PDB Short entry for 1LSL
HEADER    CELL ADHESION                           17-MAY-02   1LSL              
TITLE     CRYSTAL STRUCTURE OF THE THROMBOSPONDIN-1 TYPE 1 REPEATS              
CAVEAT     1LSL    FUC A 1489 HAS WRONG CHIRALITY AT ATOM C1                    
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: THROMBOSPONDIN 1;                                          
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: TSP TYPE 1 REPEATS 2 AND 3 (RESIDUES 434-546);             
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 GENE: THBS1;                                                         
SOURCE   6 EXPRESSION_SYSTEM: DROSOPHILA;                                       
SOURCE   7 EXPRESSION_SYSTEM_COMMON: FRUIT FLIES;                               
SOURCE   8 EXPRESSION_SYSTEM_TAXID: 7215;                                       
SOURCE   9 EXPRESSION_SYSTEM_CELL: S2 CELLS;                                    
SOURCE  10 EXPRESSION_SYSTEM_VECTOR_TYPE: EUKARYOTIC;                           
SOURCE  11 EXPRESSION_SYSTEM_PLASMID: PMT-BIP-V5-HIS A                          
KEYWDS    TSP-1, TSR, CELL ADHESION                                             
EXPDTA    X-RAY DIFFRACTION                                                     
AUTHOR    K.TAN,M.DUQUETTE,J.LIU,Y.DONG,R.ZHANG,A.JOACHIMIAK,J.LAWLER,J.-H.WANG 
REVDAT   3   29-JUL-20 1LSL    1       CAVEAT COMPND REMARK HETNAM              
REVDAT   3 2                   1       LINK   SITE                              
REVDAT   2   24-FEB-09 1LSL    1       VERSN                                    
REVDAT   1   18-DEC-02 1LSL    0                                                
JRNL        AUTH   K.TAN,M.DUQUETTE,J.H.LIU,Y.DONG,R.ZHANG,A.JOACHIMIAK,        
JRNL        AUTH 2 J.LAWLER,J.H.WANG                                            
JRNL        TITL   CRYSTAL STRUCTURE OF THE TSP-1 TYPE 1 REPEATS: A NOVEL       
JRNL        TITL 2 LAYERED FOLD AND ITS BIOLOGICAL IMPLICATION.                 
JRNL        REF    J.CELL BIOL.                  V. 159   373 2002              
JRNL        REFN                   ISSN 0021-9525                               
JRNL        PMID   12391027                                                     
JRNL        DOI    10.1083/JCB.200206062                                        
REMARK   2                                                                      
REMARK   2 RESOLUTION.    1.90 ANGSTROMS.                                       
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : X-PLOR 3.851                                         
REMARK   3   AUTHORS     : BRUNGER                                              
REMARK   3                                                                      
REMARK   3  DATA USED IN REFINEMENT.                                            
REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90                           
REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 20.00                          
REMARK   3   DATA CUTOFF            (SIGMA(F)) : 0.000                          
REMARK   3   DATA CUTOFF HIGH         (ABS(F)) : NULL                           
REMARK   3   DATA CUTOFF LOW          (ABS(F)) : NULL                           
REMARK   3   COMPLETENESS (WORKING+TEST)   (%) : 99.8                           
REMARK   3   NUMBER OF REFLECTIONS             : 15123                          
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
REMARK   3   CROSS-VALIDATION METHOD          : NULL                            
REMARK   3   FREE R VALUE TEST SET SELECTION  : RANDOM                          
REMARK   3   R VALUE            (WORKING SET) : 0.238                           
REMARK   3   FREE R VALUE                     : 0.282                           
REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 10.000                          
REMARK   3   FREE R VALUE TEST SET COUNT      : 1533                            
REMARK   3   ESTIMATED ERROR OF FREE R VALUE  : NULL                            
REMARK   3                                                                      
REMARK   3  FIT IN THE HIGHEST RESOLUTION BIN.                                  
REMARK   3   TOTAL NUMBER OF BINS USED           : 8                            
REMARK   3   BIN RESOLUTION RANGE HIGH       (A) : 1.90                         
REMARK   3   BIN RESOLUTION RANGE LOW        (A) : 1.99                         
REMARK   3   BIN COMPLETENESS (WORKING+TEST) (%) : NULL                         
REMARK   3   REFLECTIONS IN BIN    (WORKING SET) : 1545                         
REMARK   3   BIN R VALUE           (WORKING SET) : 0.4390                       
REMARK   3   BIN FREE R VALUE                    : 0.4570                       
REMARK   3   BIN FREE R VALUE TEST SET SIZE  (%) : NULL                         
REMARK   3   BIN FREE R VALUE TEST SET COUNT     : 168                          
REMARK   3   ESTIMATED ERROR OF BIN FREE R VALUE : NULL                         
REMARK   3                                                                      
REMARK   3  NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.                    
REMARK   3   PROTEIN ATOMS            : 844                                     
REMARK   3   NUCLEIC ACID ATOMS       : 0                                       
REMARK   3   HETEROGEN ATOMS          : 20                                      
REMARK   3   SOLVENT ATOMS            : 154                                     
REMARK   3                                                                      
REMARK   3  B VALUES.                                                           
REMARK   3   FROM WILSON PLOT           (A**2) : 26.40                          
REMARK   3   MEAN B VALUE      (OVERALL, A**2) : 42.28                          
REMARK   3   OVERALL ANISOTROPIC B VALUE.                                       
REMARK   3    B11 (A**2) : NULL                                                 
REMARK   3    B22 (A**2) : NULL                                                 
REMARK   3    B33 (A**2) : NULL                                                 
REMARK   3    B12 (A**2) : NULL                                                 
REMARK   3    B13 (A**2) : NULL                                                 
REMARK   3    B23 (A**2) : NULL                                                 
REMARK   3                                                                      
REMARK   3  ESTIMATED COORDINATE ERROR.                                         
REMARK   3   ESD FROM LUZZATI PLOT        (A) : 0.32                            
REMARK   3   ESD FROM SIGMAA              (A) : 0.32                            
REMARK   3   LOW RESOLUTION CUTOFF        (A) : 3.00                            
REMARK   3                                                                      
REMARK   3  CROSS-VALIDATED ESTIMATED COORDINATE ERROR.                         
REMARK   3   ESD FROM C-V LUZZATI PLOT    (A) : 0.35                            
REMARK   3   ESD FROM C-V SIGMAA          (A) : 0.35                            
REMARK   3                                                                      
REMARK   3  RMS DEVIATIONS FROM IDEAL VALUES.                                   
REMARK   3   BOND LENGTHS                 (A) : 0.008                           
REMARK   3   BOND ANGLES            (DEGREES) : 1.631                           
REMARK   3   DIHEDRAL ANGLES        (DEGREES) : 27.85                           
REMARK   3   IMPROPER ANGLES        (DEGREES) : 0.825                           
REMARK   3                                                                      
REMARK   3  ISOTROPIC THERMAL MODEL : NULL                                      
REMARK   3                                                                      
REMARK   3  ISOTROPIC THERMAL FACTOR RESTRAINTS.    RMS    SIGMA                
REMARK   3   MAIN-CHAIN BOND              (A**2) : NULL  ; NULL                 
REMARK   3   MAIN-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
REMARK   3   SIDE-CHAIN BOND              (A**2) : NULL  ; NULL                 
REMARK   3   SIDE-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
REMARK   3                                                                      
REMARK   3  NCS MODEL : NULL                                                    
REMARK   3                                                                      
REMARK   3  NCS RESTRAINTS.                         RMS   SIGMA/WEIGHT          
REMARK   3   GROUP  1  POSITIONAL            (A) : NULL  ; NULL                 
REMARK   3   GROUP  1  B-FACTOR           (A**2) : NULL  ; NULL                 
REMARK   3                                                                      
REMARK   3  PARAMETER FILE  1  : NULL                                           
REMARK   3  TOPOLOGY FILE  1   : NULL                                           
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 1LSL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAY-02.                  
REMARK 100 THE DEPOSITION ID IS D_1000016244.                                   
REMARK 200                                                                      
REMARK 200 EXPERIMENTAL DETAILS                                                 
REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
REMARK 200  DATE OF DATA COLLECTION        : 17-DEC-00; 17-DEC-00               
REMARK 200  TEMPERATURE           (KELVIN) : 100; 100                           
REMARK 200  PH                             : 5.5                                
REMARK 200  NUMBER OF CRYSTALS USED        : 2                                  
REMARK 200                                                                      
REMARK 200  SYNCHROTRON              (Y/N) : Y; Y                               
REMARK 200  RADIATION SOURCE               : APS; APS                           
REMARK 200  BEAMLINE                       : 19-ID; 19-ID                       
REMARK 200  X-RAY GENERATOR MODEL          : NULL; NULL                         
REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M; M                               
REMARK 200  WAVELENGTH OR RANGE        (A) : 1.00803, 1.00808, 1.0596;          
REMARK 200                                   1.10000                            
REMARK 200  MONOCHROMATOR                  : GRAPHITE; GRAPHITE                 
REMARK 200  OPTICS                         : NULL; NULL                         
REMARK 200                                                                      
REMARK 200  DETECTOR TYPE                  : CCD; CCD                           
REMARK 200  DETECTOR MANUFACTURER          : ADSC QUANTUM 4; ADSC QUANTUM 4     
REMARK 200  INTENSITY-INTEGRATION SOFTWARE : HKL-2000                           
REMARK 200  DATA SCALING SOFTWARE          : HKL-2000                           
REMARK 200                                                                      
REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 15123                              
REMARK 200  RESOLUTION RANGE HIGH      (A) : 1.900                              
REMARK 200  RESOLUTION RANGE LOW       (A) : 20.000                             
REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : 0.000                              
REMARK 200                                                                      
REMARK 200 OVERALL.                                                             
REMARK 200  COMPLETENESS FOR RANGE     (%) : 99.8                               
REMARK 200  DATA REDUNDANCY                : NULL                               
REMARK 200  R MERGE                    (I) : 0.07500                            
REMARK 200  R SYM                      (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR THE DATA SET  : 14.6000                            
REMARK 200                                                                      
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 1.97                     
REMARK 200  COMPLETENESS FOR SHELL     (%) : 99.7                               
REMARK 200  DATA REDUNDANCY IN SHELL       : NULL                               
REMARK 200  R MERGE FOR SHELL          (I) : 0.46900                            
REMARK 200  R SYM FOR SHELL            (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR SHELL         : 3.800                              
REMARK 200                                                                      
REMARK 200 DIFFRACTION PROTOCOL: MAD; SINGLE WAVELENGTH                         
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD                          
REMARK 200 SOFTWARE USED: MLPHARE                                               
REMARK 200 STARTING MODEL: NULL                                                 
REMARK 200                                                                      
REMARK 200 REMARK: NULL                                                         
REMARK 280                                                                      
REMARK 280 CRYSTAL                                                              
REMARK 280 SOLVENT CONTENT, VS   (%): 65.20                                     
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.56                     
REMARK 280                                                                      
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5 M SODIUM POTASSIUM TARTRATE AND      
REMARK 280  0.1 M SODIUM ACETATE, PH 5.5, VAPOR DIFFUSION, HANGING DROP,        
REMARK 280  TEMPERATURE 298K                                                    
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1                          
REMARK 290                                                                      
REMARK 290      SYMOP   SYMMETRY                                                
REMARK 290     NNNMMM   OPERATOR                                                
REMARK 290       1555   X,Y,Z                                                   
REMARK 290       2555   -X,Y,-Z                                                 
REMARK 290       3555   X+1/2,Y+1/2,Z                                           
REMARK 290       4555   -X+1/2,Y+1/2,-Z                                         
REMARK 290                                                                      
REMARK 290     WHERE NNN -> OPERATOR NUMBER                                     
REMARK 290           MMM -> TRANSLATION VECTOR                                  
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS                            
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM             
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY                
REMARK 290 RELATED MOLECULES.                                                   
REMARK 290   SMTRY1   1  1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY2   1  0.000000  1.000000  0.000000        0.00000            
REMARK 290   SMTRY3   1  0.000000  0.000000  1.000000        0.00000            
REMARK 290   SMTRY1   2 -1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY2   2  0.000000  1.000000  0.000000        0.00000            
REMARK 290   SMTRY3   2  0.000000  0.000000 -1.000000        0.00000            
REMARK 290   SMTRY1   3  1.000000  0.000000  0.000000       33.81500            
REMARK 290   SMTRY2   3  0.000000  1.000000  0.000000       42.20500            
REMARK 290   SMTRY3   3  0.000000  0.000000  1.000000        0.00000            
REMARK 290   SMTRY1   4 -1.000000  0.000000  0.000000       33.81500            
REMARK 290   SMTRY2   4  0.000000  1.000000  0.000000       42.20500            
REMARK 290   SMTRY3   4  0.000000  0.000000 -1.000000        0.00000            
REMARK 290                                                                      
REMARK 290 REMARK: NULL                                                         
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    CYS A 490      -65.86   -169.58                                   
REMARK 500    ASN A 502       17.97   -145.07                                   
REMARK 500    ASN A 524       29.86     48.15                                   
REMARK 500    ASP A 527      105.12    -30.99                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
DBREF  1LSL A  416   528  UNP    P07996   TSP1_HUMAN     434    546             
SEQRES   1 A  113  GLN ASP GLY GLY TRP SER HIS TRP SER PRO TRP SER SER          
SEQRES   2 A  113  CYS SER VAL THR CYS GLY ASP GLY VAL ILE THR ARG ILE          
SEQRES   3 A  113  ARG LEU CYS ASN SER PRO SER PRO GLN MET ASN GLY LYS          
SEQRES   4 A  113  PRO CYS GLU GLY GLU ALA ARG GLU THR LYS ALA CYS LYS          
SEQRES   5 A  113  LYS ASP ALA CYS PRO ILE ASN GLY GLY TRP GLY PRO TRP          
SEQRES   6 A  113  SER PRO TRP ASP ILE CYS SER VAL THR CYS GLY GLY GLY          
SEQRES   7 A  113  VAL GLN LYS ARG SER ARG LEU CYS ASN ASN PRO THR PRO          
SEQRES   8 A  113  GLN PHE GLY GLY LYS ASP CYS VAL GLY ASP VAL THR GLU          
SEQRES   9 A  113  ASN GLN ILE CYS ASN LYS GLN ASP CYS                          
MODRES 1LSL THR A  432  THR  GLYCOSYLATION SITE                                 
MODRES 1LSL THR A  489  THR  GLYCOSYLATION SITE                                 
HET    FUL  A1432      10                                                       
HET    FUC  A1489      10                                                       
HETNAM     FUL BETA-L-FUCOPYRANOSE                                              
HETNAM     FUC ALPHA-L-FUCOPYRANOSE                                             
HETSYN     FUL 6-DEOXY-BETA-L-GALACTOSE                                         
FORMUL   2  FUL    C6 H12 O5                                                    
FORMUL   3  FUC    C6 H12 O5                                                    
FORMUL   4  HOH   *154(H2 O)                                                    
SHEET    1   A 2 ASP A 435  ILE A 441  0                                        
SHEET    2   A 2 ARG A 461  LYS A 467 -1  O  LYS A 464   N  ILE A 438           
SHEET    1   B 2 GLY A 493  SER A 498  0                                        
SHEET    2   B 2 THR A 518  CYS A 523 -1  O  GLU A 519   N  ARG A 497           
SSBOND   1 CYS A  429    CYS A  466                          1555   1555  2.04  
SSBOND   2 CYS A  433    CYS A  471                          1555   1555  2.04  
SSBOND   3 CYS A  444    CYS A  456                          1555   1555  2.04  
SSBOND   4 CYS A  486    CYS A  523                          1555   1555  2.03  
SSBOND   5 CYS A  490    CYS A  528                          1555   1555  2.04  
SSBOND   6 CYS A  501    CYS A  513                          1555   1555  2.05  
LINK         OG1 THR A 432                 C1  FUL A1432     1555   1555  1.40  
LINK         OG1 THR A 489                 C1  FUC A1489     1555   1555  1.41  
CISPEP   1 SER A  446    PRO A  447          0        -0.07                     
CISPEP   2 ASN A  503    PRO A  504          0         0.29                     
CRYST1   67.630   84.410   37.170  90.00 108.67  90.00 C 1 2 1       4          
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      0.014786  0.000000  0.004996        0.00000                         
SCALE2      0.000000  0.011847  0.000000        0.00000                         
SCALE3      0.000000  0.000000  0.028398        0.00000