HEADER    VIRAL PROTEIN                           09-NOV-22   8F3B              
TITLE     HIV-1 GP41 COILED-COIL POCKET IQN22                                   
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: IQN22;                                                     
COMPND   3 CHAIN: A, B, C;                                                      
COMPND   4 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 SYNTHETIC: YES;                                                      
SOURCE   3 ORGANISM_SCIENTIFIC: HIV-1 M:B_HXB2R;                                
SOURCE   4 ORGANISM_TAXID: 11706                                                
KEYWDS    HIV-1, GP41, COILED-COIL, POCKET, VIRAL PROTEIN                       
EXPDTA    X-RAY DIFFRACTION                                                     
AUTHOR    T.U.J.BRUUN,S.TANG,D.FERNANDEZ,P.S.KIM                                
REVDAT   3   25-OCT-23 8F3B    1       REMARK                                   
REVDAT   2   05-APR-23 8F3B    1       JRNL                                     
REVDAT   1   08-MAR-23 8F3B    0                                                
JRNL        AUTH   T.U.J.BRUUN,S.TANG,G.ERWIN,L.DEIS,D.FERNANDEZ,P.S.KIM        
JRNL        TITL   STRUCTURE-GUIDED STABILIZATION IMPROVES THE ABILITY OF THE   
JRNL        TITL 2 HIV-1 GP41 HYDROPHOBIC POCKET TO ELICIT NEUTRALIZING         
JRNL        TITL 3 ANTIBODIES.                                                  
JRNL        REF    J.BIOL.CHEM.                  V. 299 03062 2023              
JRNL        REFN                   ESSN 1083-351X                               
JRNL        PMID   36841484                                                     
JRNL        DOI    10.1016/J.JBC.2023.103062                                    
REMARK   2                                                                      
REMARK   2 RESOLUTION.    2.00 ANGSTROMS.                                       
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : PHENIX 1.19.1-4122                                   
REMARK   3   AUTHORS     : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN            
REMARK   3               : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE,           
REMARK   3               : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER,            
REMARK   3               : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY,              
REMARK   3               : REETAL PAI,RANDY READ,JANE RICHARDSON,               
REMARK   3               : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI,           
REMARK   3               : NICHOLAS SAUTER,JACOB SMITH,LAURENT                  
REMARK   3               : STORONI,TOM TERWILLIGER,PETER ZWART                  
REMARK   3                                                                      
REMARK   3    REFINEMENT TARGET : ML                                            
REMARK   3                                                                      
REMARK   3  DATA USED IN REFINEMENT.                                            
REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00                           
REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 30.48                          
REMARK   3   MIN(FOBS/SIGMA_FOBS)              : 1.350                          
REMARK   3   COMPLETENESS FOR RANGE        (%) : 98.5                           
REMARK   3   NUMBER OF REFLECTIONS             : 11255                          
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
REMARK   3   R VALUE     (WORKING + TEST SET) : 0.234                           
REMARK   3   R VALUE            (WORKING SET) : 0.232                           
REMARK   3   FREE R VALUE                     : 0.266                           
REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 5.160                           
REMARK   3   FREE R VALUE TEST SET COUNT      : 581                             
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT (IN BINS).                           
REMARK   3   BIN  RESOLUTION RANGE  COMPL.    NWORK NFREE   RWORK  RFREE        
REMARK   3     1 30.4800 -  3.1700    0.99     2817   150  0.2198 0.2460        
REMARK   3     2  3.1700 -  2.5200    0.99     2655   141  0.2524 0.2662        
REMARK   3     3  2.5200 -  2.2000    0.98     2629   144  0.2354 0.2970        
REMARK   3     4  2.2000 -  2.0000    0.98     2573   146  0.2534 0.3559        
REMARK   3                                                                      
REMARK   3  BULK SOLVENT MODELLING.                                             
REMARK   3   METHOD USED        : FLAT BULK SOLVENT MODEL                       
REMARK   3   SOLVENT RADIUS     : 1.11                                          
REMARK   3   SHRINKAGE RADIUS   : 0.90                                          
REMARK   3   K_SOL              : NULL                                          
REMARK   3   B_SOL              : NULL                                          
REMARK   3                                                                      
REMARK   3  ERROR ESTIMATES.                                                    
REMARK   3   COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED)     : 0.270            
REMARK   3   PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.860           
REMARK   3                                                                      
REMARK   3  B VALUES.                                                           
REMARK   3   FROM WILSON PLOT           (A**2) : NULL                           
REMARK   3   MEAN B VALUE      (OVERALL, A**2) : NULL                           
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  TWINNING INFORMATION.                                               
REMARK   3   FRACTION: NULL                                                     
REMARK   3   OPERATOR: NULL                                                     
REMARK   3                                                                      
REMARK   3  DEVIATIONS FROM IDEAL VALUES.                                       
REMARK   3                 RMSD          COUNT                                  
REMARK   3   BOND      :  0.007           1252                                  
REMARK   3   ANGLE     :  0.828           1670                                  
REMARK   3   CHIRALITY :  0.047            195                                  
REMARK   3   PLANARITY :  0.005            211                                  
REMARK   3   DIHEDRAL  : 14.049            516                                  
REMARK   3                                                                      
REMARK   3  TLS DETAILS                                                         
REMARK   3   NUMBER OF TLS GROUPS  : 1                                          
REMARK   3   TLS GROUP : 1                                                      
REMARK   3    SELECTION: ALL                                                    
REMARK   3    ORIGIN FOR THE GROUP (A):   7.2213   0.6165  21.5992              
REMARK   3    T TENSOR                                                          
REMARK   3      T11:   0.1324 T22:   0.2251                                     
REMARK   3      T33:   0.2579 T12:   0.0134                                     
REMARK   3      T13:  -0.0133 T23:  -0.0103                                     
REMARK   3    L TENSOR                                                          
REMARK   3      L11:   1.3191 L22:   1.1712                                     
REMARK   3      L33:   7.1264 L12:  -0.0665                                     
REMARK   3      L13:  -1.1216 L23:   1.0665                                     
REMARK   3    S TENSOR                                                          
REMARK   3      S11:   0.0673 S12:   0.1251 S13:  -0.0678                       
REMARK   3      S21:   0.0519 S22:  -0.0786 S23:   0.0058                       
REMARK   3      S31:   0.0003 S32:  -0.0615 S33:  -0.0089                       
REMARK   3                                                                      
REMARK   3  NCS DETAILS                                                         
REMARK   3   NUMBER OF NCS GROUPS : NULL                                        
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 8F3B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-NOV-22.                  
REMARK 100 THE DEPOSITION ID IS D_1000269937.                                   
REMARK 200                                                                      
REMARK 200 EXPERIMENTAL DETAILS                                                 
REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
REMARK 200  DATE OF DATA COLLECTION        : 28-FEB-20                          
REMARK 200  TEMPERATURE           (KELVIN) : 100                                
REMARK 200  PH                             : NULL                               
REMARK 200  NUMBER OF CRYSTALS USED        : 1                                  
REMARK 200                                                                      
REMARK 200  SYNCHROTRON              (Y/N) : Y                                  
REMARK 200  RADIATION SOURCE               : SSRL                               
REMARK 200  BEAMLINE                       : BL14-1                             
REMARK 200  X-RAY GENERATOR MODEL          : NULL                               
REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M                                  
REMARK 200  WAVELENGTH OR RANGE        (A) : 0.9795                             
REMARK 200  MONOCHROMATOR                  : NULL                               
REMARK 200  OPTICS                         : NULL                               
REMARK 200                                                                      
REMARK 200  DETECTOR TYPE                  : CCD                                
REMARK 200  DETECTOR MANUFACTURER          : MARMOSAIC 325 MM CCD               
REMARK 200  INTENSITY-INTEGRATION SOFTWARE : NULL                               
REMARK 200  DATA SCALING SOFTWARE          : XDS, SCALA                         
REMARK 200                                                                      
REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 11287                              
REMARK 200  RESOLUTION RANGE HIGH      (A) : 1.980                              
REMARK 200  RESOLUTION RANGE LOW       (A) : 37.050                             
REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : NULL                               
REMARK 200                                                                      
REMARK 200 OVERALL.                                                             
REMARK 200  COMPLETENESS FOR RANGE     (%) : 90.8                               
REMARK 200  DATA REDUNDANCY                : 20.00                              
REMARK 200  R MERGE                    (I) : 0.06400                            
REMARK 200  R SYM                      (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR THE DATA SET  : 26.4000                            
REMARK 200                                                                      
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 2.05                     
REMARK 200  COMPLETENESS FOR SHELL     (%) : NULL                               
REMARK 200  DATA REDUNDANCY IN SHELL       : NULL                               
REMARK 200  R MERGE FOR SHELL          (I) : 0.06400                            
REMARK 200  R SYM FOR SHELL            (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR SHELL         : NULL                               
REMARK 200                                                                      
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH                              
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT        
REMARK 200 SOFTWARE USED: PHASER                                                
REMARK 200 STARTING MODEL: 8F3A                                                 
REMARK 200                                                                      
REMARK 200 REMARK: NULL                                                         
REMARK 280                                                                      
REMARK 280 CRYSTAL                                                              
REMARK 280 SOLVENT CONTENT, VS   (%): 43.25                                     
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17                     
REMARK 280                                                                      
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M DI-AMMONIUM PHOSPHATE AND 40 %     
REMARK 280  MPD, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K                
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21                       
REMARK 290                                                                      
REMARK 290      SYMOP   SYMMETRY                                                
REMARK 290     NNNMMM   OPERATOR                                                
REMARK 290       1555   X,Y,Z                                                   
REMARK 290       2555   -X+1/2,-Y,Z+1/2                                         
REMARK 290       3555   -X,Y+1/2,-Z+1/2                                         
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       13.67950            
REMARK 290   SMTRY2   2  0.000000 -1.000000  0.000000        0.00000            
REMARK 290   SMTRY3   2  0.000000  0.000000  1.000000       75.80200            
REMARK 290   SMTRY1   3 -1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY2   3  0.000000  1.000000  0.000000       19.10850            
REMARK 290   SMTRY3   3  0.000000  0.000000 -1.000000       75.80200            
REMARK 290   SMTRY1   4  1.000000  0.000000  0.000000       13.67950            
REMARK 290   SMTRY2   4  0.000000 -1.000000  0.000000       19.10850            
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: TRIMERIC                          
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC                   
REMARK 350 SOFTWARE USED: PISA                                                  
REMARK 350 TOTAL BURIED SURFACE AREA: 5500 ANGSTROM**2                          
REMARK 350 SURFACE AREA OF THE COMPLEX: 10160 ANGSTROM**2                       
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL                        
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 465                                                                      
REMARK 465 MISSING RESIDUES                                                     
REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE                       
REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN               
REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.)                
REMARK 465                                                                      
REMARK 465   M RES C SSSEQI                                                     
REMARK 465     ACY C     0                                                      
REMARK 465     ARG C     1                                                      
REMARK 470                                                                      
REMARK 470 MISSING ATOM                                                         
REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;           
REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;          
REMARK 470 I=INSERTION CODE):                                                   
REMARK 470   M RES CSSEQI  ATOMS                                                
REMARK 470     TRP A  35    CG   CD1  CD2  NE1  CE2  CE3  CZ2                   
REMARK 470     TRP A  35    CZ3  CH2                                            
REMARK 470     LYS A  38    CG   CD   CE   NZ                                   
REMARK 470     LYS B  17    CG   CD   CE   NZ                                   
REMARK 470     MET C   2    CG   SD   CE                                        
REMARK 470     LYS C   3    CG   CD   CE   NZ                                   
REMARK 470     LYS C   8    NZ                                                  
REMARK 470     LYS C  18    CG   CD   CE   NZ                                   
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT                     
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   O    HOH A   124     O    HOH C   133              2.17            
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
DBREF  8F3B A    0    51  PDB    8F3B     8F3B             0     51             
DBREF  8F3B B    0    51  PDB    8F3B     8F3B             0     51             
DBREF  8F3B C    0    51  PDB    8F3B     8F3B             0     51             
SEQRES   1 A   52  ACY ARG MET LYS GLN ILE GLU ASP LYS ILE GLU GLU ILE          
SEQRES   2 A   52  GLU SER LYS GLN LYS LYS ILE GLU ASN GLU ILE ALA ARG          
SEQRES   3 A   52  ILE LYS LYS LEU LEU GLN LEU THR VAL TRP GLY ILE LYS          
SEQRES   4 A   52  GLN LEU GLN ALA ARG ILE LEU ALA VAL GLU ARG TYR NH2          
SEQRES   1 B   52  ACY ARG MET LYS GLN ILE GLU ASP LYS ILE GLU GLU ILE          
SEQRES   2 B   52  GLU SER LYS GLN LYS LYS ILE GLU ASN GLU ILE ALA ARG          
SEQRES   3 B   52  ILE LYS LYS LEU LEU GLN LEU THR VAL TRP GLY ILE LYS          
SEQRES   4 B   52  GLN LEU GLN ALA ARG ILE LEU ALA VAL GLU ARG TYR NH2          
SEQRES   1 C   52  ACY ARG MET LYS GLN ILE GLU ASP LYS ILE GLU GLU ILE          
SEQRES   2 C   52  GLU SER LYS GLN LYS LYS ILE GLU ASN GLU ILE ALA ARG          
SEQRES   3 C   52  ILE LYS LYS LEU LEU GLN LEU THR VAL TRP GLY ILE LYS          
SEQRES   4 C   52  GLN LEU GLN ALA ARG ILE LEU ALA VAL GLU ARG TYR NH2          
HET    ACY  A   0       3                                                       
HET    NH2  A  51       1                                                       
HET    ACY  B   0       3                                                       
HET    NH2  B  51       1                                                       
HET    NH2  C  51       1                                                       
HETNAM     ACY ACETIC ACID                                                      
HETNAM     NH2 AMINO GROUP                                                      
FORMUL   1  ACY    2(C2 H4 O2)                                                  
FORMUL   1  NH2    3(H2 N)                                                      
FORMUL   4  HOH   *69(H2 O)                                                     
HELIX    1 AA1 ARG A    1  ARG A   49  1                                  49    
HELIX    2 AA2 ARG B    1  TYR B   50  1                                  50    
HELIX    3 AA3 LYS C    3  TYR C   50  1                                  48    
LINK         C   ACY A   0                 N   ARG A   1     1555   1555  1.34  
LINK         C   TYR A  50                 N   NH2 A  51     1555   1555  1.33  
LINK         C   ACY B   0                 N   ARG B   1     1555   1555  1.34  
LINK         C   TYR B  50                 N   NH2 B  51     1555   1555  1.32  
LINK         C   TYR C  50                 N   NH2 C  51     1555   1555  1.33  
CRYST1   27.359   38.217  151.604  90.00  90.00  90.00 P 21 21 21   12          
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      0.036551  0.000000  0.000000        0.00000                         
SCALE2      0.000000  0.026166  0.000000        0.00000                         
SCALE3      0.000000  0.000000  0.006596        0.00000                         
HETATM    1  C   ACY A   0      11.731   9.249  56.530  1.00 55.36           C  
ANISOU    1  C   ACY A   0     7721   8804   4507  -1779   -296   -874       C  
HETATM    2  O   ACY A   0      11.461   9.564  55.368  1.00 63.80           O  
ANISOU    2  O   ACY A   0     8801   9659   5783  -1789   -225   -873       O  
HETATM    3  CH3 ACY A   0      11.863  10.310  57.614  1.00 53.56           C  
ANISOU    3  CH3 ACY A   0     7628   8655   4067  -2042   -244  -1053       C