PDB Short entry for 2MOE
HEADER    HYDROLASE/DNA                           24-APR-14   2MOE              
TITLE     SOLUTION STRUCTURE OF MBD4 METHYL-CYTOSINE BINDING DOMAIN BOUND TO    
TITLE    2 METHYLATED DNA                                                       
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: METHYL-CPG-BINDING DOMAIN PROTEIN 4;                       
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: UNP RESIDUES 80-148;                                       
COMPND   5 SYNONYM: METHYL-CPG-BINDING ENDONUCLEASE 1, METHYL-CPG-BINDING       
COMPND   6 PROTEIN MBD4, MISMATCH-SPECIFIC DNA N-GLYCOSYLASE;                   
COMPND   7 EC: 3.2.2.-;                                                         
COMPND   8 ENGINEERED: YES;                                                     
COMPND   9 MOL_ID: 2;                                                           
COMPND  10 MOLECULE: DNA (5'-D(*GP*GP*AP*TP*(5CM)P*GP*GP*CP*TP*C)-3');          
COMPND  11 CHAIN: B;                                                            
COMPND  12 ENGINEERED: YES;                                                     
COMPND  13 OTHER_DETAILS: MBD4MBD;                                              
COMPND  14 MOL_ID: 3;                                                           
COMPND  15 MOLECULE: DNA (5'-D(*GP*AP*GP*CP*(5CM)P*GP*AP*TP*CP*C)-3');          
COMPND  16 CHAIN: C;                                                            
COMPND  17 ENGINEERED: YES;                                                     
COMPND  18 OTHER_DETAILS: DNAREV                                                
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE   3 ORGANISM_COMMON: HUMAN;                                              
SOURCE   4 ORGANISM_TAXID: 9606;                                                
SOURCE   5 GENE: MBD4, MED1;                                                    
SOURCE   6 MOL_ID: 2;                                                           
SOURCE   7 SYNTHETIC: YES;                                                      
SOURCE   8 MOL_ID: 3;                                                           
SOURCE   9 SYNTHETIC: YES                                                       
KEYWDS    PROTEIN/DNA, METHYLATED DNA, HYDROLASE-DNA COMPLEX                    
EXPDTA    SOLUTION NMR                                                          
NUMMDL    20                                                                    
AUTHOR    D.C.WILLIAMS,N.M.WALAVALKAR                                           
REVDAT   3   14-JUN-23 2MOE    1       REMARK SEQADV LINK                       
REVDAT   2   19-NOV-14 2MOE    1       JRNL                                     
REVDAT   1   10-SEP-14 2MOE    0                                                
JRNL        AUTH   N.M.WALAVALKAR,J.M.CRAMER,W.A.BUCHWALD,J.N.SCARSDALE,        
JRNL        AUTH 2 D.C.WILLIAMS                                                 
JRNL        TITL   SOLUTION STRUCTURE AND INTRAMOLECULAR EXCHANGE OF            
JRNL        TITL 2 METHYL-CYTOSINE BINDING DOMAIN PROTEIN 4 (MBD4) ON DNA       
JRNL        TITL 3 SUGGESTS A MECHANISM TO SCAN FOR MCPG/TPG MISMATCHES.        
JRNL        REF    NUCLEIC ACIDS RES.            V.  42 11218 2015              
JRNL        REFN                   ISSN 0305-1048                               
JRNL        PMID   25183517                                                     
JRNL        DOI    10.1093/NAR/GKU782                                           
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : NMRPIPE, X-PLOR NIH                                  
REMARK   3   AUTHORS     : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX    
REMARK   3                 (NMRPIPE), SCHWIETERS, KUSZEWSKI, TJANDRA AND        
REMARK   3                 CLORE (X-PLOR NIH)                                   
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 2MOE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAY-14.                  
REMARK 100 THE DEPOSITION ID IS D_1000103857.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 298                                
REMARK 210  PH                             : 6.5                                
REMARK 210  IONIC STRENGTH                 : 20                                 
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : 0.2-1.0 MM [U-99% 13C; U-99%       
REMARK 210                                   15N] MBD4MBD, 0.2-1.0 MM DNAFOR,   
REMARK 210                                   0.2-1.0 MM DNAREV, 90% H2O/10%     
REMARK 210                                   D2O; 0.2-1.0 MM [U-13C; U-15N; U-  
REMARK 210                                   2H] MBD4MBD, 0.2-1.0 MM DNAFOR,    
REMARK 210                                   0.2-1.0 MM DNAREV, 12 MG/ML PF1    
REMARK 210                                   PHAGE, 90% H2O/10% D2O             
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 2D 1H-15N HSQC; 3D HNCO; 3D        
REMARK 210                                   HNCA; 3D CBCA(CO)NH; 3D HNCACB;    
REMARK 210                                   3D HBHA(CO)NH; 3D C(CO)NH; 3D      
REMARK 210                                   HCCH-TOCSY; 3D 1H-15N NOESY; 3D    
REMARK 210                                   1H-13C NOESY ALIPHATIC; 2D 1H-     
REMARK 210                                   13C HSQC AROMATIC; 2D 1H-1H NOESY  
REMARK 210  SPECTROMETER FIELD STRENGTH    : 700 MHZ                            
REMARK 210  SPECTROMETER MODEL             : AVANCE                             
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : CCPNMR 2.3                         
REMARK 210   METHOD USED                   : SIMULATED ANNEALING                
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 50                                 
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 20                                 
REMARK 210 CONFORMERS, SELECTION CRITERIA  : STRUCTURES WITH THE LOWEST         
REMARK 210                                   ENERGY                             
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1                   
REMARK 210                                                                      
REMARK 210 REMARK: NULL                                                         
REMARK 215                                                                      
REMARK 215 NMR STUDY                                                            
REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION           
REMARK 215 NMR DATA.  PROTEIN DATA BANK CONVENTIONS REQUIRE THAT                
REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON              
REMARK 215 THESE RECORDS ARE MEANINGLESS.                                       
REMARK 300                                                                      
REMARK 300 BIOMOLECULE: 1                                                       
REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM                
REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN                  
REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON               
REMARK 300 BURIED SURFACE AREA.                                                 
REMARK 350                                                                      
REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN           
REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE                
REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS          
REMARK 350 GIVEN BELOW.  BOTH NON-CRYSTALLOGRAPHIC AND                          
REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.                               
REMARK 350                                                                      
REMARK 350 BIOMOLECULE: 1                                                       
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC                          
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C                               
REMARK 350   BIOMT1   1  1.000000  0.000000  0.000000        0.00000            
REMARK 350   BIOMT2   1  0.000000  1.000000  0.000000        0.00000            
REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000        0.00000            
REMARK 470                                                                      
REMARK 470 MISSING ATOM                                                         
REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME;         
REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE):         
REMARK 470   MODELS 1-20                                                        
REMARK 470     RES CSSEQI  ATOMS                                                
REMARK 470     LYS A 148    O                                                   
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: CLOSE CONTACTS                                             
REMARK 500                                                                      
REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT.                            
REMARK 500                                                                      
REMARK 500  ATM1  RES C  SSEQI   ATM2  RES C  SSEQI           DISTANCE          
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES                                       
REMARK 500                                                                      
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES              
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE               
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN               
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                 
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)              
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999                        
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996                     
REMARK 500                                                                      
REMARK 500  M RES CSSEQI ATM1   ATM2   ATM3                                     
REMARK 500  3  DT C 218   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500  6  DT C 218   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500 13  DT B 204   C6  -  C5  -  C7  ANGL. DEV. =  -3.7 DEGREES          
REMARK 500 14  DT B 209   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500 14  DT C 218   C6  -  C5  -  C7  ANGL. DEV. =  -3.8 DEGREES          
REMARK 500 18  DT B 204   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500 18  DT B 209   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500 19  DT C 218   C6  -  C5  -  C7  ANGL. DEV. =  -3.6 DEGREES          
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: TORSION ANGLES                                             
REMARK 500                                                                      
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:            
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;               
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                             
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)                    
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-           
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400            
REMARK 500                                                                      
REMARK 500  M RES CSSEQI        PSI       PHI                                   
REMARK 500  1 GLU A  81     -164.34   -106.51                                   
REMARK 500  1 ARG A  83     -162.96    -55.54                                   
REMARK 500  1 SER A  85       -9.21   -177.20                                   
REMARK 500  1 LEU A  98      -96.66    -60.51                                   
REMARK 500  1 ALA A 103      111.38    -29.39                                   
REMARK 500  1 SER A 112      167.32    -43.34                                   
REMARK 500  1 ARG A 119       11.76   -146.00                                   
REMARK 500  1 SER A 147      123.02     61.68                                   
REMARK 500  2 SER A  79      -44.35     73.97                                   
REMARK 500  2 GLU A  81       81.49   -176.33                                   
REMARK 500  2 CYS A  82     -150.34     64.79                                   
REMARK 500  2 ARG A  83        6.75     54.68                                   
REMARK 500  2 SER A  85      -36.50   -165.92                                   
REMARK 500  2 ALA A 103      105.94    -32.06                                   
REMARK 500  2 PHE A 143      173.97    -47.14                                   
REMARK 500  3 CYS A  82       76.07     37.64                                   
REMARK 500  3 SER A  85      -92.52    175.38                                   
REMARK 500  3 LEU A  98     -104.77    -68.91                                   
REMARK 500  3 ALA A 103      127.01    -35.29                                   
REMARK 500  3 SER A 147     -124.99     35.05                                   
REMARK 500  4 GLU A  81     -164.55     57.00                                   
REMARK 500  4 CYS A  82       71.15     66.20                                   
REMARK 500  4 SER A  85      -19.54     74.97                                   
REMARK 500  4 PHE A  99      -98.40   -131.99                                   
REMARK 500  4 ALA A 103      131.38    -29.15                                   
REMARK 500  4 SER A 147      -87.91   -124.43                                   
REMARK 500  5 SER A  79      -44.93   -131.98                                   
REMARK 500  5 CYS A  82        5.44   -168.41                                   
REMARK 500  5 ARG A  83      -61.79   -100.18                                   
REMARK 500  5 LYS A  84       15.04     54.03                                   
REMARK 500  5 VAL A  86       72.53     40.69                                   
REMARK 500  5 THR A 144     -179.82   -178.07                                   
REMARK 500  5 LEU A 146       92.86    -50.90                                   
REMARK 500  5 SER A 147       51.84   -171.02                                   
REMARK 500  6 THR A  80     -148.25     50.25                                   
REMARK 500  6 GLU A  81      -79.39     57.26                                   
REMARK 500  6 CYS A  82     -160.49     52.92                                   
REMARK 500  6 SER A  85      -99.44    173.13                                   
REMARK 500  6 ALA A 103      151.99    -36.96                                   
REMARK 500  6 ARG A 119       22.19   -150.35                                   
REMARK 500  6 GLU A 133      -71.94    -90.41                                   
REMARK 500  6 THR A 134       -8.38     61.87                                   
REMARK 500  6 SER A 147      -45.96   -150.53                                   
REMARK 500  7 CYS A  82     -108.02   -156.00                                   
REMARK 500  7 LYS A  84      134.66     72.33                                   
REMARK 500  7 SER A  85      -19.38     72.74                                   
REMARK 500  7 LEU A  98     -107.33    -82.11                                   
REMARK 500  7 ALA A 103      161.96    -37.59                                   
REMARK 500  7 SER A 135       24.66    -76.90                                   
REMARK 500  7 LEU A 146      148.09   -177.08                                   
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     143 RAMACHANDRAN OUTLIERS.                        
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 19939   RELATED DB: BMRB                                 
DBREF  2MOE A   80   148  UNP    O95243   MBD4_HUMAN      80    148             
DBREF  2MOE B  201   210  PDB    2MOE     2MOE           201    210             
DBREF  2MOE C  211   220  PDB    2MOE     2MOE           211    220             
SEQADV 2MOE GLY A   78  UNP  O95243              EXPRESSION TAG                 
SEQADV 2MOE SER A   79  UNP  O95243              EXPRESSION TAG                 
SEQRES   1 A   71  GLY SER THR GLU CYS ARG LYS SER VAL PRO CYS GLY TRP          
SEQRES   2 A   71  GLU ARG VAL VAL LYS GLN ARG LEU PHE GLY LYS THR ALA          
SEQRES   3 A   71  GLY ARG PHE ASP VAL TYR PHE ILE SER PRO GLN GLY LEU          
SEQRES   4 A   71  LYS PHE ARG SER LYS SER SER LEU ALA ASN TYR LEU HIS          
SEQRES   5 A   71  LYS ASN GLY GLU THR SER LEU LYS PRO GLU ASP PHE ASP          
SEQRES   6 A   71  PHE THR VAL LEU SER LYS                                      
SEQRES   1 B   10   DG  DG  DA  DT 5CM  DG  DG  DC  DT  DC                      
SEQRES   1 C   10   DG  DA  DG  DC 5CM  DG  DA  DT  DC  DC                      
MODRES 2MOE 5CM B  205   DC                                                     
MODRES 2MOE 5CM C  215   DC                                                     
HET    5CM  B 205      33                                                       
HET    5CM  C 215      33                                                       
HETNAM     5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE                      
FORMUL   2  5CM    2(C10 H16 N3 O7 P)                                           
HELIX    1   1 SER A  120  GLY A  132  1                                  13    
SHEET    1   A 3 GLU A  91  GLN A  96  0                                        
SHEET    2   A 3 PHE A 106  ILE A 111 -1  O  TYR A 109   N  VAL A  93           
SHEET    3   A 3 LYS A 117  PHE A 118 -1  O  PHE A 118   N  PHE A 110           
LINK         O3'  DT B 204                 P   5CM B 205     1555   1555  1.61  
LINK         O3' 5CM B 205                 P    DG B 206     1555   1555  1.61  
LINK         O3'  DC C 214                 P   5CM C 215     1555   1555  1.61  
LINK         O3' 5CM C 215                 P    DG C 216     1555   1555  1.61  
CRYST1    1.000    1.000    1.000  90.00  90.00  90.00 P 1           1          
ORIGX1      1.000000  0.000000  0.000000        0.00000                         
ORIGX2      0.000000  1.000000  0.000000        0.00000                         
ORIGX3      0.000000  0.000000  1.000000        0.00000                         
SCALE1      1.000000  0.000000  0.000000        0.00000                         
SCALE2      0.000000  1.000000  0.000000        0.00000                         
SCALE3      0.000000  0.000000  1.000000        0.00000