HEADER VIRUS 27-MAR-11 3RA4 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 FRAGMENT: UNP RESIDUES 220-738; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*CP*A)-3'); COMPND 8 CHAIN: D; COMPND 9 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 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: MAMMALIAN KIDNEY CELLS HEK293; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: AEQUOREA VICTORIA; SOURCE 10 ORGANISM_TAXID: 6100; SOURCE 11 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM_CELL_LINE: MAMMALIAN KIDNEY CELLS HEK293 KEYWDS BETA BARREL, VIRAL CAPSID, RECEPTOR, 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 3 21-FEB-24 3RA4 1 REMARK REVDAT 2 26-JUN-13 3RA4 1 JRNL REVDAT 1 21-SEP-11 3RA4 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)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 221840 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) : 0.212 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 10909 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 : 37 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 76 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 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) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.600 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) : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 3RA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000064680. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 3 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 : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 221840 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 (%) : 92.9 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08300 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 (%) : 58.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.20100 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 PH7.5, 4% PEG 8000, 1M REMARK 280 NACL, VAPOR DIFFUSION, HANGING DROP, 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, D 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 0.755763 0.333332 75.15865 REMARK 350 BIOMT2 2 -0.755763 0.309017 0.577349 -18.74312 REMARK 350 BIOMT3 2 0.333334 -0.577348 0.745358 -57.41574 REMARK 350 BIOMT1 3 -0.142355 0.467088 0.872676 84.21865 REMARK 350 BIOMT2 3 -0.467086 -0.809017 0.356822 -114.48605 REMARK 350 BIOMT3 3 0.872677 -0.356819 0.333338 -64.33681 REMARK 350 BIOMT1 4 -0.142355 -0.467086 0.872677 14.65939 REMARK 350 BIOMT2 4 0.467088 -0.809017 -0.356819 -154.91532 REMARK 350 BIOMT3 4 0.872676 0.356822 0.333338 -11.19852 REMARK 350 BIOMT1 5 0.563659 -0.755763 0.333334 -37.39060 REMARK 350 BIOMT2 5 0.755763 0.309017 -0.577348 -84.15905 REMARK 350 BIOMT3 5 0.333332 0.577349 0.745358 28.56381 REMARK 350 BIOMT1 6 -0.936341 0.110262 0.333328 220.55014 REMARK 350 BIOMT2 6 0.110262 -0.809016 0.577351 -213.68424 REMARK 350 BIOMT3 6 0.333328 0.577351 0.745358 28.56458 REMARK 350 BIOMT1 7 -0.500000 -0.866025 -0.000004 128.97107 REMARK 350 BIOMT2 7 0.866025 -0.500000 0.000003 -223.38264 REMARK 350 BIOMT3 7 -0.000004 -0.000002 1.000000 0.00043 REMARK 350 BIOMT1 8 0.372679 -0.645496 -0.666668 107.62399 REMARK 350 BIOMT2 8 0.866025 0.500000 0.000002 -148.92194 REMARK 350 BIOMT3 8 0.333333 -0.577352 0.745355 -57.41561 REMARK 350 BIOMT1 9 0.475683 0.467087 -0.745356 186.00983 REMARK 350 BIOMT2 9 0.110262 0.809018 0.577350 -93.20431 REMARK 350 BIOMT3 9 0.872679 -0.356820 0.333334 -64.33653 REMARK 350 BIOMT1 10 -0.333336 0.934171 -0.127325 255.80203 REMARK 350 BIOMT2 10 -0.356825 0.000001 0.934171 -133.22960 REMARK 350 BIOMT3 10 0.872676 0.356826 0.333335 -11.19785 REMARK 350 BIOMT1 11 0.500002 -0.866024 0.000004 -0.00029 REMARK 350 BIOMT2 11 -0.866024 -0.500002 -0.000003 0.00065 REMARK 350 BIOMT3 11 0.000004 -0.000003 -1.000000 224.34551 REMARK 350 BIOMT1 12 0.936341 0.110265 -0.333328 53.81093 REMARK 350 BIOMT2 12 -0.110260 -0.809017 -0.577351 -55.71681 REMARK 350 BIOMT3 12 -0.333329 0.577350 -0.745358 281.76164 REMARK 350 BIOMT1 13 0.333334 0.934172 0.127325 141.25661 REMARK 350 BIOMT2 13 0.356825 0.000001 -0.934171 -15.69130 REMARK 350 BIOMT3 13 -0.872677 0.356824 -0.333335 288.68299 REMARK 350 BIOMT1 14 -0.475684 0.467086 0.745356 141.48980 REMARK 350 BIOMT2 14 -0.110264 0.809017 -0.577350 64.76329 REMARK 350 BIOMT3 14 -0.872678 -0.356822 -0.333333 235.54450 REMARK 350 BIOMT1 15 -0.372677 -0.645496 0.666668 54.18823 REMARK 350 BIOMT2 15 -0.866027 0.499998 -0.000002 74.46145 REMARK 350 BIOMT3 15 -0.333331 -0.577353 -0.745355 195.78175 REMARK 350 BIOMT1 16 -0.563661 0.755762 -0.333332 295.33109 REMARK 350 BIOMT2 16 0.755762 0.309019 -0.577349 -84.15859 REMARK 350 BIOMT3 16 -0.333332 -0.577349 -0.745358 195.78248 REMARK 350 BIOMT1 17 -1.000000 -0.000002 0.000000 257.94028 REMARK 350 BIOMT2 17 -0.000002 1.000000 -0.000001 0.00038 REMARK 350 BIOMT3 17 0.000000 -0.000001 -1.000000 224.34624 REMARK 350 BIOMT1 18 -0.563657 -0.755764 -0.333333 182.78168 REMARK 350 BIOMT2 18 -0.755764 0.309015 0.577347 -18.74288 REMARK 350 BIOMT3 18 -0.333333 0.577347 -0.745358 281.76199 REMARK 350 BIOMT1 19 0.142356 -0.467086 -0.872677 173.72191 REMARK 350 BIOMT2 19 -0.467086 -0.809018 0.356820 -114.48584 REMARK 350 BIOMT3 19 -0.872677 0.356820 -0.333338 288.68311 REMARK 350 BIOMT1 20 0.142354 0.467088 -0.872676 243.28127 REMARK 350 BIOMT2 20 0.467088 -0.809016 -0.356822 -154.91497 REMARK 350 BIOMT3 20 -0.872676 -0.356822 -0.333338 235.54485 REMARK 350 BIOMT1 21 0.642347 0.755764 0.127323 88.11897 REMARK 350 BIOMT2 21 0.178410 -0.309016 0.934173 -225.26870 REMARK 350 BIOMT3 21 0.745359 -0.577347 -0.333331 10.44516 REMARK 350 BIOMT1 22 -0.166672 0.645496 0.745356 114.92114 REMARK 350 BIOMT2 22 0.645496 -0.499998 0.577353 -259.70398 REMARK 350 BIOMT3 22 0.745356 0.577353 -0.333329 96.42510 REMARK 350 BIOMT1 23 -0.333336 -0.356825 0.872676 47.50051 REMARK 350 BIOMT2 23 0.934171 0.000001 0.356826 -234.96698 REMARK 350 BIOMT3 23 -0.127325 0.934171 0.333335 160.76198 REMARK 350 BIOMT1 24 0.372679 -0.866025 0.333332 -20.96990 REMARK 350 BIOMT2 24 0.645495 0.500000 0.577353 -185.24340 REMARK 350 BIOMT3 24 -0.666668 -0.000003 0.745355 114.54442 REMARK 350 BIOMT1 25 0.975684 -0.178408 -0.127321 4.13369 REMARK 350 BIOMT2 25 0.178409 0.309017 0.934173 -179.24953 REMARK 350 BIOMT3 25 -0.127319 -0.934173 0.333333 21.64352 REMARK 350 BIOMT1 26 -0.475683 -0.467089 0.745355 71.93068 REMARK 350 BIOMT2 26 0.110261 0.809017 0.577351 -93.20434 REMARK 350 BIOMT3 26 -0.872679 0.356819 -0.333334 288.68282 REMARK 350 BIOMT1 27 0.333337 -0.934171 0.127323 2.13858 REMARK 350 BIOMT2 27 -0.356825 -0.000001 0.934171 -133.22984 REMARK 350 BIOMT3 27 -0.872676 -0.356826 -0.333336 235.54417 REMARK 350 BIOMT1 28 0.936341 -0.110260 -0.333329 37.39067 REMARK 350 BIOMT2 28 0.110265 -0.809017 0.577350 -213.68441 REMARK 350 BIOMT3 28 -0.333328 -0.577351 -0.745358 195.78179 REMARK 350 BIOMT1 29 0.499998 0.866027 0.000004 128.96976 REMARK 350 BIOMT2 29 0.866027 -0.499998 0.000002 -223.38257 REMARK 350 BIOMT3 29 0.000004 0.000002 -1.000000 224.34594 REMARK 350 BIOMT1 30 -0.372681 0.645495 0.666668 150.31666 REMARK 350 BIOMT2 30 0.866024 0.500002 0.000003 -148.92179 REMARK 350 BIOMT3 30 -0.333333 0.577351 -0.745355 281.76194 REMARK 350 BIOMT1 31 -0.333335 -0.934172 -0.127322 116.68371 REMARK 350 BIOMT2 31 0.356825 -0.000001 -0.934171 -15.69143 REMARK 350 BIOMT3 31 0.872676 -0.356824 0.333336 -64.33674 REMARK 350 BIOMT1 32 0.475684 -0.467088 -0.745355 116.45033 REMARK 350 BIOMT2 32 -0.110263 0.809016 -0.577352 64.76319 REMARK 350 BIOMT3 32 0.872678 0.356822 0.333334 -11.19830 REMARK 350 BIOMT1 33 0.372679 0.645495 -0.666668 203.75187 REMARK 350 BIOMT2 33 -0.866025 0.500000 -0.000003 74.46158 REMARK 350 BIOMT3 33 0.333332 0.577353 0.745355 28.56445 REMARK 350 BIOMT1 34 -0.500000 0.866025 -0.000004 257.94057 REMARK 350 BIOMT2 34 -0.866025 -0.500000 -0.000002 0.00091 REMARK 350 BIOMT3 34 -0.000004 0.000003 1.000000 0.00073 REMARK 350 BIOMT1 35 -0.936341 -0.110263 0.333329 204.12949 REMARK 350 BIOMT2 35 -0.110263 -0.809018 -0.577350 -55.71672 REMARK 350 BIOMT3 35 0.333329 -0.577350 0.745358 -57.41537 REMARK 350 BIOMT1 36 0.166671 0.645496 -0.745356 239.14757 REMARK 350 BIOMT2 36 -0.645495 -0.500000 -0.577353 36.32230 REMARK 350 BIOMT3 36 -0.745357 0.577351 0.333329 213.90133 REMARK 350 BIOMT1 37 -0.642349 0.755762 -0.127324 282.37088 REMARK 350 BIOMT2 37 -0.178409 -0.309017 -0.934173 30.32846 REMARK 350 BIOMT3 37 -0.745358 -0.577349 0.333331 127.92160 REMARK 350 BIOMT1 38 -0.975684 -0.178410 0.127321 227.23787 REMARK 350 BIOMT2 38 -0.178410 0.309016 -0.934173 76.34764 REMARK 350 BIOMT3 38 0.127321 -0.934173 -0.333332 63.58436 REMARK 350 BIOMT1 39 -0.372677 -0.866027 -0.333331 149.94049 REMARK 350 BIOMT2 39 -0.645496 0.499998 -0.577353 110.78289 REMARK 350 BIOMT3 39 0.666668 -0.000002 -0.745355 109.80148 REMARK 350 BIOMT1 40 0.333337 -0.356825 -0.872676 157.30109 REMARK 350 BIOMT2 40 -0.934171 -0.000001 -0.356826 86.04587 REMARK 350 BIOMT3 40 0.127323 0.934171 -0.333336 202.70248 REMARK 350 BIOMT1 41 0.642347 0.178410 0.745359 -24.19819 REMARK 350 BIOMT2 41 0.755764 -0.309016 -0.577347 -130.17825 REMARK 350 BIOMT3 41 0.127323 0.934173 -0.333331 202.70203 REMARK 350 BIOMT1 42 0.475683 0.110262 0.872679 -22.05959 REMARK 350 BIOMT2 42 0.467087 0.809018 -0.356820 -34.43530 REMARK 350 BIOMT3 42 -0.745356 0.577350 0.333334 213.90061 REMARK 350 BIOMT1 43 0.475684 -0.110263 0.872678 -38.48009 REMARK 350 BIOMT2 43 -0.467088 0.809016 0.356822 5.99386 REMARK 350 BIOMT3 43 -0.745355 -0.577352 0.333334 127.92070 REMARK 350 BIOMT1 44 0.642349 -0.178407 0.745358 -50.76711 REMARK 350 BIOMT2 44 -0.755762 -0.309018 0.577349 -64.76250 REMARK 350 BIOMT3 44 0.127326 -0.934173 -0.333331 63.58361 REMARK 350 BIOMT1 45 0.745352 0.000002 0.666671 -41.94041 REMARK 350 BIOMT2 45 0.000002 -1.000000 0.000001 -148.92149 REMARK 350 BIOMT3 45 0.666671 0.000001 -0.745352 109.80101 REMARK 350 BIOMT1 46 -0.333335 0.356825 0.872676 100.63898 REMARK 350 BIOMT2 46 -0.934172 -0.000001 -0.356824 86.04575 REMARK 350 BIOMT3 46 -0.127322 -0.934171 0.333336 21.64371 REMARK 350 BIOMT1 47 -0.166669 -0.645495 0.745357 18.79262 REMARK 350 BIOMT2 47 -0.645495 -0.500002 -0.577351 36.32197 REMARK 350 BIOMT3 47 0.745357 -0.577351 -0.333329 10.44489 REMARK 350 BIOMT1 48 0.642349 -0.755762 0.127326 -24.43067 REMARK 350 BIOMT2 48 -0.178407 -0.309018 -0.934173 30.32807 REMARK 350 BIOMT3 48 0.745358 0.577349 -0.333331 96.42462 REMARK 350 BIOMT1 49 0.975684 0.178409 -0.127319 30.70222 REMARK 350 BIOMT2 49 -0.178408 0.309017 -0.934173 76.34742 REMARK 350 BIOMT3 49 -0.127321 0.934173 0.333333 160.76184 REMARK 350 BIOMT1 50 0.372679 0.866025 0.333333 107.99952 REMARK 350 BIOMT2 50 -0.645496 0.500000 -0.577352 110.78284 REMARK 350 BIOMT3 50 -0.666668 0.000002 0.745355 114.54470 REMARK 350 BIOMT1 51 0.166671 -0.645495 -0.745357 143.01978 REMARK 350 BIOMT2 51 0.645496 -0.500000 0.577351 -259.70393 REMARK 350 BIOMT3 51 -0.745356 -0.577353 0.333329 127.92129 REMARK 350 BIOMT1 52 0.333334 0.356825 -0.872677 210.44035 REMARK 350 BIOMT2 52 0.934172 0.000001 0.356824 -234.96681 REMARK 350 BIOMT3 52 0.127325 -0.934171 -0.333335 63.58440 REMARK 350 BIOMT1 53 -0.372681 0.866024 -0.333333 278.91064 REMARK 350 BIOMT2 53 0.645495 0.500002 0.577351 -185.24303 REMARK 350 BIOMT3 53 0.666668 0.000003 -0.745355 109.80193 REMARK 350 BIOMT1 54 -0.975685 0.178407 0.127319 253.80703 REMARK 350 BIOMT2 54 0.178407 0.309018 0.934173 -179.24917 REMARK 350 BIOMT3 54 0.127319 0.934173 -0.333333 202.70283 REMARK 350 BIOMT1 55 -0.642347 -0.755763 -0.127326 169.82186 REMARK 350 BIOMT2 55 0.178408 -0.309017 0.934173 -225.26854 REMARK 350 BIOMT3 55 -0.745360 0.577347 0.333330 213.90121 REMARK 350 BIOMT1 56 -0.475683 0.110261 -0.872679 296.42036 REMARK 350 BIOMT2 56 -0.467089 0.809017 0.356819 5.99426 REMARK 350 BIOMT3 56 0.745355 0.577351 -0.333334 96.42553 REMARK 350 BIOMT1 57 -0.642347 0.178408 -0.745360 308.70755 REMARK 350 BIOMT2 57 -0.755763 -0.309017 0.577347 -64.76203 REMARK 350 BIOMT3 57 -0.127326 0.934173 0.333330 160.76267 REMARK 350 BIOMT1 58 -0.745352 0.000000 -0.666671 299.88106 REMARK 350 BIOMT2 58 0.000000 -1.000000 0.000000 -148.92107 REMARK 350 BIOMT3 58 -0.666671 0.000000 0.745352 114.54531 REMARK 350 BIOMT1 59 -0.642349 -0.178409 -0.745358 282.13879 REMARK 350 BIOMT2 59 0.755762 -0.309017 -0.577349 -130.17793 REMARK 350 BIOMT3 59 -0.127324 -0.934173 0.333331 21.64429 REMARK 350 BIOMT1 60 -0.475684 -0.110264 -0.872678 279.99996 REMARK 350 BIOMT2 60 0.467086 0.809017 -0.356822 -34.43499 REMARK 350 BIOMT3 60 0.745356 -0.577350 -0.333333 10.44565 REMARK 400 REMARK 400 COMPOUND REMARK 400 THE VIRUS CAPSID IS FROM AAV8 VIRUS BUT THE GENE ENCAPSULATED BY REMARK 400 THE VIRUS WAS GFP. ONLY TWO RESIDUE WAS OBSERVED IN THE ELECTRON REMARK 400 DENSITY MAP FROM THE GENE CODING GFP IN THIS STRUCTURE 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 PRO A 633 24.44 -55.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RA2 RELATED DB: PDB REMARK 900 RELATED ID: 3RAA RELATED DB: PDB REMARK 900 RELATED ID: 3RA8 RELATED DB: PDB REMARK 900 RELATED ID: 3RA9 RELATED DB: PDB DBREF 3RA4 A 220 738 UNP Q8JQF8 Q8JQF8_9VIRU 220 738 DBREF 3RA4 D 1 2 PDB 3RA4 3RA4 1 2 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 SEQRES 1 D 2 DC DA FORMUL 3 HOH *76(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 THR A 494 ASN A 498 5 5 HELIX 8 8 ASP A 556 SER A 558 5 3 HELIX 9 9 GLU A 565 LYS A 569 5 5 SHEET 1 A 5 PHE A 373 MET A 374 0 SHEET 2 A 5 ARG A 239 LEU A 250 1 N THR A 247 O PHE A 373 SHEET 3 A 5 GLN A 675 LYS A 691 -1 O TRP A 687 N VAL A 240 SHEET 4 A 5 ASN A 306 ASN A 329 -1 N LYS A 324 O TYR A 676 SHEET 5 A 5 HIS A 424 SER A 425 -1 O HIS A 424 N PHE A 309 SHEET 1 B 5 THR A 332 ASN A 337 0 SHEET 2 B 5 ASN A 306 ASN A 329 -1 N THR A 327 O THR A 334 SHEET 3 B 5 GLN A 675 LYS A 691 -1 O TYR A 676 N LYS A 324 SHEET 4 B 5 ARG A 239 LEU A 250 -1 N VAL A 240 O TRP A 687 SHEET 5 B 5 ASP A 232 TRP A 235 -1 N ASP A 232 O THR A 243 SHEET 1 C 5 ASP A 232 TRP A 235 0 SHEET 2 C 5 ARG A 239 LEU A 250 -1 O THR A 243 N ASP A 232 SHEET 3 C 5 GLN A 675 LYS A 691 -1 O TRP A 687 N VAL A 240 SHEET 4 C 5 ASN A 306 ASN A 329 -1 N LYS A 324 O TYR A 676 SHEET 5 C 5 PHE A 412 THR A 417 -1 O PHE A 412 N LEU A 318 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 GLN A 404 N VAL A 345 SHEET 1 F 2 ALA A 428 HIS A 429 0 SHEET 2 F 2 THR A 735 ARG A 736 1 O ARG A 736 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 GLY A 464 N SER A 449 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 ARG A 516 N LEU A 513 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 0.06 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 0.563260 0.754710 0.336370 74.94140 MTRIX2 2 -0.757070 0.308300 0.576020 -18.68090 MTRIX3 2 0.331030 -0.579110 0.745020 -57.37580 MTRIX1 3 -0.144350 0.464300 0.873840 83.99550 MTRIX2 3 -0.468570 -0.809880 0.352910 -114.31140 MTRIX3 3 0.871550 -0.358510 0.334460 -64.42320 MTRIX1 4 -0.145110 -0.470500 0.870390 14.61400 MTRIX2 4 0.468600 -0.807460 -0.358360 -154.80000 MTRIX3 4 0.871410 0.355860 0.337650 -11.32200 MTRIX1 5 0.562490 -0.757440 0.331490 -37.40300 MTRIX2 5 0.757010 0.310580 -0.574880 -84.16100 MTRIX3 5 0.332480 0.574310 0.748080 28.24300 MTRIX1 6 0.642990 0.754610 0.130870 87.77000 MTRIX2 6 0.176750 -0.312470 0.933340 -225.53999 MTRIX3 6 0.745200 -0.577000 -0.334290 10.52800 MTRIX1 7 -0.167890 0.643088 0.747170 114.62430 MTRIX2 7 0.643170 -0.502940 0.577390 -259.84171 MTRIX3 7 0.747090 0.577500 -0.329180 96.14990 MTRIX1 8 -0.334860 -0.360950 0.870390 47.21470 MTRIX2 8 0.933750 -0.003170 0.357920 -235.30589 MTRIX3 8 -0.126440 0.932580 0.338100 160.29770 MTRIX1 9 0.371500 -0.867760 0.330120 -20.96700 MTRIX2 9 0.645010 0.496980 0.580490 -185.67999 MTRIX3 9 -0.667790 -0.002720 0.744350 114.37000 MTRIX1 10 0.975660 -0.179340 -0.126160 3.96870 MTRIX2 10 0.177130 0.305450 0.935590 -179.63000 MTRIX3 10 -0.129250 -0.935170 0.329790 21.81400