PDB Short entry for 2D8X
HEADER    STRUCTURAL PROTEIN, CELL CYCLE          08-DEC-05   2D8X              
TITLE     SOLUTION STRUCTURE OF THE SECOND LIM DOMAIN OF PARTICULARLY           
TITLE    2 INTERESTING NEW CYS-HIS PROTEIN (PINCH)                              
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: PROTEIN PINCH;                                             
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: LIM DOMAIN;                                                
COMPND   5 SYNONYM: PARTICULARLY INTERESTING NEW CYS-HIS PROTEIN, LIM           
COMPND   6 AND SENESCENT CELL ANTIGEN-LIKE DOMAINS 1  ,PINCH PROTEIN;           
COMPND   7 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE   3 ORGANISM_COMMON: HUMAN;                                              
SOURCE   4 ORGANISM_TAXID: 9606;                                                
SOURCE   5 GENE: LIMS1;                                                         
SOURCE   6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;                              
SOURCE   7 EXPRESSION_SYSTEM_PLASMID: P050302-42;                               
SOURCE   8 OTHER_DETAILS: CELL FREE PROTEIN SYNTHESIS                           
KEYWDS    LIM DOMAIN; PINCH PROTEIN, STRUCTURAL GENOMICS, NPPSFA,               
KEYWDS   2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL                
KEYWDS   3 ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE,           
KEYWDS   4 RSGI, STRUCTURAL PROTEIN, CELL CYCLE                                 
EXPDTA    SOLUTION NMR                                                          
NUMMDL    20                                                                    
AUTHOR    X.R.QIN,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL                         
AUTHOR   2 GENOMICS/PROTEOMICS INITIATIVE (RSGI)                                
REVDAT   2   24-FEB-09 2D8X    1       VERSN                                    
REVDAT   1   08-JUN-06 2D8X    0                                                
JRNL        AUTH   X.R.QIN,F.HAYASHI,S.YOKOYAMA                                 
JRNL        TITL   SOLUTION STRUCTURE OF THE SECOND LIM DOMAIN OF               
JRNL        TITL 2 PARTICULARLY INTERESTING NEW CYS-HIS PROTEIN                 
JRNL        TITL 3 (PINCH)                                                      
JRNL        REF    TO BE PUBLISHED                                              
JRNL        REFN                                                                
REMARK   1                                                                      
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : CYANA 2.0.17                                         
REMARK   3   AUTHORS     : GUNTERT, P.                                          
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 2D8X COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-DEC-05.                  
REMARK 100 THE RCSB ID CODE IS RCSB025134.                                      
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 293                                
REMARK 210  PH                             : 7.0                                
REMARK 210  IONIC STRENGTH                 : 120MM                              
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : 1.29MM 13C,15N-LABELED             
REMARK 210                                   PROTEIN; 20MM D-TRIS-              
REMARK 210                                   HCL(PH7.0); 100MM NACL; 1MM D-     
REMARK 210                                   DTT; 0.02% NAN3; 0.05MM ZNCL2+     
REMARK 210                                   1MM IDA; 90%H2O; 10% D2O           
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 3D_15N-SEPARATED_NOESY, 3D_        
REMARK 210                                   13C-SEPARATED_NOESY                
REMARK 210  SPECTROMETER FIELD STRENGTH    : 800 MHZ                            
REMARK 210  SPECTROMETER MODEL             : INOVA                              
REMARK 210  SPECTROMETER MANUFACTURER      : VARIAN                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : VNMR 6.1C, NMRPIPE 20031121,       
REMARK 210                                   NMRVIEW 5.0.4, KUJIRA 0.9296,      
REMARK 210                                   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         
REMARK 210                                   WITH THE LOWEST ENERGY,            
REMARK 210                                   STRUCTURES WITH THE LEAST          
REMARK 210                                   RESTRAINT 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 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 GLN A  10      -72.64    -48.85                                   
REMARK 500  1 GLU A  13      152.10    -45.57                                   
REMARK 500  1 PHE A  32       86.38    -58.80                                   
REMARK 500  1 LEU A  41       48.16   -105.14                                   
REMARK 500  1 ALA A  64      109.89    -37.84                                   
REMARK 500  2 GLN A  10      -70.80    -47.21                                   
REMARK 500  2 GLU A  13      152.87    -45.52                                   
REMARK 500  2 MET A  23       26.88     39.90                                   
REMARK 500  2 PHE A  32       92.25    -60.72                                   
REMARK 500  2 LEU A  41       47.85   -103.03                                   
REMARK 500  2 HIS A  59      -29.25    -38.56                                   
REMARK 500  2 PRO A  67        1.49    -69.76                                   
REMARK 500  3 GLN A  10      -70.44    -46.73                                   
REMARK 500  3 GLU A  13      150.80    -46.35                                   
REMARK 500  3 PHE A  32       97.15    -51.33                                   
REMARK 500  3 LEU A  36      -36.16   -131.28                                   
REMARK 500  3 ALA A  64      120.08    -33.58                                   
REMARK 500  3 PRO A  67     -177.06    -69.78                                   
REMARK 500  4 GLN A  10      -73.29    -46.46                                   
REMARK 500  4 GLU A  13      153.01    -45.68                                   
REMARK 500  4 MET A  23       29.64     39.98                                   
REMARK 500  4 PHE A  32       92.07    -59.01                                   
REMARK 500  5 GLU A  13      151.92    -48.60                                   
REMARK 500  5 MET A  23       32.46     38.78                                   
REMARK 500  5 PHE A  32       90.10    -47.68                                   
REMARK 500  5 LEU A  36      -35.40   -132.22                                   
REMARK 500  5 LEU A  41       38.39    -99.62                                   
REMARK 500  5 HIS A  59      -34.46    -36.18                                   
REMARK 500  5 ALA A  64      126.91    -33.95                                   
REMARK 500  6 SER A   2       42.65    -94.00                                   
REMARK 500  6 GLN A  10      -72.13    -47.85                                   
REMARK 500  6 GLU A  13      152.43    -49.28                                   
REMARK 500  6 MET A  23       27.10     42.99                                   
REMARK 500  6 PHE A  32       91.38    -49.76                                   
REMARK 500  6 LEU A  36      -34.33   -131.30                                   
REMARK 500  6 LEU A  41       45.27   -103.51                                   
REMARK 500  6 ALA A  64      119.43    -38.81                                   
REMARK 500  6 PRO A  67     -176.63    -69.77                                   
REMARK 500  7 GLN A  10      -71.03    -52.72                                   
REMARK 500  7 GLU A  13      159.31    -44.01                                   
REMARK 500  7 MET A  23       28.76     43.02                                   
REMARK 500  7 PHE A  32       91.99    -49.35                                   
REMARK 500  7 ASN A  49      119.36   -169.19                                   
REMARK 500  7 SER A  65      108.01    -48.31                                   
REMARK 500  7 SER A  69      114.66   -166.84                                   
REMARK 500  8 GLU A  13      156.90    -43.65                                   
REMARK 500  8 PHE A  32       92.98    -52.23                                   
REMARK 500  8 LEU A  41       40.77   -100.85                                   
REMARK 500  8 ALA A  64      120.17    -35.62                                   
REMARK 500  8 PRO A  67        2.44    -69.82                                   
REMARK 500  8 SER A  69      150.30    -48.50                                   
REMARK 500  9 GLU A  13      150.81    -47.51                                   
REMARK 500  9 PHE A  32       82.95    -53.36                                   
REMARK 500  9 VAL A  40      110.49    -39.64                                   
REMARK 500  9 ALA A  64      123.02    -38.18                                   
REMARK 500  9 PRO A  67        2.62    -69.83                                   
REMARK 500 10 GLN A  10      -70.78    -47.19                                   
REMARK 500 10 GLU A  13      152.04    -45.20                                   
REMARK 500 10 MET A  23       32.12     38.98                                   
REMARK 500 10 PHE A  32       83.34    -52.49                                   
REMARK 500 10 VAL A  40      111.61    -37.99                                   
REMARK 500 10 ALA A  50       28.85     44.11                                   
REMARK 500 10 SER A  69      102.49    -45.38                                   
REMARK 500 11 GLU A  13      151.79    -44.27                                   
REMARK 500 11 MET A  23       28.81     41.82                                   
REMARK 500 11 PHE A  32       93.82    -52.41                                   
REMARK 500 11 LEU A  41       41.48   -101.70                                   
REMARK 500 11 ALA A  64      105.35    -45.91                                   
REMARK 500 11 PRO A  67     -174.74    -69.75                                   
REMARK 500 12 GLN A  10      -70.63    -49.30                                   
REMARK 500 12 GLU A  13      158.21    -42.56                                   
REMARK 500 12 MET A  23       26.43     44.18                                   
REMARK 500 12 PHE A  32       88.71    -54.81                                   
REMARK 500 12 CYS A  34      156.30    -45.89                                   
REMARK 500 12 LEU A  36      -36.82   -130.66                                   
REMARK 500 12 ASN A  49      114.24   -167.25                                   
REMARK 500 12 HIS A  59      -37.68    -39.80                                   
REMARK 500 12 SER A  68      109.30    -58.48                                   
REMARK 500 13 GLU A  13      150.86    -45.94                                   
REMARK 500 13 PHE A  32       92.88    -58.31                                   
REMARK 500 14 GLN A  10      -72.88    -47.92                                   
REMARK 500 14 GLU A  13      152.13    -46.67                                   
REMARK 500 14 MET A  23       32.08     39.07                                   
REMARK 500 14 PRO A  29        0.42    -69.78                                   
REMARK 500 14 PHE A  32       93.16    -60.01                                   
REMARK 500 14 LEU A  41       43.43   -103.35                                   
REMARK 500 14 ALA A  50       27.34     42.80                                   
REMARK 500 14 HIS A  59      -37.80    -38.41                                   
REMARK 500 14 PRO A  67       10.84    -69.81                                   
REMARK 500 14 SER A  68      130.12    -31.02                                   
REMARK 500 15 SER A   6      125.07   -174.86                                   
REMARK 500 15 GLU A  13      151.88    -47.93                                   
REMARK 500 15 PHE A  32       88.72    -48.03                                   
REMARK 500 15 LEU A  36      -34.63   -130.43                                   
REMARK 500 15 LEU A  41       41.93   -102.88                                   
REMARK 500 15 ALA A  64      100.25    -35.56                                   
REMARK 500 15 SER A  65       45.74   -103.37                                   
REMARK 500 15 PRO A  67        0.48    -69.81                                   
REMARK 500 16 GLN A  10      -73.46    -52.23                                   
REMARK 500 16 MET A  23       28.76     41.89                                   
REMARK 500 16 PHE A  32       94.30    -50.72                                   
REMARK 500 16 LEU A  36      -35.71   -131.77                                   
REMARK 500 16 ALA A  64      128.27    -35.96                                   
REMARK 500 16 PRO A  67        0.34    -69.74                                   
REMARK 500 17 SER A   3       43.39    -82.98                                   
REMARK 500 17 SER A   5      -51.20   -120.25                                   
REMARK 500 17 GLN A  10      -72.17    -51.33                                   
REMARK 500 17 GLU A  13      160.65    -44.58                                   
REMARK 500 17 PHE A  32       97.92    -51.15                                   
REMARK 500 17 LEU A  36      -35.34   -131.03                                   
REMARK 500 17 ASN A  49      113.88   -170.28                                   
REMARK 500 17 HIS A  59      -34.28    -37.44                                   
REMARK 500 18 SER A   6       32.33    -85.42                                   
REMARK 500 18 GLN A  10      -71.90    -47.11                                   
REMARK 500 18 GLU A  13      160.07    -43.79                                   
REMARK 500 18 MET A  23       29.61     41.61                                   
REMARK 500 18 PHE A  32       81.36    -54.82                                   
REMARK 500 18 ALA A  64      120.12    -37.39                                   
REMARK 500 19 GLU A  13      150.52    -43.97                                   
REMARK 500 19 MET A  23       29.30     49.33                                   
REMARK 500 19 PHE A  32       81.96    -54.77                                   
REMARK 500 19 VAL A  40      110.56    -39.02                                   
REMARK 500 19 LEU A  41       39.40    -99.65                                   
REMARK 500 19 PRO A  67        2.92    -69.77                                   
REMARK 500 20 GLN A  10      -71.89    -48.62                                   
REMARK 500 20 GLU A  13      151.07    -47.98                                   
REMARK 500 20 MET A  23       27.13     40.02                                   
REMARK 500 20 PHE A  32       92.37    -60.31                                   
REMARK 500 20 ALA A  64       43.28    -82.79                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 620                                                                      
REMARK 620 METAL COORDINATION                                                   
REMARK 620  (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;              
REMARK 620  SSEQ=SEQUENCE NUMBER; I=INSERTION CODE):                            
REMARK 620                                                                      
REMARK 620 COORDINATION ANGLES FOR:  M RES CSSEQI METAL                         
REMARK 620                           1  ZN A 201  ZN                            
REMARK 620 N RES CSSEQI ATOM                                                    
REMARK 620 1 HIS A  28   ND1                                                    
REMARK 620 2 CYS A   8   SG  104.7                                              
REMARK 620 3 CYS A  11   SG  105.0 101.6                                        
REMARK 620 4 CYS A  31   SG  117.7 113.1 113.2                                  
REMARK 620 N                    1     2     3                                   
REMARK 620                                                                      
REMARK 620 COORDINATION ANGLES FOR:  M RES CSSEQI METAL                         
REMARK 620                           1  ZN A 401  ZN                            
REMARK 620 N RES CSSEQI ATOM                                                    
REMARK 620 1 CYS A  58   SG                                                     
REMARK 620 2 CYS A  34   SG  114.8                                              
REMARK 620 3 CYS A  37   SG  110.3 102.3                                        
REMARK 620 4 CYS A  55   SG  108.9 114.5 105.3                                  
REMARK 620 N                    1     2     3                                   
REMARK 800                                                                      
REMARK 800 SITE                                                                 
REMARK 800 SITE_IDENTIFIER: AC1                                                 
REMARK 800 EVIDENCE_CODE: SOFTWARE                                              
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 201                  
REMARK 800 SITE_IDENTIFIER: AC2                                                 
REMARK 800 EVIDENCE_CODE: SOFTWARE                                              
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401                  
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: HSS001001107.2   RELATED DB: TARGETDB                    
DBREF  2D8X A    8    64  UNP    P48059   PINC_HUMAN      70    126             
SEQADV 2D8X GLY A    1  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A    2  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A    3  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X GLY A    4  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A    5  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A    6  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X GLY A    7  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A   65  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X GLY A   66  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X PRO A   67  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A   68  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X SER A   69  UNP  P48059              CLONING ARTIFACT               
SEQADV 2D8X GLY A   70  UNP  P48059              CLONING ARTIFACT               
SEQRES   1 A   70  GLY SER SER GLY SER SER GLY CYS HIS GLN CYS GLY GLU          
SEQRES   2 A   70  PHE ILE ILE GLY ARG VAL ILE LYS ALA MET ASN ASN SER          
SEQRES   3 A   70  TRP HIS PRO GLU CYS PHE ARG CYS ASP LEU CYS GLN GLU          
SEQRES   4 A   70  VAL LEU ALA ASP ILE GLY PHE VAL LYS ASN ALA GLY ARG          
SEQRES   5 A   70  HIS LEU CYS ARG PRO CYS HIS ASN ARG GLU LYS ALA SER          
SEQRES   6 A   70  GLY PRO SER SER GLY                                          
HET     ZN  A 201       1                                                       
HET     ZN  A 401       1                                                       
HETNAM      ZN ZINC ION                                                         
FORMUL   2   ZN    2(ZN 2+)                                                     
HELIX    1   1 CYS A   55  ALA A   64  1                                  10    
SHEET    1   A 2 ILE A  20  ALA A  22  0                                        
SHEET    2   A 2 ASN A  25  TRP A  27 -1  O  ASN A  25   N  ALA A  22           
SHEET    1   B 2 VAL A  47  ASN A  49  0                                        
SHEET    2   B 2 ARG A  52  LEU A  54 -1  O  LEU A  54   N  VAL A  47           
LINK         ND1 HIS A  28                ZN    ZN A 201     1555   1555  2.05  
LINK         SG  CYS A   8                ZN    ZN A 201     1555   1555  2.36  
LINK         SG  CYS A  11                ZN    ZN A 201     1555   1555  2.35  
LINK         SG  CYS A  31                ZN    ZN A 201     1555   1555  2.26  
LINK         SG  CYS A  58                ZN    ZN A 401     1555   1555  2.05  
LINK         SG  CYS A  34                ZN    ZN A 401     1555   1555  2.34  
LINK         SG  CYS A  37                ZN    ZN A 401     1555   1555  2.35  
LINK         SG  CYS A  55                ZN    ZN A 401     1555   1555  2.24  
SITE     1 AC1  4 CYS A   8  CYS A  11  HIS A  28  CYS A  31                    
SITE     1 AC2  4 CYS A  34  CYS A  37  CYS A  55  CYS A  58                    
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