HEADER VIRUS 27-MAR-11 3RA8 TITLE STRUCTURAL STUDIES OF AAV8 CAPSID TRANSITIONS ASSOCIATED WITH TITLE 2 ENDOSOMAL TRAFFICKING COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ADENO-ASSOCIATED VIRUS - 8; SOURCE 3 ORGANISM_TAXID: 202813; SOURCE 4 STRAIN: SEROTYPE 8; SOURCE 5 GENE: ADENO ASSOCIATED VIRUS; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: MAMMALIAN KIDNEY CELLS HEK293 KEYWDS BETA BARREL, VIRAL CAPSID, VIRUS EXPDTA X-RAY DIFFRACTION AUTHOR H.-J.NAM,B.GURDA,R.MCKENNA,M.PORTER,B.BYRNE,M.SALGANIK,N.MUZYCZKA, AUTHOR 2 M.AGBANDJE-MCKENNA REVDAT 4 21-FEB-24 3RA8 1 REMARK REVDAT 3 26-JUN-13 3RA8 1 JRNL REVDAT 2 16-NOV-11 3RA8 1 CRYST1 REVDAT 1 21-SEP-11 3RA8 0 JRNL AUTH H.J.NAM,B.L.GURDA,R.MCKENNA,M.POTTER,B.BYRNE,M.SALGANIK, JRNL AUTH 2 N.MUZYCZKA,M.AGBANDJE-MCKENNA JRNL TITL STRUCTURAL STUDIES OF ADENO-ASSOCIATED VIRUS SEROTYPE 8 JRNL TITL 2 CAPSID TRANSITIONS ASSOCIATED WITH ENDOSOMAL TRAFFICKING. JRNL REF J.VIROL. V. 85 11791 2011 JRNL REFN ISSN 0022-538X JRNL PMID 21900159 JRNL DOI 10.1128/JVI.05305-11 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 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) (%) : 77.9 REMARK 3 NUMBER OF REFLECTIONS : 185894 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) : 0.245 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.800 REMARK 3 FREE R VALUE TEST SET COUNT : 9148 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 4136 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 85 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.86700 REMARK 3 B22 (A**2) : 7.86700 REMARK 3 B33 (A**2) : -15.73500 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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) : 1.035 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.825 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.694 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.676 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 30.37 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 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : CNS_TOPPAR:CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3RA8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1000064684. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 4 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 185894 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 77.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 57.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM TRIS PH 7.5, 4% PEG 8000, 1M REMARK 280 NACL. CRYSTALS PRESOAKED IN PH 5.5 CRYOSOLVENT FOR 24 HOURS REMARK 280 BEFORE DATA COLLECTION, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 224.34500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 224.34500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 224.34500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 224.34500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 224.34500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 224.34500 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 ICOSAHEDRAL POINT SYMMETRY (SCHOENFLIES SYMBOL = I). 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 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 350 BIOMT1 2 0.563659 0.755762 0.333336 75.15887 REMARK 350 BIOMT2 2 -0.755764 0.309017 0.577346 -18.74254 REMARK 350 BIOMT3 2 0.333330 -0.577349 0.745358 -57.41595 REMARK 350 BIOMT1 3 -0.142356 0.467084 0.872678 84.21915 REMARK 350 BIOMT2 3 -0.467091 -0.809017 0.356816 -114.48558 REMARK 350 BIOMT3 3 0.872675 -0.356825 0.333339 -64.33771 REMARK 350 BIOMT1 4 -0.142356 -0.467091 0.872675 14.65984 REMARK 350 BIOMT2 4 0.467084 -0.809017 -0.356825 -154.91550 REMARK 350 BIOMT3 4 0.872678 0.356816 0.333339 -11.19964 REMARK 350 BIOMT1 5 0.563659 -0.755764 0.333330 -37.39046 REMARK 350 BIOMT2 5 0.755762 0.309017 -0.577349 -84.15952 REMARK 350 BIOMT3 5 0.333336 0.577346 0.745358 28.56325 REMARK 350 BIOMT1 6 -0.936340 0.110262 0.333330 220.54997 REMARK 350 BIOMT2 6 0.110262 -0.809019 0.577348 -213.68460 REMARK 350 BIOMT3 6 0.333330 0.577348 0.745359 28.56398 REMARK 350 BIOMT1 7 -0.500000 -0.866025 -0.000006 128.97062 REMARK 350 BIOMT2 7 0.866025 -0.500000 0.000002 -223.38332 REMARK 350 BIOMT3 7 -0.000004 -0.000004 1.000000 0.00023 REMARK 350 BIOMT1 8 0.372680 -0.645494 -0.666668 107.62303 REMARK 350 BIOMT2 8 0.866026 0.500000 0.000005 -148.92264 REMARK 350 BIOMT3 8 0.333331 -0.577354 0.745354 -57.41595 REMARK 350 BIOMT1 9 0.475686 0.467089 -0.745353 186.00884 REMARK 350 BIOMT2 9 0.110263 0.809015 0.577354 -93.20470 REMARK 350 BIOMT3 9 0.872677 -0.356824 0.333334 -64.33736 REMARK 350 BIOMT1 10 -0.333334 0.934173 -0.127320 255.80153 REMARK 350 BIOMT2 10 -0.356825 -0.000003 0.934171 -133.22979 REMARK 350 BIOMT3 10 0.872677 0.356821 0.333337 -11.19883 REMARK 350 BIOMT1 11 0.499993 -0.866029 0.000004 -0.00005 REMARK 350 BIOMT2 11 -0.866029 -0.499993 -0.000002 0.00100 REMARK 350 BIOMT3 11 0.000004 -0.000002 -1.000000 224.34381 REMARK 350 BIOMT1 12 0.936341 0.110256 -0.333330 53.81023 REMARK 350 BIOMT2 12 -0.110269 -0.809017 -0.577349 -55.71750 REMARK 350 BIOMT3 12 -0.333326 0.577352 -0.745358 281.76012 REMARK 350 BIOMT1 13 0.333341 0.934170 0.127321 141.25656 REMARK 350 BIOMT2 13 0.356825 -0.000005 -0.934171 -15.69308 REMARK 350 BIOMT3 13 -0.872674 0.356829 -0.333336 288.68215 REMARK 350 BIOMT1 14 -0.475682 0.467092 0.745354 141.49109 REMARK 350 BIOMT2 14 -0.110256 0.809016 -0.577353 64.76187 REMARK 350 BIOMT3 14 -0.872680 -0.356816 -0.333335 235.54389 REMARK 350 BIOMT1 15 -0.372685 -0.645492 0.666667 54.18971 REMARK 350 BIOMT2 15 -0.866022 0.500006 -0.000004 74.46135 REMARK 350 BIOMT3 15 -0.333335 -0.577350 -0.745355 195.78061 REMARK 350 BIOMT1 16 -0.563653 0.755767 -0.333334 295.33069 REMARK 350 BIOMT2 16 0.755767 0.309012 -0.577346 -84.16097 REMARK 350 BIOMT3 16 -0.333334 -0.577346 -0.745359 195.78126 REMARK 350 BIOMT1 17 -1.000000 0.000008 0.000000 257.94089 REMARK 350 BIOMT2 17 0.000008 1.000000 0.000002 -0.00121 REMARK 350 BIOMT3 17 0.000000 0.000002 -1.000000 224.34466 REMARK 350 BIOMT1 18 -0.563665 -0.755759 -0.333331 182.78188 REMARK 350 BIOMT2 18 -0.755759 0.309022 0.577350 -18.74326 REMARK 350 BIOMT3 18 -0.333331 0.577350 -0.745357 281.76057 REMARK 350 BIOMT1 19 0.142352 -0.467090 -0.872675 173.72085 REMARK 350 BIOMT2 19 -0.467090 -0.809014 0.356824 -114.48624 REMARK 350 BIOMT3 19 -0.872675 0.356824 -0.333338 288.68217 REMARK 350 BIOMT1 20 0.142360 0.467084 -0.872677 243.27984 REMARK 350 BIOMT2 20 0.467084 -0.809020 -0.356818 -154.91661 REMARK 350 BIOMT3 20 -0.872677 -0.356818 -0.333340 235.54403 REMARK 350 BIOMT1 21 0.642351 0.755759 0.127330 88.11789 REMARK 350 BIOMT2 21 0.178404 -0.309021 0.934172 -225.26818 REMARK 350 BIOMT3 21 0.745357 -0.577351 -0.333330 10.44366 REMARK 350 BIOMT1 22 -0.166666 0.645493 0.745359 114.92068 REMARK 350 BIOMT2 22 0.645493 -0.500006 0.577349 -259.70412 REMARK 350 BIOMT3 22 0.745359 0.577349 -0.333327 96.42334 REMARK 350 BIOMT1 23 -0.333334 -0.356825 0.872677 47.50051 REMARK 350 BIOMT2 23 0.934173 -0.000003 0.356821 -234.96725 REMARK 350 BIOMT3 23 -0.127320 0.934171 0.333337 160.76102 REMARK 350 BIOMT1 24 0.372678 -0.866025 0.333334 -20.97023 REMARK 350 BIOMT2 24 0.645496 0.500000 0.577351 -185.24307 REMARK 350 BIOMT3 24 -0.666667 0.000000 0.745355 114.54422 REMARK 350 BIOMT1 25 0.975684 -0.178410 -0.127316 4.13269 REMARK 350 BIOMT2 25 0.178405 0.309017 0.934173 -179.24871 REMARK 350 BIOMT3 25 -0.127323 -0.934172 0.333332 21.64298 REMARK 350 BIOMT1 26 -0.475685 -0.467083 0.745357 71.93132 REMARK 350 BIOMT2 26 0.110268 0.809018 0.577349 -93.20456 REMARK 350 BIOMT3 26 -0.872677 0.356825 -0.333333 288.68185 REMARK 350 BIOMT1 27 0.333331 -0.934173 0.127327 2.13832 REMARK 350 BIOMT2 27 -0.356826 0.000005 0.934171 -133.22901 REMARK 350 BIOMT3 27 -0.872678 -0.356821 -0.333335 235.54326 REMARK 350 BIOMT1 28 0.936341 -0.110269 -0.333326 37.38924 REMARK 350 BIOMT2 28 0.110256 -0.809017 0.577352 -213.68402 REMARK 350 BIOMT3 28 -0.333330 -0.577349 -0.745358 195.78031 REMARK 350 BIOMT1 29 0.500007 0.866021 0.000006 128.96851 REMARK 350 BIOMT2 29 0.866021 -0.500007 0.000003 -223.38351 REMARK 350 BIOMT3 29 0.000006 0.000003 -1.000000 224.34404 REMARK 350 BIOMT1 30 -0.372673 0.645498 0.666668 150.31669 REMARK 350 BIOMT2 30 0.866029 0.499994 0.000001 -148.92310 REMARK 350 BIOMT3 30 -0.333329 0.577355 -0.745354 281.76036 REMARK 350 BIOMT1 31 -0.333338 -0.934170 -0.127329 116.68421 REMARK 350 BIOMT2 31 0.356826 0.000003 -0.934171 -15.69268 REMARK 350 BIOMT3 31 0.872675 -0.356829 0.333335 -64.33752 REMARK 350 BIOMT1 32 0.475681 -0.467085 -0.745358 116.45031 REMARK 350 BIOMT2 32 -0.110262 0.809019 -0.577347 64.76218 REMARK 350 BIOMT3 32 0.872680 0.356818 0.333334 -11.19912 REMARK 350 BIOMT1 33 0.372678 0.645496 -0.666667 203.75177 REMARK 350 BIOMT2 33 -0.866025 0.500000 0.000000 74.46091 REMARK 350 BIOMT3 33 0.333334 0.577351 0.745355 28.56418 REMARK 350 BIOMT1 34 -0.500000 0.866025 -0.000004 257.94094 REMARK 350 BIOMT2 34 -0.866025 -0.500000 -0.000004 0.00018 REMARK 350 BIOMT3 34 -0.000006 0.000002 1.000000 0.00084 REMARK 350 BIOMT1 35 -0.936342 -0.110262 0.333325 204.13023 REMARK 350 BIOMT2 35 -0.110262 -0.809015 -0.577353 -55.71780 REMARK 350 BIOMT3 35 0.333325 -0.577353 0.745357 -57.41556 REMARK 350 BIOMT1 36 0.166672 0.645493 -0.745358 239.14719 REMARK 350 BIOMT2 36 -0.645497 -0.500000 -0.577350 36.32085 REMARK 350 BIOMT3 36 -0.745355 0.577355 0.333328 213.90107 REMARK 350 BIOMT1 37 -0.642345 0.755765 -0.127328 282.37131 REMARK 350 BIOMT2 37 -0.178406 -0.309018 -0.934173 30.32638 REMARK 350 BIOMT3 37 -0.745362 -0.577345 0.333329 127.92158 REMARK 350 BIOMT1 38 -0.975686 -0.178403 0.127316 227.23909 REMARK 350 BIOMT2 38 -0.178403 0.309020 -0.934173 76.34580 REMARK 350 BIOMT3 38 0.127316 -0.934173 -0.333334 63.58355 REMARK 350 BIOMT1 39 -0.372685 -0.866022 -0.333335 149.94139 REMARK 350 BIOMT2 39 -0.645492 0.500006 -0.577350 110.78183 REMARK 350 BIOMT3 39 0.666667 -0.000004 -0.745355 109.79995 REMARK 350 BIOMT1 40 0.333331 -0.356826 -0.872678 157.30101 REMARK 350 BIOMT2 40 -0.934173 0.000005 -0.356821 86.04505 REMARK 350 BIOMT3 40 0.127327 0.934171 -0.333335 202.70128 REMARK 350 BIOMT1 41 0.642351 0.178404 0.745357 -24.19823 REMARK 350 BIOMT2 41 0.755759 -0.309021 -0.577351 -130.17886 REMARK 350 BIOMT3 41 0.127330 0.934172 -0.333330 202.70050 REMARK 350 BIOMT1 42 0.475686 0.110263 0.872677 -22.05896 REMARK 350 BIOMT2 42 0.467089 0.809015 -0.356824 -34.43586 REMARK 350 BIOMT3 42 -0.745353 0.577354 0.333334 213.90015 REMARK 350 BIOMT1 43 0.475681 -0.110262 0.872680 -38.47917 REMARK 350 BIOMT2 43 -0.467085 0.809019 0.356818 5.99442 REMARK 350 BIOMT3 43 -0.745358 -0.577347 0.333334 127.92051 REMARK 350 BIOMT1 44 0.642344 -0.178412 0.745361 -50.76668 REMARK 350 BIOMT2 44 -0.755767 -0.309013 0.577345 -64.76129 REMARK 350 BIOMT3 44 0.127321 -0.934173 -0.333331 63.58252 REMARK 350 BIOMT1 45 0.745352 -0.000007 0.666672 -41.94057 REMARK 350 BIOMT2 45 -0.000007 -1.000000 -0.000003 -148.92100 REMARK 350 BIOMT3 45 0.666672 -0.000003 -0.745352 109.79910 REMARK 350 BIOMT1 46 -0.333338 0.356826 0.872675 100.64056 REMARK 350 BIOMT2 46 -0.934170 0.000003 -0.356829 86.04543 REMARK 350 BIOMT3 46 -0.127329 -0.934171 0.333335 21.64352 REMARK 350 BIOMT1 47 -0.166677 -0.645497 0.745354 18.79399 REMARK 350 BIOMT2 47 -0.645497 -0.499994 -0.577355 36.32189 REMARK 350 BIOMT3 47 0.745354 -0.577355 -0.333329 10.44365 REMARK 350 BIOMT1 48 0.642344 -0.755767 0.127321 -24.43017 REMARK 350 BIOMT2 48 -0.178412 -0.309013 -0.934173 30.32762 REMARK 350 BIOMT3 48 0.745361 0.577345 -0.333331 96.42313 REMARK 350 BIOMT1 49 0.975684 0.178405 -0.127323 30.70241 REMARK 350 BIOMT2 49 -0.178410 0.309017 -0.934172 76.34649 REMARK 350 BIOMT3 49 -0.127316 0.934173 0.333332 160.76124 REMARK 350 BIOMT1 50 0.372680 0.866026 0.333331 108.00037 REMARK 350 BIOMT2 50 -0.645494 0.500000 -0.577354 110.78199 REMARK 350 BIOMT3 50 -0.666668 0.000005 0.745354 114.54489 REMARK 350 BIOMT1 51 0.166672 -0.645497 -0.745355 143.01817 REMARK 350 BIOMT2 51 0.645493 -0.500000 0.577355 -259.70426 REMARK 350 BIOMT3 51 -0.745358 -0.577350 0.333328 127.92087 REMARK 350 BIOMT1 52 0.333341 0.356825 -0.872674 210.43853 REMARK 350 BIOMT2 52 0.934170 -0.000005 0.356829 -234.96780 REMARK 350 BIOMT3 52 0.127321 -0.934171 -0.333336 63.58323 REMARK 350 BIOMT1 53 -0.372673 0.866029 -0.333329 278.90966 REMARK 350 BIOMT2 53 0.645498 0.499994 0.577355 -185.24424 REMARK 350 BIOMT3 53 0.666668 0.000001 -0.745354 109.80012 REMARK 350 BIOMT1 54 -0.975683 0.178413 0.127324 253.80679 REMARK 350 BIOMT2 54 0.178413 0.309014 0.934173 -179.24985 REMARK 350 BIOMT3 54 0.127324 0.934173 -0.333331 202.70137 REMARK 350 BIOMT1 55 -0.642350 -0.755762 -0.127322 169.82123 REMARK 350 BIOMT2 55 0.178410 -0.309016 0.934173 -225.26867 REMARK 350 BIOMT3 55 -0.745357 0.577350 0.333332 213.90061 REMARK 350 BIOMT1 56 -0.475685 0.110268 -0.872677 296.42011 REMARK 350 BIOMT2 56 -0.467083 0.809018 0.356825 5.99312 REMARK 350 BIOMT3 56 0.745357 0.577349 -0.333333 96.42416 REMARK 350 BIOMT1 57 -0.642350 0.178410 -0.745357 308.70706 REMARK 350 BIOMT2 57 -0.755762 -0.309016 0.577350 -64.76279 REMARK 350 BIOMT3 57 -0.127322 0.934173 0.333332 160.76202 REMARK 350 BIOMT1 58 -0.745352 0.000000 -0.666672 299.88029 REMARK 350 BIOMT2 58 0.000000 -1.000000 0.000001 -148.92235 REMARK 350 BIOMT3 58 -0.666672 0.000001 0.745352 114.54530 REMARK 350 BIOMT1 59 -0.642345 -0.178406 -0.745362 282.13810 REMARK 350 BIOMT2 59 0.755765 -0.309018 -0.577345 -130.17991 REMARK 350 BIOMT3 59 -0.127328 -0.934173 0.333329 21.64393 REMARK 350 BIOMT1 60 -0.475682 -0.110256 -0.872680 279.99959 REMARK 350 BIOMT2 60 0.467092 0.809016 -0.356816 -34.43688 REMARK 350 BIOMT3 60 0.745354 -0.577353 -0.333335 10.44445 REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE VIRUS CAPSID IS FROM AAV8 VIRUS BUT THE GENE ENCAPSULATED BY REMARK 600 THE VIRUS WAS GFP. ONLY ONE RESIDUE WAS OBSERVED IN THE ELECTRON REMARK 600 DENSITY MAP FROM THE GENE CODING GFP IN THIS STRUCTURE REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RA2 RELATED DB: PDB REMARK 900 AAV8 CAPSID PH 4 REMARK 900 RELATED ID: 3RA4 RELATED DB: PDB REMARK 900 AAV8 CAPSID PH 7.5 REMARK 900 RELATED ID: 3RA9 RELATED DB: PDB REMARK 900 RELATED ID: 3RAA RELATED DB: PDB DBREF 3RA8 A 220 738 UNP Q8JQF8 Q8JQF8_9VIRU 220 738 SEQRES 1 A 519 ASP GLY VAL GLY SER SER SER GLY ASN TRP HIS CYS ASP SEQRES 2 A 519 SER THR TRP LEU GLY ASP ARG VAL ILE THR THR SER THR SEQRES 3 A 519 ARG THR TRP ALA LEU PRO THR TYR ASN ASN HIS LEU TYR SEQRES 4 A 519 LYS GLN ILE SER ASN GLY THR SER GLY GLY ALA THR ASN SEQRES 5 A 519 ASP ASN THR TYR PHE GLY TYR SER THR PRO TRP GLY TYR SEQRES 6 A 519 PHE ASP PHE ASN ARG PHE HIS CYS HIS PHE SER PRO ARG SEQRES 7 A 519 ASP TRP GLN ARG LEU ILE ASN ASN ASN TRP GLY PHE ARG SEQRES 8 A 519 PRO LYS ARG LEU SER PHE LYS LEU PHE ASN ILE GLN VAL SEQRES 9 A 519 LYS GLU VAL THR GLN ASN GLU GLY THR LYS THR ILE ALA SEQRES 10 A 519 ASN ASN LEU THR SER THR ILE GLN VAL PHE THR ASP SER SEQRES 11 A 519 GLU TYR GLN LEU PRO TYR VAL LEU GLY SER ALA HIS GLN SEQRES 12 A 519 GLY CYS LEU PRO PRO PHE PRO ALA ASP VAL PHE MET ILE SEQRES 13 A 519 PRO GLN TYR GLY TYR LEU THR LEU ASN ASN GLY SER GLN SEQRES 14 A 519 ALA VAL GLY ARG SER SER PHE TYR CYS LEU GLU TYR PHE SEQRES 15 A 519 PRO SER GLN MET LEU ARG THR GLY ASN ASN PHE GLN PHE SEQRES 16 A 519 THR TYR THR PHE GLU ASP VAL PRO PHE HIS SER SER TYR SEQRES 17 A 519 ALA HIS SER GLN SER LEU ASP ARG LEU MET ASN PRO LEU SEQRES 18 A 519 ILE ASP GLN TYR LEU TYR TYR LEU SER ARG THR GLN THR SEQRES 19 A 519 THR GLY GLY THR ALA ASN THR GLN THR LEU GLY PHE SER SEQRES 20 A 519 GLN GLY GLY PRO ASN THR MET ALA ASN GLN ALA LYS ASN SEQRES 21 A 519 TRP LEU PRO GLY PRO CYS TYR ARG GLN GLN ARG VAL SER SEQRES 22 A 519 THR THR THR GLY GLN ASN ASN ASN SER ASN PHE ALA TRP SEQRES 23 A 519 THR ALA GLY THR LYS TYR HIS LEU ASN GLY ARG ASN SER SEQRES 24 A 519 LEU ALA ASN PRO GLY ILE ALA MET ALA THR HIS LYS ASP SEQRES 25 A 519 ASP GLU GLU ARG PHE PHE PRO SER ASN GLY ILE LEU ILE SEQRES 26 A 519 PHE GLY LYS GLN ASN ALA ALA ARG ASP ASN ALA ASP TYR SEQRES 27 A 519 SER ASP VAL MET LEU THR SER GLU GLU GLU ILE LYS THR SEQRES 28 A 519 THR ASN PRO VAL ALA THR GLU GLU TYR GLY ILE VAL ALA SEQRES 29 A 519 ASP ASN LEU GLN GLN GLN ASN THR ALA PRO GLN ILE GLY SEQRES 30 A 519 THR VAL ASN SER GLN GLY ALA LEU PRO GLY MET VAL TRP SEQRES 31 A 519 GLN ASN ARG ASP VAL TYR LEU GLN GLY PRO ILE TRP ALA SEQRES 32 A 519 LYS ILE PRO HIS THR ASP GLY ASN PHE HIS PRO SER PRO SEQRES 33 A 519 LEU MET GLY GLY PHE GLY LEU LYS HIS PRO PRO PRO GLN SEQRES 34 A 519 ILE LEU ILE LYS ASN THR PRO VAL PRO ALA ASP PRO PRO SEQRES 35 A 519 THR THR PHE ASN GLN SER LYS LEU ASN SER PHE ILE THR SEQRES 36 A 519 GLN TYR SER THR GLY GLN VAL SER VAL GLU ILE GLU TRP SEQRES 37 A 519 GLU LEU GLN LYS GLU ASN SER LYS ARG TRP ASN PRO GLU SEQRES 38 A 519 ILE GLN TYR THR SER ASN TYR TYR LYS SER THR SER VAL SEQRES 39 A 519 ASP PHE ALA VAL ASN THR GLU GLY VAL TYR SER GLU PRO SEQRES 40 A 519 ARG PRO ILE GLY THR ARG TYR LEU THR ARG ASN LEU HET A A 1 23 HETNAM A ADENOSINE-5'-MONOPHOSPHATE FORMUL 2 A C10 H14 N5 O7 P FORMUL 3 HOH *85(H2 O) HELIX 1 1 TYR A 253 LEU A 257 5 5 HELIX 2 2 THR A 270 THR A 274 5 5 HELIX 3 3 ARG A 289 HIS A 293 5 5 HELIX 4 4 SER A 295 ASN A 305 1 11 HELIX 5 5 CYS A 397 PHE A 401 5 5 HELIX 6 6 SER A 432 LEU A 436 5 5 HELIX 7 7 GLY A 469 GLN A 476 5 8 HELIX 8 8 THR A 494 ASN A 498 5 5 HELIX 9 9 ASP A 556 SER A 558 5 3 HELIX 10 10 GLU A 565 LYS A 569 5 5 SHEET 1 A 5 HIS A 424 SER A 425 0 SHEET 2 A 5 ASN A 306 ASN A 329 -1 N PHE A 309 O HIS A 424 SHEET 3 A 5 GLN A 675 LYS A 691 -1 O GLU A 686 N LYS A 312 SHEET 4 A 5 ARG A 239 LEU A 250 -1 N LEU A 250 O SER A 677 SHEET 5 A 5 ASP A 232 TRP A 235 -1 N THR A 234 O ILE A 241 SHEET 1 B 5 THR A 332 ASN A 337 0 SHEET 2 B 5 ASN A 306 ASN A 329 -1 N GLU A 325 O ALA A 336 SHEET 3 B 5 GLN A 675 LYS A 691 -1 O GLU A 686 N LYS A 312 SHEET 4 B 5 ARG A 239 LEU A 250 -1 N LEU A 250 O SER A 677 SHEET 5 B 5 VAL A 372 MET A 374 1 O PHE A 373 N THR A 247 SHEET 1 C 5 ASP A 232 TRP A 235 0 SHEET 2 C 5 ARG A 239 LEU A 250 -1 O ILE A 241 N THR A 234 SHEET 3 C 5 GLN A 675 LYS A 691 -1 O SER A 677 N LEU A 250 SHEET 4 C 5 ASN A 306 ASN A 329 -1 N LYS A 312 O GLU A 686 SHEET 5 C 5 PHE A 412 THR A 417 -1 O TYR A 416 N LEU A 314 SHEET 1 D 3 LYS A 259 ASN A 263 0 SHEET 2 D 3 TYR A 275 PHE A 285 -1 O GLY A 277 N ILE A 261 SHEET 3 D 3 GLN A 377 THR A 382 -1 O TYR A 378 N TRP A 282 SHEET 1 E 5 LYS A 259 ASN A 263 0 SHEET 2 E 5 TYR A 275 PHE A 285 -1 O GLY A 277 N ILE A 261 SHEET 3 E 5 ILE A 649 ASN A 653 -1 O ILE A 651 N GLY A 283 SHEET 4 E 5 ILE A 343 THR A 347 -1 N GLN A 344 O LYS A 652 SHEET 5 E 5 GLN A 404 LEU A 406 -1 O LEU A 406 N ILE A 343 SHEET 1 F 2 TYR A 427 HIS A 429 0 SHEET 2 F 2 LEU A 734 ARG A 736 1 O LEU A 734 N ALA A 428 SHEET 1 G 2 TYR A 446 GLN A 452 0 SHEET 2 G 2 GLN A 461 GLN A 467 -1 O SER A 466 N TYR A 447 SHEET 1 H 2 CYS A 485 TYR A 486 0 SHEET 2 H 2 SER A 600 GLN A 601 -1 O GLN A 601 N CYS A 485 SHEET 1 I 2 ARG A 490 SER A 492 0 SHEET 2 I 2 PHE A 536 PRO A 538 -1 O PHE A 537 N VAL A 491 SHEET 1 J 2 LYS A 510 LEU A 513 0 SHEET 2 J 2 ARG A 516 LEU A 519 -1 O SER A 518 N TYR A 511 SHEET 1 K 2 ILE A 544 GLY A 546 0 SHEET 2 K 2 VAL A 560 LEU A 562 -1 O MET A 561 N PHE A 545 SHEET 1 L 2 GLY A 580 ALA A 583 0 SHEET 2 L 2 ILE A 595 VAL A 598 -1 O GLY A 596 N VAL A 582 SHEET 1 M 2 TRP A 621 LYS A 623 0 SHEET 2 M 2 PHE A 640 LEU A 642 1 O LEU A 642 N ALA A 622 CISPEP 1 ASN A 521 PRO A 522 0 1.08 SITE 1 AC1 3 HIS A 632 SER A 634 GLY A 641 CRYST1 257.940 257.940 448.690 90.00 90.00 120.00 P 63 2 2 120 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 0.003877 0.002238 0.000000 0.00000 SCALE2 0.000000 0.004477 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002229 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.563440 0.754700 0.336100 74.86510 MTRIX2 2 -0.756060 0.307040 0.578020 -18.83430 MTRIX3 2 0.333040 -0.579790 0.743590 -57.54900 MTRIX1 3 -0.141370 0.463170 0.874920 83.52370 MTRIX2 3 -0.468430 -0.809890 0.353060 -114.09670 MTRIX3 3 0.872120 -0.359930 0.331460 -64.55450 MTRIX1 4 -0.147000 -0.470880 0.869860 15.19600 MTRIX2 4 0.467040 -0.808250 -0.358610 -154.61000 MTRIX3 4 0.871930 0.353550 0.338740 -11.77000 MTRIX1 5 0.561010 -0.758900 0.330650 -36.95900 MTRIX2 5 0.757350 0.309280 -0.575130 -84.26700 MTRIX3 5 0.334200 0.573070 0.748260 27.76400 MTRIX1 6 0.642820 0.755080 0.128970 87.97800 MTRIX2 6 0.179540 -0.312190 0.932900 -225.66000 MTRIX3 6 0.744680 -0.576530 -0.336250 10.95100 MTRIX1 7 -0.167710 0.641890 0.748230 114.40440 MTRIX2 7 0.643670 -0.503580 0.576280 -259.40659 MTRIX3 7 0.746700 0.578260 -0.328710 95.93890 MTRIX1 8 -0.333520 -0.361950 0.870490 47.02510 MTRIX2 8 0.934240 -0.003180 0.356630 -234.97540 MTRIX3 8 -0.126310 0.932190 0.339210 159.98840 MTRIX1 9 0.370210 -0.868410 0.329860 -20.64100 MTRIX2 9 0.645920 0.495840 0.580450 -185.92999 MTRIX3 9 -0.667630 -0.001828 0.744490 114.34000 MTRIX1 10 0.975760 -0.178030 -0.127250 4.27440 MTRIX2 10 0.177510 0.303850 0.936040 -179.83000 MTRIX3 10 -0.127980 -0.935940 0.328090 21.97600