Show PDB file:   
         Plain Text   HTML   (compressed file size)
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit - manually
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit - manually
Asym./Biol. Unit - manually  (Jmol Viewer)
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Authors :  X. Cheng
Date :  08 Dec 94  (Deposition) - 03 Jun 95  (Release) - 24 Feb 09  (Revision)
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Protein-Dna Complex, Double Helix, Overhanging Base, Flipped-Out Base, Modified, Transferase/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  S. Klimasauskas, S. Kumar, R. J. Roberts, X. Cheng
Hhai Methyltransferase Flips Its Target Base Out Of The Dna Helix.
Cell(Cambridge, Mass. ) V. 76 357 1994
PubMed-ID: 8293469  |  Reference-DOI: 10.1016/0092-8674(94)90342-5
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'-D(P*GP*AP*TP*AP*GP*(C36) P*GP*CP*TP*AP*TP*C)-3')
Molecule 2 - DNA (5'-D(*TP*GP*AP*TP*AP*GP*(C36) P*GP*CP*TP*AP*TP*C)-3')
    EC Number2.1.1.73
    Organism Taxid726

 Structural Features

(-) Chains, Units

Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
1AC1SOFTWAREPHE A:18 , ALA A:19 , LEU A:21 , GLY A:23 , ASN A:39 , GLU A:40 , TRP A:41 , ASP A:42 , ASP A:60 , ILE A:61 , GLY A:78 , ASN A:304 , SER A:305 , VAL A:306BINDING SITE FOR RESIDUE SAH A 328

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MHT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MHT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MHT)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
1SAM_MT_C5PS51679 C-5 cytosine-specific DNA methylase (Dnmt) domain profile.MTH1_HAEPH12-325  1A:12-325
2C5_MTASE_1PS00094 C-5 cytosine-specific DNA methylases active site.MTH1_HAEPH73-85  1A:73-85
3C5_MTASE_2PS00095 C-5 cytosine-specific DNA methylases C-terminal signature.MTH1_HAEPH300-318  1A:300-318

(-) Exons   (0, 0)

(no "Exon" information available for 1MHT)

(-) 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:327
 aligned with MTH1_HAEPH | P05102 from UniProtKB/Swiss-Prot  Length:327

    Alignment length:327
                                    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       
               SCOP domains d1mhta_ A: DNA methylase HhaI                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1mhtA01 A:1-186,A:285-327 Vaccinia Virus protein VP39                                                                                                                                     1mhtA02 A:187-284 DNA Methylase, subunit A, domain 2                                              1mhtA01 A:1-186,A:285-327                   CATH domains
               Pfam domains -----------DNA_methylase-1mhtA01 A:12-320                                                                                                                                                                                                                                                                                       ------- Pfam domains
         Sec.struct. author ............eeeee.....hhhhhhhhh..eeeeee...hhhhhhhhhhh.......hhh..hhh.....eeee..............hhh.....hhhhhhhhhhhh...eeeeeeehhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeehhh.......eeeeeeeee...................hhhh...hhhhhhh......eee.............eeeee.......eeee....................eeee..eeee..hhhhhhhh...........hhhhhhhhh....hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------SAM_MT_C5  PDB: A:12-325 UniProt: 12-325                                                                                                                                                                                                                                                                                  -- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------C5_MTASE_1   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C5_MTASE_2         --------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                                    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       

Chain B from PDB  Type:DNA  Length:12
                 1mht B 402 GATAGcGCTATC 413
                                 | 411  

Chain C from PDB  Type:DNA  Length:13
                 1mht C 421 TGATAGcGCTATC 433

   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  (2, 2)

Asymmetric/Biological Unit
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MTH1_HAEPH | P05102)
molecular function
    GO:0003886    DNA (cytosine-5-)-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + DNA containing cytosine = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    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:0090116    C-5 methylation of cytosine    The covalent transfer of a methyl group to C-5 of cytosine in a DNA molecule.
    GO:0009307    DNA restriction-modification system    A defense process found in many bacteria and archaea that protects the organism from invading foreign DNA by cleaving it with a restriction endonuclease. The organism's own DNA is protected by methylation of a specific nucleotide, which occurs immediately following replication, in the same target site as the restriction enzyme.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.


(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
  Ligands, Modified Residues, Ions
    C36  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SAH  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    AC1  [ RasMol ]  +environment [ RasMol ]
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1mht)

(-) Still Images

  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
Access by UniProt ID/Accession number
  MTH1_HAEPH | P05102
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
Access by Enzyme Classificator   (EC Number)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
Access by UniProt ID/Accession number
  MTH1_HAEPH | P05102
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

        MTH1_HAEPH | P0510210mh 1fjx 1hmy 1m0e 1skm 1svu 2c7o 2c7p 2c7q 2c7r 2hmy 2hr1 2i9k 2uyc 2uyh 2uz4 2z6a 2z6q 2z6u 2zcj 3eeo 3mht 4mht 5ciy 5mht 6mht 7mht 8mht 9mht

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1MHT)