HEADER    SIGNALING PROTEIN                       04-FEB-14   3J6C              
TITLE     CRYO-EM STRUCTURE OF MAVS CARD FILAMENT                               
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: MITOCHONDRIAL ANTIVIRAL-SIGNALING PROTEIN;                 
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: CASPASE ACTIVATION RECRUITMENT DOMAIN (UNP RESIDUES 3-93); 
COMPND   5 SYNONYM: MAVS, CARD ADAPTER INDUCING INTERFERON BETA, CARDIF,        
COMPND   6 INTERFERON BETA PROMOTER STIMULATOR PROTEIN 1, IPS-1, PUTATIVE NF-   
COMPND   7 KAPPA-B-ACTIVATING PROTEIN 031N, VIRUS-INDUCED-SIGNALING ADAPTER,    
COMPND   8 VISA;                                                                
COMPND   9 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: MAVS, IPS1, KIAA1271, VISA;                                    
SOURCE   6 EXPRESSION_SYSTEM: HOMO SAPIENS;                                     
SOURCE   7 EXPRESSION_SYSTEM_COMMON: HUMAN;                                     
SOURCE   8 EXPRESSION_SYSTEM_TAXID: 9606;                                       
SOURCE   9 EXPRESSION_SYSTEM_CELL_LINE: HEK293T;                                
SOURCE  10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;                              
SOURCE  11 EXPRESSION_SYSTEM_PLASMID: PCDNA3                                    
KEYWDS    INNATE IMMUNITY, HELICAL FILAMENT, SIGNALING PROTEIN                  
EXPDTA    ELECTRON MICROSCOPY                                                   
AUTHOR    H.XU,X.HE,H.ZHENG,L.J.HUANG,F.HOU,Z.YU,M.J.DE LA CRUZ,B.BORKOWSKI,    
AUTHOR   2 X.ZHANG,Z.J.CHEN,Q.-X.JIANG                                          
REVDAT   3   21-FEB-24 3J6C    1       REMARK SEQADV                            
REVDAT   2   18-JUL-18 3J6C    1       REMARK                                   
REVDAT   1   05-MAR-14 3J6C    0                                                
JRNL        AUTH   H.XU,X.HE,H.ZHENG,L.J.HUANG,F.HOU,Z.YU,M.J.DE LA CRUZ,       
JRNL        AUTH 2 B.BORKOWSKI,X.ZHANG,Z.J.CHEN,Q.X.JIANG                       
JRNL        TITL   STRUCTURAL BASIS FOR THE PRION-LIKE MAVS FILAMENTS IN        
JRNL        TITL 2 ANTIVIRAL INNATE IMMUNITY.                                   
JRNL        REF    ELIFE                         V.   3 01489 2014              
JRNL        REFN                   ESSN 2050-084X                               
JRNL        PMID   24569476                                                     
JRNL        DOI    10.7554/ELIFE.01489                                          
REMARK   1                                                                      
REMARK   1 REFERENCE 1                                                          
REMARK   1  AUTH   J.A.POTTER,R.E.RANDALL,G.L.TAYLOR                            
REMARK   1  TITL   CRYSTAL STRUCTURE OF HUMAN IPS-1/MAVS/VISA/CARDIF CASPASE    
REMARK   1  TITL 2 ACTIVATION RECRUITMENT DOMAIN.                               
REMARK   1  REF    BMC STRUCT.BIOL.              V.   8    11 2008              
REMARK   1  REFN                   ESSN 1472-6807                               
REMARK   1  PMID   18307765                                                     
REMARK   1  DOI    10.1186/1472-6807-8-11                                       
REMARK   2                                                                      
REMARK   2 RESOLUTION.    9.60 ANGSTROMS.                                       
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   SOFTWARE PACKAGES      : SITUS, UCSF CHIMERA, EMAN, IMAGIC, MRC,   
REMARK   3                            SPIDER                                    
REMARK   3   RECONSTRUCTION SCHEMA  : NULL                                      
REMARK   3                                                                      
REMARK   3 EM MAP-MODEL FITTING AND REFINEMENT                                  
REMARK   3   PDB ENTRY                    : 2VGQ                                
REMARK   3   REFINEMENT SPACE             : REAL                                
REMARK   3   REFINEMENT PROTOCOL          : RIGID BODY FIT                      
REMARK   3   REFINEMENT TARGET            : NULL                                
REMARK   3   OVERALL ANISOTROPIC B VALUE  : NULL                                
REMARK   3                                                                      
REMARK   3 FITTING PROCEDURE : REFINEMENT PROTOCOL--RIGID BODY DETAILS--THE     
REMARK   3  DOCKING OF ONE X-RAY MODEL INTO A SEGMENTED MAP CORRESPONDING TO    
REMARK   3  ONE SUBUNIT WAS FIRST DONE MANUALLY IN CHIMERA, AND THEN            
REMARK   3  OPTIMIZED USING SITUS.                                              
REMARK   3                                                                      
REMARK   3 EM IMAGE RECONSTRUCTION STATISTICS                                   
REMARK   3   NOMINAL PIXEL SIZE (ANGSTROMS)    : 2.333                          
REMARK   3   ACTUAL PIXEL SIZE  (ANGSTROMS)    : NULL                           
REMARK   3   EFFECTIVE RESOLUTION (ANGSTROMS)  : 9.600                          
REMARK   3   NUMBER OF PARTICLES               : NULL                           
REMARK   3   CTF CORRECTION METHOD             : NULL                           
REMARK   3                                                                      
REMARK   3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL                    
REMARK   3                                                                      
REMARK   3 OTHER DETAILS: FINAL DATA WERE CALCULATED FROM THREE SEPARATE        
REMARK   3  DATASETS FROM THREE SESSIONS OF DATA COLLECTION. THE HANDEDNESS     
REMARK   3  OF THE MAP WAS DETERMINED BY CRYO-ELECTRON TOMOGRAPHY (HELICAL      
REMARK   3  DETAILS: IHRSR).                                                    
REMARK   4                                                                      
REMARK   4 3J6C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-14.                  
REMARK 100 THE DEPOSITION ID IS D_1000160306.                                   
REMARK 245                                                                      
REMARK 245 EXPERIMENTAL DETAILS                                                 
REMARK 245   RECONSTRUCTION METHOD          : HELICAL                           
REMARK 245   SPECIMEN TYPE                  : VITREOUS ICE (CRYO EM)            
REMARK 245                                                                      
REMARK 245 ELECTRON MICROSCOPE SAMPLE                                           
REMARK 245   SAMPLE TYPE                    : FILAMENT                          
REMARK 245   PARTICLE TYPE                  : HELICAL                           
REMARK 245   NAME OF SAMPLE                 : MAVS CARD FILAMENT                
REMARK 245   SAMPLE CONCENTRATION (MG ML-1) : NULL                              
REMARK 245   SAMPLE SUPPORT DETAILS         : QUANTIFOIL GRIDS COATED WITH      
REMARK 245                                    THIN CARBON ON TOP                
REMARK 245   SAMPLE VITRIFICATION DETAILS   : PLUNGED INTO LIQUID ETHANE (FEI   
REMARK 245                                    VITROBOT MARK III)                
REMARK 245   SAMPLE BUFFER                  : 20 MM TRIS-HCL, 50 MM NACL, 1     
REMARK 245                                    MM DTT                            
REMARK 245   PH                             : 7.50                              
REMARK 245   SAMPLE DETAILS                 : POLYMER                           
REMARK 245                                                                      
REMARK 245 DATA ACQUISITION                                                     
REMARK 245   DATE OF EXPERIMENT                : 20-OCT-11                      
REMARK 245   NUMBER OF MICROGRAPHS-IMAGES      : NULL                           
REMARK 245   TEMPERATURE (KELVIN)              : NULL                           
REMARK 245   MICROSCOPE MODEL                  : JEOL 2200FS                    
REMARK 245   DETECTOR TYPE                     : KODAK SO-163 FILM              
REMARK 245   MINIMUM DEFOCUS (NM)              : 800.00                         
REMARK 245   MAXIMUM DEFOCUS (NM)              : 2000.00                        
REMARK 245   MINIMUM TILT ANGLE (DEGREES)      : 0.00                           
REMARK 245   MAXIMUM TILT ANGLE (DEGREES)      : 0.00                           
REMARK 245   NOMINAL CS                        : 2.00                           
REMARK 245   IMAGING MODE                      : BRIGHT FIELD                   
REMARK 245   ELECTRON DOSE (ELECTRONS NM**-2)  : 2000.00                        
REMARK 245   ILLUMINATION MODE                 : FLOOD BEAM                     
REMARK 245   NOMINAL MAGNIFICATION             : 60000                          
REMARK 245   CALIBRATED MAGNIFICATION          : 61950                          
REMARK 245   SOURCE                            : FIELD EMISSION GUN             
REMARK 245   ACCELERATION VOLTAGE (KV)         : 200                            
REMARK 245   IMAGING DETAILS                   : NULL                           
REMARK 247                                                                      
REMARK 247 ELECTRON MICROSCOPY                                                  
REMARK 247  THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON          
REMARK 247  MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE              
REMARK 247  THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES           
REMARK 247  ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION         
REMARK 247  OF THE STRUCTURE FACTORS.                                           
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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR                   
REMARK 300 HELICAL SYMMETRY WITH THE FOLLOWING PARAMETERS:                      
REMARK 300 ROTATION PER SUBUNIT (TWIST) = -53.60 DEGREES                        
REMARK 300 RISE PER SUBUNIT (HEIGHT) = 16.80 ANGSTROMS                          
REMARK 300 IN ADDITION, THERE IS 3-FOLD CIRCULAR                                
REMARK 300 SYMMETRY AROUND THE HELIX AXIS                                       
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 APPLY THE FOLLOWING TO CHAINS: A                                     
REMARK 350   BIOMT1   1 -0.078807  0.996890  0.000000        4.77782            
REMARK 350   BIOMT2   1 -0.996890 -0.078807  0.000000      121.06503            
REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000       67.20000            
REMARK 350   BIOMT1   2  0.755968  0.654609  0.000000      -23.94688            
REMARK 350   BIOMT2   2 -0.654609  0.755968  0.000000       52.41325            
REMARK 350   BIOMT3   2  0.000000  0.000000  1.000000       50.40000            
REMARK 350   BIOMT1   3  0.975381 -0.220527  0.000000       14.29816            
REMARK 350   BIOMT2   3  0.220527  0.975381  0.000000      -11.42634            
REMARK 350   BIOMT3   3  0.000000  0.000000  1.000000       33.60000            
REMARK 350   BIOMT1   4  0.400829 -0.916153  0.000000       88.38128            
REMARK 350   BIOMT2   4  0.916153  0.400829  0.000000      -18.48796            
REMARK 350   BIOMT3   4  0.000000  0.000000  1.000000       16.80000            
REMARK 350   BIOMT1   5 -0.500000 -0.866025  0.000000      137.99843            
REMARK 350   BIOMT2   5  0.866025 -0.500000  0.000000       36.97657            
REMARK 350   BIOMT3   5  0.000000  0.000000  1.000000        0.00000            
REMARK 350   BIOMT1   6 -0.993826 -0.110949  0.000000      122.76099            
REMARK 350   BIOMT2   6  0.110949 -0.993826  0.000000      109.81883            
REMARK 350   BIOMT3   6  0.000000  0.000000  1.000000      -16.80000            
REMARK 350   BIOMT1   7 -0.678673  0.734441  0.000000       55.07231            
REMARK 350   BIOMT2   7 -0.734441 -0.678673  0.000000      140.74485            
REMARK 350   BIOMT3   7  0.000000  0.000000  1.000000      -33.60000            
REMARK 350   BIOMT1   8  0.188924  0.981992  0.000000       -9.96866            
REMARK 350   BIOMT2   8 -0.981992  0.188924  0.000000      104.58067            
REMARK 350   BIOMT3   8  0.000000  0.000000  1.000000      -50.40000            
REMARK 350   BIOMT1   9  0.902736 -0.430196  0.000000       30.76413            
REMARK 350   BIOMT2   9  0.430196  0.902736  0.000000      -19.41823            
REMARK 350   BIOMT3   9  0.000000  0.000000  1.000000       67.20000            
REMARK 350   BIOMT1  10  0.188924 -0.981992  0.000000      104.58067            
REMARK 350   BIOMT2  10  0.981992  0.188924  0.000000       -9.96866            
REMARK 350   BIOMT3  10  0.000000  0.000000  1.000000       50.40000            
REMARK 350   BIOMT1  11 -0.678673 -0.734441  0.000000      140.74485            
REMARK 350   BIOMT2  11  0.734441 -0.678673  0.000000       55.07231            
REMARK 350   BIOMT3  11  0.000000  0.000000  1.000000       33.60000            
REMARK 350   BIOMT1  12 -0.993826  0.110949  0.000000      109.81883            
REMARK 350   BIOMT2  12 -0.110949 -0.993826  0.000000      122.76099            
REMARK 350   BIOMT3  12  0.000000  0.000000  1.000000       16.80000            
REMARK 350   BIOMT1  13  1.000000  0.000000  0.000000        0.00000            
REMARK 350   BIOMT2  13  0.000000  1.000000  0.000000        0.00000            
REMARK 350   BIOMT3  13  0.000000  0.000000  1.000000        0.00000            
REMARK 350   BIOMT1  14 -0.500000  0.866025  0.000000       36.97657            
REMARK 350   BIOMT2  14 -0.866025 -0.500000  0.000000      137.99843            
REMARK 350   BIOMT3  14  0.000000  0.000000  1.000000        0.00000            
REMARK 350   BIOMT1  15  0.400829  0.916153  0.000000      -18.48796            
REMARK 350   BIOMT2  15 -0.916153  0.400829  0.000000       88.38128            
REMARK 350   BIOMT3  15  0.000000  0.000000  1.000000      -16.80000            
REMARK 350   BIOMT1  16  0.975381  0.220527  0.000000      -11.42634            
REMARK 350   BIOMT2  16 -0.220527  0.975381  0.000000       14.29816            
REMARK 350   BIOMT3  16  0.000000  0.000000  1.000000      -33.60000            
REMARK 350   BIOMT1  17  0.755968 -0.654609  0.000000       52.41325            
REMARK 350   BIOMT2  17  0.654609  0.755968  0.000000      -23.94688            
REMARK 350   BIOMT3  17  0.000000  0.000000  1.000000      -50.40000            
REMARK 350   BIOMT1  18 -0.823928 -0.566694  0.000000      139.43305            
REMARK 350   BIOMT2  18  0.566694 -0.823928  0.000000       73.32821            
REMARK 350   BIOMT3  18  0.000000  0.000000  1.000000       67.20000            
REMARK 350   BIOMT1  19 -0.944892  0.327383  0.000000       94.34121            
REMARK 350   BIOMT2  19 -0.327383 -0.944892  0.000000      132.53042            
REMARK 350   BIOMT3  19  0.000000  0.000000  1.000000       50.40000            
REMARK 350   BIOMT1  20 -0.296708  0.954968  0.000000       19.93199            
REMARK 350   BIOMT2  20 -0.954968 -0.296708  0.000000      131.32903            
REMARK 350   BIOMT3  20  0.000000  0.000000  1.000000       33.60000            
REMARK 350   BIOMT1  21  0.592997  0.805204  0.000000      -23.22512            
REMARK 350   BIOMT2  21 -0.805204  0.592997  0.000000       70.70198            
REMARK 350   BIOMT3  21  0.000000  0.000000  1.000000       16.80000            
REMARK 350   BIOMT1  22  0.592997 -0.805204  0.000000       70.70198            
REMARK 350   BIOMT2  22  0.805204  0.592997  0.000000      -23.22512            
REMARK 350   BIOMT3  22  0.000000  0.000000  1.000000      -16.80000            
REMARK 350   BIOMT1  23 -0.296708 -0.954968  0.000000      131.32903            
REMARK 350   BIOMT2  23  0.954968 -0.296708  0.000000       19.93199            
REMARK 350   BIOMT3  23  0.000000  0.000000  1.000000      -33.60000            
REMARK 350   BIOMT1  24 -0.944892 -0.327383  0.000000      132.53042            
REMARK 350   BIOMT2  24  0.327383 -0.944892  0.000000       94.34121            
REMARK 350   BIOMT3  24  0.000000  0.000000  1.000000      -50.40000            
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES                                       
REMARK 500                                                                      
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES              
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE               
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN               
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                 
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)              
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999                        
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996                     
REMARK 500                                                                      
REMARK 500  M RES CSSEQI ATM1   ATM2   ATM3                                     
REMARK 500    PRO A 435   C   -  N   -  CD  ANGL. DEV. =  12.7 DEGREES          
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: TORSION ANGLES                                             
REMARK 500                                                                      
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:            
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;               
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                             
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)                    
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-           
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400            
REMARK 500                                                                      
REMARK 500  M RES CSSEQI        PSI       PHI                                   
REMARK 500    LEU A 450       67.74   -105.20                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: EMD-5890   RELATED DB: EMDB                              
DBREF  3J6C A  372   462  UNP    Q7Z434   MAVS_HUMAN       3     93             
SEQADV 3J6C MET A  370  UNP  Q7Z434              EXPRESSION TAG                 
SEQADV 3J6C ALA A  371  UNP  Q7Z434              EXPRESSION TAG                 
SEQRES   1 A   93  MET ALA PHE ALA GLU ASP LYS THR TYR LYS TYR ILE CYS          
SEQRES   2 A   93  ARG ASN PHE SER ASN PHE CYS ASN VAL ASP VAL VAL GLU          
SEQRES   3 A   93  ILE LEU PRO TYR LEU PRO CYS LEU THR ALA ARG ASP GLN          
SEQRES   4 A   93  ASP ARG LEU ARG ALA THR CYS THR LEU SER GLY ASN ARG          
SEQRES   5 A   93  ASP THR LEU TRP HIS LEU PHE ASN THR LEU GLN ARG ARG          
SEQRES   6 A   93  PRO GLY TRP VAL GLU TYR PHE ILE ALA ALA LEU ARG GLY          
SEQRES   7 A   93  CYS GLU LEU VAL ASP LEU ALA ASP GLU VAL ALA SER VAL          
SEQRES   8 A   93  TYR GLN                                                      
HELIX    1   1 MET A  370  ASN A  384  1                                  15    
HELIX    2   2 PHE A  385  CYS A  389  5                                   5    
HELIX    3   3 ASP A  392  LEU A  397  1                                   6    
HELIX    4   4 PRO A  398  LEU A  400  5                                   3    
HELIX    5   5 THR A  404  GLY A  419  1                                  16    
HELIX    6   6 GLY A  419  GLN A  432  1                                  14    
HELIX    7   7 TRP A  437  CYS A  448  1                                  12    
HELIX    8   8 LEU A  450  GLN A  462  1                                  13    
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