
         Sec.struct. author .....eee.........----.-...hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                 4dnc D 473 LAVPSWRDHSVEPLRDP----L-ENLDDSVFSKRHAKLELDEKRRKR 565
                                   482      |  - | |   548       558       
                                          489  495 |                       
                                                 542                       

Chain E from PDB  Type:PROTEIN  Length:46
 aligned with MSL1_HUMAN | Q68DK7 from UniProtKB/Swiss-Prot  Length:614

    Alignment length:48
                                   482       492       502       512        
           MSL1_HUMAN   473 LAVPSWRDHSVEPLRDPNPSDLLENLDDSVFSKRHAKLELDEKRRKRW 520
               SCOP domains ------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------ Pfam domains
         Sec.struct. author .....eee......-.....-.....hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------ Transcript
                 4dnc E 473 LAVPSWRDHSVEPL-DPNPS-LLENLDDSVFSKRHAKLELDEKRRKRW 566
                                   482   | | 492 |||   548       558        
                                       486 | 492 |||                        
                                         488   494||                        
                                                495|                        
                                                 542                        

   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)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4DNC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DNC)

(-) Gene Ontology  (31, 35)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (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.

Chain D,E   (MSL1_HUMAN | Q68DK7)
molecular function
    GO:0003682    chromatin binding    Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
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.
cellular component
    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: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 3toa 3tob 5j8c 5j8f
        MSL1_HUMAN | Q68DK74b7y 4b86

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4DNC)