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(-) Description

Title :  SOLUTION STRUCTURE OF THE HMG BOX OF HUMAN MYELOID/LYMPHOID OR MIXED-LINEAGE LEUKEMIA PROTEIN 3 HOMOLOG
 
Authors :  H. Abe, N. Tochio, K. Miyamoto, S. Koshiba, T. Harada, S. Watanabe, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  06 Apr 07  (Deposition) - 08 Apr 08  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Histone-Lysine N-Methyltransferase, H3 Lysine-4 Specific Mll3, Homologous To Alr Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Abe, N. Tochio, K. Miyamoto, S. Koshiba, T. Harada, S. Watanabe, T. Kigawa, S. Yokoyama
Solution Structure Of The Hmg Box Of Human Myeloid/Lymphoid Or Mixed-Lineage Leukemia Protein 3 Homolog
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MYELOID/LYMPHOID OR MIXED-LINEAGE LEUKEMIA PROTEIN 3 HOMOLOG
    ChainsA
    EC Number2.1.1.43
    EngineeredYES
    Expression System PlasmidP060327-10
    Expression System Vector TypePLASMID
    FragmentHMG (HIGH MOBILITY GROUP) BOX, UNP RESIDUES 1631- 1713
    GeneMLL3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymHISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-4 SPECIFIC MLL3, HOMOLOGOUS TO ALR PROTEIN

 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 2YUK)

(-) Sites  (0, 0)

(no "Site" information available for 2YUK)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2YUK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2YUK)

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2aENST000003551932aENSE00001642231chr7:152133090-152132711380KMT2C_HUMAN1-54540--
1.3ENST000003551933ENSE00001779646chr7:152055760-15205567289KMT2C_HUMAN54-84310--
1.5cENST000003551935cENSE00001596960chr7:152027824-152027686139KMT2C_HUMAN84-130470--
1.6bENST000003551936bENSE00001774010chr7:152012423-152012223201KMT2C_HUMAN130-197680--
1.7bENST000003551937bENSE00001749065chr7:152009031-152008883149KMT2C_HUMAN197-247510--
1.8aENST000003551938aENSE00001803163chr7:152007160-152007051110KMT2C_HUMAN247-283370--
1.9ENST000003551939ENSE00001783379chr7:151970952-151970790163KMT2C_HUMAN284-338550--
1.10ENST0000035519310ENSE00001799851chr7:151962294-151962123172KMT2C_HUMAN338-395580--
1.11ENST0000035519311ENSE00001721204chr7:151960215-151960101115KMT2C_HUMAN395-433390--
1.12ENST0000035519312ENSE00001629216chr7:151949800-151949631170KMT2C_HUMAN434-490570--
1.13ENST0000035519313ENSE00001666640chr7:151949175-151949024152KMT2C_HUMAN490-541520--
1.14ENST0000035519314ENSE00001791110chr7:151948051-151947938114KMT2C_HUMAN541-579390--
1.15ENST0000035519315ENSE00001635330chr7:151947038-15194696178KMT2C_HUMAN579-605270--
1.16aENST0000035519316aENSE00001712229chr7:151945705-151944987719KMT2C_HUMAN605-8442400--
1.17bENST0000035519317bENSE00001613372chr7:151935911-151935792120KMT2C_HUMAN845-884400--
1.19ENST0000035519319ENSE00001619203chr7:151933018-151932902117KMT2C_HUMAN885-923390--
1.20ENST0000035519320ENSE00001758947chr7:151927406-151927305102KMT2C_HUMAN924-957340--
1.21bENST0000035519321bENSE00001726293chr7:151927112-151927008105KMT2C_HUMAN958-992350--
1.22ENST0000035519322ENSE00000730374chr7:151921701-151921520182KMT2C_HUMAN993-1053610--
1.23bENST0000035519323bENSE00001630291chr7:151921264-151921100165KMT2C_HUMAN1053-1108560--
1.25ENST0000035519325ENSE00001754170chr7:151919767-151919658110KMT2C_HUMAN1108-1145380--
1.26cENST0000035519326cENSE00000730386chr7:151919151-15191908666KMT2C_HUMAN1145-1167230--
1.27aENST0000035519327aENSE00001628944chr7:151917820-151917608213KMT2C_HUMAN1167-1238720--
1.28ENST0000035519328ENSE00000730393chr7:151904513-151904385129KMT2C_HUMAN1238-1281440--
1.29ENST0000035519329ENSE00000730396chr7:151902310-151902191120KMT2C_HUMAN1281-1321410--
1.30ENST0000035519330ENSE00000430342chr7:151900149-151900019131KMT2C_HUMAN1321-1364440--
1.31ENST0000035519331ENSE00000730402chr7:151896544-151896364181KMT2C_HUMAN1365-1425610--
1.32ENST0000035519332ENSE00000730404chr7:151893096-151892992105KMT2C_HUMAN1425-1460360--
1.33ENST0000035519333ENSE00000730409chr7:151891653-151891525129KMT2C_HUMAN1460-1503440--
1.34ENST0000035519334ENSE00000730414chr7:151891346-15189131433KMT2C_HUMAN1503-1514120--
1.35ENST0000035519335ENSE00000730416chr7:151891213-151891094120KMT2C_HUMAN1514-1554410--
1.36ENST0000035519336ENSE00000430344chr7:151884932-151884800133KMT2C_HUMAN1554-1598451A:1-5 (gaps)15
1.37ENST0000035519337ENSE00000730421chr7:151884561-151884347215KMT2C_HUMAN1598-1670731A:6-47 (gaps)48
1.38ENST0000035519338ENSE00000730423chr7:151882716-15188264374KMT2C_HUMAN1670-1694251A:47-7125
1.39ENST0000035519339ENSE00000730426chr7:151880241-151880059183KMT2C_HUMAN1695-1755611A:72-9019
1.40ENST0000035519340ENSE00000730429chr7:151879679-1518777961884KMT2C_HUMAN1756-23836280--
1.41ENST0000035519341ENSE00000730434chr7:151877211-151876919293KMT2C_HUMAN2384-2481980--
1.42aENST0000035519342aENSE00000730439chr7:151875095-1518732761820KMT2C_HUMAN2481-30886080--
1.43ENST0000035519343ENSE00000730441chr7:151871327-151871216112KMT2C_HUMAN3088-3125380--
1.44ENST0000035519344ENSE00000730442chr7:151868427-15186834979KMT2C_HUMAN3125-3151270--
1.45ENST0000035519345ENSE00000430311chr7:151866334-15186627164KMT2C_HUMAN3152-3173220--
1.46ENST0000035519346ENSE00000730443chr7:151864463-151864231233KMT2C_HUMAN3173-3250780--
1.47aENST0000035519347aENSE00000730444chr7:151860911-1518592021710KMT2C_HUMAN3251-38205700--
1.48bENST0000035519348bENSE00000730447chr7:151856157-151855942216KMT2C_HUMAN3821-3892720--
1.49ENST0000035519349ENSE00000730450chr7:151855010-151854846165KMT2C_HUMAN3893-3947550--
1.50aENST0000035519350aENSE00000730453chr7:151853431-151853290142KMT2C_HUMAN3948-3995480--
1.51ENST0000035519351ENSE00000730457chr7:151853142-151852995148KMT2C_HUMAN3995-4044500--
1.53ENST0000035519353ENSE00000730460chr7:151851530-151851352179KMT2C_HUMAN4044-4104610--
1.54ENST0000035519354ENSE00000730462chr7:151851231-151851095137KMT2C_HUMAN4104-4149460--
1.55cENST0000035519355cENSE00000430326chr7:151850039-151849790250KMT2C_HUMAN4150-4233840--
1.56ENST0000035519356ENSE00000730467chr7:151848666-151848527140KMT2C_HUMAN4233-4279470--
1.57ENST0000035519357ENSE00000730470chr7:151848092-151847985108KMT2C_HUMAN4280-4315360--
1.58ENST0000035519358ENSE00000730472chr7:151846237-1518451181120KMT2C_HUMAN4316-46893740--
1.59ENST0000035519359ENSE00000730474chr7:151843820-151843684137KMT2C_HUMAN4689-4734460--
1.60bENST0000035519360bENSE00000730475chr7:151842380-151842238143KMT2C_HUMAN4735-4782480--
1.61ENST0000035519361ENSE00000730477chr7:151841966-151841798169KMT2C_HUMAN4782-4838570--
1.63bENST0000035519363bENSE00000730479chr7:151836876-151836760117KMT2C_HUMAN4839-4877390--
1.64ENST0000035519364ENSE00000730480chr7:151836344-15183627174KMT2C_HUMAN4878-4902250--
1.65aENST0000035519365aENSE00000730481chr7:151835989-151835881109KMT2C_HUMAN4902-4938370--
1.65eENST0000035519365eENSE00001424024chr7:151834009-1518320141996KMT2C_HUMAN4939-4968300--

(-) 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:90
 aligned with KMT2C_HUMAN | Q8NEZ4 from UniProtKB/Swiss-Prot  Length:4911

    Alignment length:147
                                  1576      1586      1596      1606      1616      1626      1636      1646      1656      1666      1676      1686      1696      1706       
         KMT2C_HUMAN   1567 GSSPHLPHNSLPPGSGLGTFSAIAQSSYPDARDKNSAFNPMASDPNNSWTSSAPTVEGENDTMSNAQRSTLKWEKEEALGEMATVAPVLYTNINFPNLKEEFPDWTTRVKQIAKLWRKASSQERAPYVQKARDNRAALRINKVQMSN 1713
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...----------..-----------------------------------------..------....hhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.36  PDB: A:1-5 (gaps)    -----------------------------------------------------------------------Exon 1.38  PDB: A:47-71  Exon 1.39           Transcript 1 (1)
           Transcript 1 (2) -------------------------------Exon 1.37  PDB: A:6-47 (gaps) UniProt: 1598-1670 [INCOMPLETE]            ------------------------------------------- Transcript 1 (2)
                2yuk A    1 GSS----------GS-----------------------------------------SG------NAQRSTLKWEKEEALGEMATVAPVLYTNINFPNLKEEFPDWTTRVKQIAKLWRKASSQERAPYVQKARDNRAALRINKVQMSN   90
                              |      -   ||    -         -         -         -      || -    |   13        23        33        43        53        63        73        83       
                              3          4|                                         6|      8                                                                                  
                                          5                                          7                                                                                         

   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  (0, 0)

(no "SCOP Domain" information available for 2YUK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

NMR Structure(hide GO term definitions)
Chain A   (KMT2C_HUMAN | Q8NEZ4)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0042800    histone methyltransferase activity (H3-K4 specific)    Catalysis of the reaction: S-adenosyl-L-methionine + histone H3 L-lysine (position 4) = S-adenosyl-L-homocysteine + histone H3 N6-methyl-L-lysine (position 4). This reaction is the addition of a methyl group onto lysine at position 4 of the histone H3 protein.
    GO:0018024    histone-lysine N-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + histone L-lysine = S-adenosyl-L-homocysteine + histone N6-methyl-L-lysine. The methylation of peptidyl-lysine in histones forms N6-methyl-L-lysine, N6,N6-dimethyl-L-lysine and N6,N6,N6-trimethyl-L-lysine derivatives.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    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: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:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0051568    histone H3-K4 methylation    The modification of histone H3 by addition of one or more methyl groups to lysine at position 4 of the histone.
    GO:0034968    histone lysine methylation    The modification of a histone by addition of one or more methyl groups to a lysine residue.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    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:0044666    MLL3/4 complex    A protein complex that can methylate lysine-4 of histone H3, and which contains either of the protein subunits MLL3 or MLL4 in mammals, or equivalent in other species.
    GO:0035097    histone methyltransferase complex    A multimeric complex that is able to catalyze the addition of methyl groups to histone proteins.
    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)

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        KMT2C_HUMAN | Q8NEZ42ysm 3uvl 4ery 5f59 5f6k

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