PDB Short entry for 2EDJ
HEADER    CELL ADHESION                           14-FEB-07   2EDJ              
TITLE     SOLUTION STRUCTURE OF THE FIFTH IG-LIKE DOMAIN FROM HUMAN ROUNDABOUT  
TITLE    2 HOMOLOG 2                                                            
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: ROUNDABOUT HOMOLOG 2;                                      
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: I-SET DOMAIN;                                              
COMPND   5 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE   3 ORGANISM_COMMON: HUMAN;                                              
SOURCE   4 ORGANISM_TAXID: 9606;                                                
SOURCE   5 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;                              
SOURCE   6 EXPRESSION_SYSTEM_PLASMID: P060327-11;                               
SOURCE   7 OTHER_DETAILS: CELL FREE PROTEIN SYNTHESIS                           
KEYWDS    KIAA1568 PROTEIN, BETA SANDWICH, STRUCTURAL GENOMICS, NPPSFA,         
KEYWDS   2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES,      
KEYWDS   3 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, CELL ADHESION 
EXPDTA    SOLUTION NMR                                                          
NUMMDL    20                                                                    
AUTHOR    C.KUROSAKI,K.IZUMI,M.YOSHIDA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL    
AUTHOR   2 GENOMICS/PROTEOMICS INITIATIVE (RSGI)                                
REVDAT   3   09-MAR-22 2EDJ    1       REMARK SEQADV                            
REVDAT   2   24-FEB-09 2EDJ    1       VERSN                                    
REVDAT   1   14-AUG-07 2EDJ    0                                                
JRNL        AUTH   C.KUROSAKI,K.IZUMI,M.YOSHIDA,F.HAYASHI,S.YOKOYAMA            
JRNL        TITL   SOLUTION STRUCTURE OF THE FIFTH IG-LIKE DOMAIN FROM HUMAN    
JRNL        TITL 2 ROUNDABOUT HOMOLOG 2                                         
JRNL        REF    TO BE PUBLISHED                                              
JRNL        REFN                                                                
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : DELTA NMR 4.3.2, CYANA 2.0.17                        
REMARK   3   AUTHORS     : JEOL (DELTA NMR), GUNTERT, P. (CYANA)                
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 2EDJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-FEB-07.                  
REMARK 100 THE DEPOSITION ID IS D_1000026530.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 298                                
REMARK 210  PH                             : 7.0                                
REMARK 210  IONIC STRENGTH                 : 120MM                              
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : 1.13MM 13C, 15N-LABELED PROTEIN;   
REMARK 210                                   20MM D-TRIS-HCL(PH7.0); 100MM      
REMARK 210                                   NACL; 1MM D-DTT; 0.02% NAN3, 90%   
REMARK 210                                   H2O; 10% D2O                       
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 3D_13C-SEPARATED_NOESY; 3D_15N     
REMARK 210                                   -SEPARATED_NOESY                   
REMARK 210  SPECTROMETER FIELD STRENGTH    : 800 MHZ                            
REMARK 210  SPECTROMETER MODEL             : ECA                                
REMARK 210  SPECTROMETER MANUFACTURER      : JEOL                               
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : NMRPIPE 20031121, NMRVIEW 5.0.4,   
REMARK 210                                   KUJIRA 0.9817, CYANA 2.0.17        
REMARK 210   METHOD USED                   : TORSION ANGLE DYNAMICS             
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 100                                
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 20                                 
REMARK 210 CONFORMERS, SELECTION CRITERIA  : TARGET FUNCTION, STRUCTURES WITH   
REMARK 210                                   THE LOWEST ENERGY, STRUCTURES      
REMARK 210                                   WITH THE LEAST RESTRAINT           
REMARK 210                                   VIOLATIONS                         
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: MONOMERIC                         
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A                                     
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 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 VAL A  22      151.63    -41.79                                   
REMARK 500  1 ASP A  23       30.88     71.27                                   
REMARK 500  1 PRO A  36     -177.64    -69.69                                   
REMARK 500  1 GLN A  61       45.40    -96.19                                   
REMARK 500  1 LEU A  69      171.32    -45.72                                   
REMARK 500  1 THR A  74      116.12    -38.77                                   
REMARK 500  1 SER A  84      -33.64    -37.41                                   
REMARK 500  1 SER A  85      -73.02    -69.10                                   
REMARK 500  2 PRO A  36     -178.39    -69.85                                   
REMARK 500  2 ARG A  52       67.92   -115.79                                   
REMARK 500  2 GLN A  59     -176.56    -66.50                                   
REMARK 500  2 GLN A  61       39.68    -90.54                                   
REMARK 500  2 LEU A  69      161.16    -49.42                                   
REMARK 500  2 GLU A  87      148.56   -170.41                                   
REMARK 500  3 SER A   3       69.06   -113.92                                   
REMARK 500  3 SER A   5       46.92     36.11                                   
REMARK 500  3 PRO A  15     -179.17    -69.76                                   
REMARK 500  3 ILE A  40      142.44    -37.43                                   
REMARK 500  3 PHE A  49      140.29   -170.09                                   
REMARK 500  3 GLN A  59     -177.14    -63.09                                   
REMARK 500  3 GLN A  61       42.35    -92.72                                   
REMARK 500  3 THR A  74      102.53    -44.16                                   
REMARK 500  3 SER A  84      -34.28    -38.90                                   
REMARK 500  3 SER A  85      -70.17    -70.00                                   
REMARK 500  3 GLU A  87      140.11   -174.64                                   
REMARK 500  4 PRO A  15     -166.80    -69.76                                   
REMARK 500  4 ALA A  16      147.99   -171.65                                   
REMARK 500  4 PHE A  49      139.75   -171.73                                   
REMARK 500  4 GLN A  59     -175.17    -69.24                                   
REMARK 500  4 GLN A  61       49.40    -95.76                                   
REMARK 500  4 THR A  74       96.36    -61.14                                   
REMARK 500  4 SER A  83      145.92   -170.03                                   
REMARK 500  4 ALA A  92      149.58   -173.47                                   
REMARK 500  5 SER A   6      155.07    -38.19                                   
REMARK 500  5 PRO A  15     -165.76    -69.78                                   
REMARK 500  5 VAL A  22      150.23    -48.55                                   
REMARK 500  5 THR A  25      114.71   -163.72                                   
REMARK 500  5 ILE A  40      107.55    -48.47                                   
REMARK 500  5 ARG A  52       42.35     36.90                                   
REMARK 500  5 GLU A  60      -34.31    -37.42                                   
REMARK 500  5 THR A  63      104.83    -39.87                                   
REMARK 500  5 LEU A  69      162.29    -49.53                                   
REMARK 500  5 THR A  74      117.76    -39.26                                   
REMARK 500  6 SER A   3       96.36    -58.23                                   
REMARK 500  6 PRO A  15     -165.55    -69.74                                   
REMARK 500  6 GLU A  60       28.32     46.69                                   
REMARK 500  6 THR A  74      111.53    -37.94                                   
REMARK 500  6 GLU A  87      125.16   -172.34                                   
REMARK 500  7 GLN A  13      110.44   -162.83                                   
REMARK 500  7 PRO A  15     -169.87    -69.72                                   
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     156 RAMACHANDRAN OUTLIERS.                        
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: HSK002101540.2   RELATED DB: TARGETDB                    
DBREF  2EDJ A    8   100  UNP    Q9HCK4   ROBO2_HUMAN    417    509             
SEQADV 2EDJ GLY A    1  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ SER A    2  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ SER A    3  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ GLY A    4  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ SER A    5  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ SER A    6  UNP  Q9HCK4              CLONING ARTIFACT               
SEQADV 2EDJ GLY A    7  UNP  Q9HCK4              CLONING ARTIFACT               
SEQRES   1 A  100  GLY SER SER GLY SER SER GLY PRO PRO ILE ILE LEU GLN          
SEQRES   2 A  100  GLY PRO ALA ASN GLN THR LEU ALA VAL ASP GLY THR ALA          
SEQRES   3 A  100  LEU LEU LYS CYS LYS ALA THR GLY ASP PRO LEU PRO VAL          
SEQRES   4 A  100  ILE SER TRP LEU LYS GLU GLY PHE THR PHE PRO GLY ARG          
SEQRES   5 A  100  ASP PRO ARG ALA THR ILE GLN GLU GLN GLY THR LEU GLN          
SEQRES   6 A  100  ILE LYS ASN LEU ARG ILE SER ASP THR GLY THR TYR THR          
SEQRES   7 A  100  CYS VAL ALA THR SER SER SER GLY GLU THR SER TRP SER          
SEQRES   8 A  100  ALA VAL LEU ASP VAL THR GLU SER GLY                          
SHEET    1   A 2 ILE A  10  GLN A  13  0                                        
SHEET    2   A 2 LYS A  31  THR A  33 -1  O  LYS A  31   N  GLN A  13           
SHEET    1   B 5 GLN A  18  ALA A  21  0                                        
SHEET    2   B 5 ALA A  92  THR A  97  1  O  THR A  97   N  LEU A  20           
SHEET    3   B 5 THR A  76  THR A  82 -1  N  TYR A  77   O  ALA A  92           
SHEET    4   B 5 VAL A  39  LYS A  44 -1  N  SER A  41   O  VAL A  80           
SHEET    5   B 5 THR A  48  PHE A  49 -1  O  PHE A  49   N  TRP A  42           
SHEET    1   C 3 THR A  25  LEU A  28  0                                        
SHEET    2   C 3 LEU A  64  LYS A  67 -1  O  ILE A  66   N  ALA A  26           
SHEET    3   C 3 THR A  57  ILE A  58 -1  N  THR A  57   O  GLN A  65           
SSBOND   1 CYS A   30    CYS A   79                          1555   1555  2.02  
CISPEP   1 ASP A   35    PRO A   36          1        -0.01                     
CISPEP   2 PHE A   49    PRO A   50          1         0.06                     
CISPEP   3 ASP A   35    PRO A   36          2         0.14                     
CISPEP   4 PHE A   49    PRO A   50          2        -0.01                     
CISPEP   5 ASP A   35    PRO A   36          3         0.07                     
CISPEP   6 PHE A   49    PRO A   50          3         0.03                     
CISPEP   7 ASP A   35    PRO A   36          4         0.03                     
CISPEP   8 PHE A   49    PRO A   50          4        -0.03                     
CISPEP   9 ASP A   35    PRO A   36          5         0.01                     
CISPEP  10 PHE A   49    PRO A   50          5         0.08                     
CISPEP  11 ASP A   35    PRO A   36          6         0.01                     
CISPEP  12 PHE A   49    PRO A   50          6         0.01                     
CISPEP  13 ASP A   35    PRO A   36          7        -0.01                     
CISPEP  14 PHE A   49    PRO A   50          7         0.05                     
CISPEP  15 ASP A   35    PRO A   36          8         0.05                     
CISPEP  16 PHE A   49    PRO A   50          8         0.04                     
CISPEP  17 ASP A   35    PRO A   36          9         0.04                     
CISPEP  18 PHE A   49    PRO A   50          9         0.05                     
CISPEP  19 ASP A   35    PRO A   36         10         0.08                     
CISPEP  20 PHE A   49    PRO A   50         10         0.05                     
CISPEP  21 ASP A   35    PRO A   36         11        -0.01                     
CISPEP  22 PHE A   49    PRO A   50         11        -0.01                     
CISPEP  23 ASP A   35    PRO A   36         12         0.11                     
CISPEP  24 PHE A   49    PRO A   50         12        -0.07                     
CISPEP  25 ASP A   35    PRO A   36         13         0.11                     
CISPEP  26 PHE A   49    PRO A   50         13         0.02                     
CISPEP  27 ASP A   35    PRO A   36         14         0.00                     
CISPEP  28 PHE A   49    PRO A   50         14         0.02                     
CISPEP  29 ASP A   35    PRO A   36         15         0.01                     
CISPEP  30 PHE A   49    PRO A   50         15        -0.02                     
CISPEP  31 ASP A   35    PRO A   36         16         0.02                     
CISPEP  32 PHE A   49    PRO A   50         16         0.06                     
CISPEP  33 ASP A   35    PRO A   36         17         0.03                     
CISPEP  34 PHE A   49    PRO A   50         17         0.01                     
CISPEP  35 ASP A   35    PRO A   36         18        -0.03                     
CISPEP  36 PHE A   49    PRO A   50         18         0.01                     
CISPEP  37 ASP A   35    PRO A   36         19         0.08                     
CISPEP  38 PHE A   49    PRO A   50         19        -0.01                     
CISPEP  39 ASP A   35    PRO A   36         20        -0.01                     
CISPEP  40 PHE A   49    PRO A   50         20        -0.04                     
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