HEADER VIRAL PROTEIN 05-JUN-20 6XB8 TITLE ADENO-ASSOCIATED VIRUS ORIGIN BINDING DOMAIN IN COMPLEX WITH SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN REP68; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 3.6.4.12; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*GP*CP*TP*CP*TP*T)-3'); COMPND 8 CHAIN: E, F; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ADENO-ASSOCIATED VIRUS 2 (ISOLATE SOURCE 3 SRIVASTAVA/1982); SOURCE 4 ORGANISM_COMMON: AAV-2; SOURCE 5 ORGANISM_TAXID: 648242; SOURCE 6 STRAIN: ISOLATE SRIVASTAVA/1982; SOURCE 7 GENE: REP68; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET-15B; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS AAV, PROTEIN-DNA, AAA+, SF3, HUH, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.R.ESCALANTE,F.N.MUSAYEV REVDAT 3 18-OCT-23 6XB8 1 REMARK REVDAT 2 06-OCT-21 6XB8 1 JRNL REVDAT 1 09-DEC-20 6XB8 0 JRNL AUTH V.SANTOSH,F.N.MUSAYEV,R.JAISWAL,F.ZARATE-PEREZ, JRNL AUTH 2 B.VANDEWINKEL,C.DIERCKX,M.ENDICOTT,K.SHARIFI,K.DRYDEN, JRNL AUTH 3 E.HENCKAERTS,C.R.ESCALANTE JRNL TITL THE CRYO-EM STRUCTURE OF AAV2 REP68 IN COMPLEX WITH SSDNA JRNL TITL 2 REVEALS A MALLEABLE AAA+ MACHINE THAT CAN SWITCH BETWEEN JRNL TITL 3 OLIGOMERIC STATES. JRNL REF NUCLEIC ACIDS RES. V. 48 12983 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 33270897 JRNL DOI 10.1093/NAR/GKAA1133 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18RC2_3794 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 38830 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1937 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 40.8600 - 7.9400 0.99 2767 156 0.1892 0.1967 REMARK 3 2 7.9300 - 6.3100 1.00 2697 137 0.2071 0.2189 REMARK 3 3 6.3100 - 5.5100 1.00 2650 117 0.2035 0.1982 REMARK 3 4 5.5100 - 5.0100 1.00 2676 127 0.1726 0.1720 REMARK 3 5 5.0100 - 4.6500 1.00 2648 107 0.1553 0.1754 REMARK 3 6 4.6500 - 4.3800 1.00 2623 153 0.1611 0.1819 REMARK 3 7 4.3800 - 4.1600 1.00 2582 159 0.1761 0.2186 REMARK 3 8 4.1600 - 3.9800 1.00 2609 166 0.2028 0.2192 REMARK 3 9 3.9800 - 3.8200 1.00 2570 148 0.2144 0.2488 REMARK 3 10 3.8200 - 3.6900 1.00 2620 164 0.2213 0.2558 REMARK 3 11 3.6900 - 3.5800 1.00 2618 128 0.2410 0.2326 REMARK 3 12 3.5800 - 3.4700 1.00 2554 154 0.2554 0.2813 REMARK 3 13 3.4700 - 3.3800 1.00 2628 127 0.2604 0.2876 REMARK 3 14 3.3800 - 3.3000 1.00 2651 94 0.3107 0.3613 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) : 0.304 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.921 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 72.12 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 : 0.005 6875 REMARK 3 ANGLE : 0.820 9396 REMARK 3 CHIRALITY : 0.049 1035 REMARK 3 PLANARITY : 0.005 1181 REMARK 3 DIHEDRAL : 14.079 959 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 1:205) REMARK 3 ORIGIN FOR THE GROUP (A): 58.7014 -21.4827 45.4320 REMARK 3 T TENSOR REMARK 3 T11: 0.3204 T22: 0.4341 REMARK 3 T33: 0.2938 T12: -0.0586 REMARK 3 T13: 0.0660 T23: 0.0854 REMARK 3 L TENSOR REMARK 3 L11: 3.1888 L22: 4.0552 REMARK 3 L33: 1.7498 L12: 1.2440 REMARK 3 L13: 1.2213 L23: 0.4896 REMARK 3 S TENSOR REMARK 3 S11: 0.0556 S12: -0.2473 S13: -0.1332 REMARK 3 S21: 0.0916 S22: -0.1337 S23: -0.1384 REMARK 3 S31: 0.0946 S32: -0.0514 S33: 0.0685 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESSEQ 1:200) REMARK 3 ORIGIN FOR THE GROUP (A): 34.2449 -20.6507 11.8283 REMARK 3 T TENSOR REMARK 3 T11: 0.5190 T22: 0.5214 REMARK 3 T33: 0.4535 T12: -0.1310 REMARK 3 T13: -0.0040 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 3.8413 L22: 4.0227 REMARK 3 L33: 6.7278 L12: 0.4204 REMARK 3 L13: 1.1139 L23: 0.0042 REMARK 3 S TENSOR REMARK 3 S11: 0.2081 S12: -0.1216 S13: -0.5982 REMARK 3 S21: 0.1599 S22: -0.2123 S23: 0.0721 REMARK 3 S31: 0.5136 S32: -0.8953 S33: 0.0133 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 1:206) REMARK 3 ORIGIN FOR THE GROUP (A): 38.0160 21.2775 29.7567 REMARK 3 T TENSOR REMARK 3 T11: 0.2451 T22: 0.4600 REMARK 3 T33: 0.4300 T12: 0.0558 REMARK 3 T13: 0.0511 T23: -0.1240 REMARK 3 L TENSOR REMARK 3 L11: 2.1757 L22: 4.0486 REMARK 3 L33: 3.8423 L12: -0.2058 REMARK 3 L13: 0.7890 L23: 0.8245 REMARK 3 S TENSOR REMARK 3 S11: -0.0225 S12: -0.1192 S13: 0.2097 REMARK 3 S21: -0.1622 S22: -0.1401 S23: 0.0944 REMARK 3 S31: -0.1284 S32: -0.2164 S33: 0.1067 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESSEQ 1:196) REMARK 3 ORIGIN FOR THE GROUP (A): 71.1049 20.1706 52.7540 REMARK 3 T TENSOR REMARK 3 T11: 0.4643 T22: 0.5854 REMARK 3 T33: 0.5435 T12: 0.0227 REMARK 3 T13: 0.0130 T23: -0.2077 REMARK 3 L TENSOR REMARK 3 L11: 4.7187 L22: 3.1827 REMARK 3 L33: 2.9518 L12: -0.3571 REMARK 3 L13: 0.8659 L23: -0.3963 REMARK 3 S TENSOR REMARK 3 S11: -0.0467 S12: -0.6719 S13: 0.6812 REMARK 3 S21: 0.2282 S22: -0.0938 S23: 0.1819 REMARK 3 S31: -0.4819 S32: -0.0772 S33: 0.0965 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN E AND RESSEQ 5:10) REMARK 3 ORIGIN FOR THE GROUP (A): 66.0961 -0.4378 54.1518 REMARK 3 T TENSOR REMARK 3 T11: 0.7740 T22: 0.8204 REMARK 3 T33: 1.1629 T12: 0.0305 REMARK 3 T13: -0.2286 T23: -0.1465 REMARK 3 L TENSOR REMARK 3 L11: 1.2678 L22: 3.0028 REMARK 3 L33: 1.5941 L12: -0.4150 REMARK 3 L13: -1.1907 L23: -0.0934 REMARK 3 S TENSOR REMARK 3 S11: 0.2110 S12: -1.2056 S13: 0.6311 REMARK 3 S21: 2.2082 S22: 0.3268 S23: -1.9243 REMARK 3 S31: 0.2068 S32: 0.4929 S33: -0.5965 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 6XB8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1000249872. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A 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 : SI(111) CHANNEL CUT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38830 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.12500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.30 REMARK 200 R MERGE FOR SHELL (I) : 0.59400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.420 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5BYG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 80.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 6.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10MM NA CACODYLATE, PH 6.5, 30% PEG400 REMARK 280 AND 0.2M LICL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 85.09000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 86.61000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 86.72500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 85.09000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 86.61000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 86.72500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 85.09000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 86.61000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 86.72500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 85.09000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 86.61000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 86.72500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 APPLY THE FOLLOWING TO CHAINS: A, D, E 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, F 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 ASN A 206 REMARK 465 GLU B 201 REMARK 465 GLN B 202 REMARK 465 ASN B 203 REMARK 465 LYS B 204 REMARK 465 GLU B 205 REMARK 465 ASN B 206 REMARK 465 SER D 197 REMARK 465 GLN D 198 REMARK 465 THR D 199 REMARK 465 GLN D 200 REMARK 465 GLU D 201 REMARK 465 GLN D 202 REMARK 465 ASN D 203 REMARK 465 LYS D 204 REMARK 465 GLU D 205 REMARK 465 ASN D 206 REMARK 465 DG F 5 REMARK 465 DT F 10 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 GLU A 32 CG CD OE1 OE2 REMARK 470 LYS A 33 CG CD CE NZ REMARK 470 GLU A 34 CG CD OE1 OE2 REMARK 470 SER A 177 OG REMARK 470 GLU A 205 CG CD OE1 OE2 REMARK 470 LYS B 33 CG CD CE NZ REMARK 470 GLU B 34 CG CD OE1 OE2 REMARK 470 LYS B 72 CG CD CE NZ REMARK 470 GLU B 173 CG CD OE1 OE2 REMARK 470 LYS B 186 CG CD CE NZ REMARK 470 LEU B 193 CG CD1 CD2 REMARK 470 HIS B 195 CG ND1 CD2 CE1 NE2 REMARK 470 VAL B 196 CG1 CG2 REMARK 470 GLU C 32 CG CD OE1 OE2 REMARK 470 LYS C 33 CG CD CE NZ REMARK 470 GLU C 34 CG CD OE1 OE2 REMARK 470 LYS C 115 CG CD CE NZ REMARK 470 LYS C 186 CG CD CE NZ REMARK 470 GLU D 32 CG CD OE1 OE2 REMARK 470 LYS D 33 CG CD CE NZ REMARK 470 GLU D 34 CG CD OE1 OE2 REMARK 470 ARG D 69 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 72 CG CD CE NZ REMARK 470 GLU D 75 CG CD OE1 OE2 REMARK 470 SER D 177 OG REMARK 470 LYS D 186 CG CD CE NZ REMARK 470 LEU D 193 CG CD1 CD2 REMARK 470 THR D 194 OG1 CG2 REMARK 470 VAL D 196 CG1 CG2 REMARK 470 DC F 6 P OP1 OP2 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 NH2 ARG D 61 OP1 DT E 10 2.13 REMARK 500 REMARK 500 REMARK: NULL 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 LEU D 176 O - C - N ANGL. DEV. = -11.6 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 19 70.95 -117.68 REMARK 500 GLU A 32 33.92 -91.97 REMARK 500 SER A 87 -15.73 -150.06 REMARK 500 ILE A 120 -57.21 -120.20 REMARK 500 TYR A 156 -32.97 -130.58 REMARK 500 ASN B 46 3.73 -67.77 REMARK 500 ALA B 73 80.47 -155.33 REMARK 500 SER B 87 -19.97 -142.74 REMARK 500 ILE B 120 -62.75 -103.30 REMARK 500 GLU C 32 35.92 -97.26 REMARK 500 PRO C 74 -177.48 -67.80 REMARK 500 GLU C 75 7.88 57.16 REMARK 500 SER C 87 -21.77 -147.43 REMARK 500 ILE C 120 -67.95 -105.53 REMARK 500 GLU D 32 48.41 -103.68 REMARK 500 SER D 87 -28.00 -147.96 REMARK 500 ARG D 138 15.82 -143.77 REMARK 500 ASN D 139 12.29 58.11 REMARK 500 TYR D 156 -32.00 -130.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LEU D 176 -12.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 83 OE2 REMARK 620 2 HIS C 92 NE2 78.0 REMARK 620 N 1 DBREF 6XB8 A 1 206 UNP P03132 REP68_AAV2S 1 206 DBREF 6XB8 B 1 206 UNP P03132 REP68_AAV2S 1 206 DBREF 6XB8 C 1 206 UNP P03132 REP68_AAV2S 1 206 DBREF 6XB8 D 1 206 UNP P03132 REP68_AAV2S 1 206 DBREF 6XB8 E 5 10 PDB 6XB8 6XB8 5 10 DBREF 6XB8 F 5 10 PDB 6XB8 6XB8 5 10 SEQADV 6XB8 GLU A 17 UNP P03132 GLY 17 CONFLICT SEQADV 6XB8 SER A 151 UNP P03132 CYS 151 ENGINEERED MUTATION SEQADV 6XB8 GLU B 17 UNP P03132 GLY 17 CONFLICT SEQADV 6XB8 SER B 151 UNP P03132 CYS 151 ENGINEERED MUTATION SEQADV 6XB8 GLU C 17 UNP P03132 GLY 17 CONFLICT SEQADV 6XB8 SER C 151 UNP P03132 CYS 151 ENGINEERED MUTATION SEQADV 6XB8 GLU D 17 UNP P03132 GLY 17 CONFLICT SEQADV 6XB8 SER D 151 UNP P03132 CYS 151 ENGINEERED MUTATION SEQRES 1 A 206 MET PRO GLY PHE TYR GLU ILE VAL ILE LYS VAL PRO SER SEQRES 2 A 206 ASP LEU ASP GLU HIS LEU PRO GLY ILE SER ASP SER PHE SEQRES 3 A 206 VAL ASN TRP VAL ALA GLU LYS GLU TRP GLU LEU PRO PRO SEQRES 4 A 206 ASP SER ASP MET ASP LEU ASN LEU ILE GLU GLN ALA PRO SEQRES 5 A 206 LEU THR VAL ALA GLU LYS LEU GLN ARG ASP PHE LEU THR SEQRES 6 A 206 GLU TRP ARG ARG VAL SER LYS ALA PRO GLU ALA LEU PHE SEQRES 7 A 206 PHE VAL GLN PHE GLU LYS GLY GLU SER TYR PHE HIS MET SEQRES 8 A 206 HIS VAL LEU VAL GLU THR THR GLY VAL LYS SER MET VAL SEQRES 9 A 206 LEU GLY ARG PHE LEU SER GLN ILE ARG GLU LYS LEU ILE SEQRES 10 A 206 GLN ARG ILE TYR ARG GLY ILE GLU PRO THR LEU PRO ASN SEQRES 11 A 206 TRP PHE ALA VAL THR LYS THR ARG ASN GLY ALA GLY GLY SEQRES 12 A 206 GLY ASN LYS VAL VAL ASP GLU SER TYR ILE PRO ASN TYR SEQRES 13 A 206 LEU LEU PRO LYS THR GLN PRO GLU LEU GLN TRP ALA TRP SEQRES 14 A 206 THR ASN MET GLU GLN TYR LEU SER ALA CYS LEU ASN LEU SEQRES 15 A 206 THR GLU ARG LYS ARG LEU VAL ALA GLN HIS LEU THR HIS SEQRES 16 A 206 VAL SER GLN THR GLN GLU GLN ASN LYS GLU ASN SEQRES 1 B 206 MET PRO GLY PHE TYR GLU ILE VAL ILE LYS VAL PRO SER SEQRES 2 B 206 ASP LEU ASP GLU HIS LEU PRO GLY ILE SER ASP SER PHE SEQRES 3 B 206 VAL ASN TRP VAL ALA GLU LYS GLU TRP GLU LEU PRO PRO SEQRES 4 B 206 ASP SER ASP MET ASP LEU ASN LEU ILE GLU GLN ALA PRO SEQRES 5 B 206 LEU THR VAL ALA GLU LYS LEU GLN ARG ASP PHE LEU THR SEQRES 6 B 206 GLU TRP ARG ARG VAL SER LYS ALA PRO GLU ALA LEU PHE SEQRES 7 B 206 PHE VAL GLN PHE GLU LYS GLY GLU SER TYR PHE HIS MET SEQRES 8 B 206 HIS VAL LEU VAL GLU THR THR GLY VAL LYS SER MET VAL SEQRES 9 B 206 LEU GLY ARG PHE LEU SER GLN ILE ARG GLU LYS LEU ILE SEQRES 10 B 206 GLN ARG ILE TYR ARG GLY ILE GLU PRO THR LEU PRO ASN SEQRES 11 B 206 TRP PHE ALA VAL THR LYS THR ARG ASN GLY ALA GLY GLY SEQRES 12 B 206 GLY ASN LYS VAL VAL ASP GLU SER TYR ILE PRO ASN TYR SEQRES 13 B 206 LEU LEU PRO LYS THR GLN PRO GLU LEU GLN TRP ALA TRP SEQRES 14 B 206 THR ASN MET GLU GLN TYR LEU SER ALA CYS LEU ASN LEU SEQRES 15 B 206 THR GLU ARG LYS ARG LEU VAL ALA GLN HIS LEU THR HIS SEQRES 16 B 206 VAL SER GLN THR GLN GLU GLN ASN LYS GLU ASN SEQRES 1 C 206 MET PRO GLY PHE TYR GLU ILE VAL ILE LYS VAL PRO SER SEQRES 2 C 206 ASP LEU ASP GLU HIS LEU PRO GLY ILE SER ASP SER PHE SEQRES 3 C 206 VAL ASN TRP VAL ALA GLU LYS GLU TRP GLU LEU PRO PRO SEQRES 4 C 206 ASP SER ASP MET ASP LEU ASN LEU ILE GLU GLN ALA PRO SEQRES 5 C 206 LEU THR VAL ALA GLU LYS LEU GLN ARG ASP PHE LEU THR SEQRES 6 C 206 GLU TRP ARG ARG VAL SER LYS ALA PRO GLU ALA LEU PHE SEQRES 7 C 206 PHE VAL GLN PHE GLU LYS GLY GLU SER TYR PHE HIS MET SEQRES 8 C 206 HIS VAL LEU VAL GLU THR THR GLY VAL LYS SER MET VAL SEQRES 9 C 206 LEU GLY ARG PHE LEU SER GLN ILE ARG GLU LYS LEU ILE SEQRES 10 C 206 GLN ARG ILE TYR ARG GLY ILE GLU PRO THR LEU PRO ASN SEQRES 11 C 206 TRP PHE ALA VAL THR LYS THR ARG ASN GLY ALA GLY GLY SEQRES 12 C 206 GLY ASN LYS VAL VAL ASP GLU SER TYR ILE PRO ASN TYR SEQRES 13 C 206 LEU LEU PRO LYS THR GLN PRO GLU LEU GLN TRP ALA TRP SEQRES 14 C 206 THR ASN MET GLU GLN TYR LEU SER ALA CYS LEU ASN LEU SEQRES 15 C 206 THR GLU ARG LYS ARG LEU VAL ALA GLN HIS LEU THR HIS SEQRES 16 C 206 VAL SER GLN THR GLN GLU GLN ASN LYS GLU ASN SEQRES 1 D 206 MET PRO GLY PHE TYR GLU ILE VAL ILE LYS VAL PRO SER SEQRES 2 D 206 ASP LEU ASP GLU HIS LEU PRO GLY ILE SER ASP SER PHE SEQRES 3 D 206 VAL ASN TRP VAL ALA GLU LYS GLU TRP GLU LEU PRO PRO SEQRES 4 D 206 ASP SER ASP MET ASP LEU ASN LEU ILE GLU GLN ALA PRO SEQRES 5 D 206 LEU THR VAL ALA GLU LYS LEU GLN ARG ASP PHE LEU THR SEQRES 6 D 206 GLU TRP ARG ARG VAL SER LYS ALA PRO GLU ALA LEU PHE SEQRES 7 D 206 PHE VAL GLN PHE GLU LYS GLY GLU SER TYR PHE HIS MET SEQRES 8 D 206 HIS VAL LEU VAL GLU THR THR GLY VAL LYS SER MET VAL SEQRES 9 D 206 LEU GLY ARG PHE LEU SER GLN ILE ARG GLU LYS LEU ILE SEQRES 10 D 206 GLN ARG ILE TYR ARG GLY ILE GLU PRO THR LEU PRO ASN SEQRES 11 D 206 TRP PHE ALA VAL THR LYS THR ARG ASN GLY ALA GLY GLY SEQRES 12 D 206 GLY ASN LYS VAL VAL ASP GLU SER TYR ILE PRO ASN TYR SEQRES 13 D 206 LEU LEU PRO LYS THR GLN PRO GLU LEU GLN TRP ALA TRP SEQRES 14 D 206 THR ASN MET GLU GLN TYR LEU SER ALA CYS LEU ASN LEU SEQRES 15 D 206 THR GLU ARG LYS ARG LEU VAL ALA GLN HIS LEU THR HIS SEQRES 16 D 206 VAL SER GLN THR GLN GLU GLN ASN LYS GLU ASN SEQRES 1 E 6 DG DC DT DC DT DT SEQRES 1 F 6 DG DC DT DC DT DT HET ZN A 501 1 HET ZN B 301 1 HET ZN C 301 1 HET ZN D 301 1 HETNAM ZN ZINC ION FORMUL 7 ZN 4(ZN 2+) HELIX 1 AA1 ASP A 14 LEU A 19 1 6 HELIX 2 AA2 SER A 23 GLU A 32 1 10 HELIX 3 AA3 ASP A 44 ILE A 48 5 5 HELIX 4 AA4 GLU A 49 LYS A 72 1 24 HELIX 5 AA5 LYS A 101 ILE A 120 1 20 HELIX 6 AA6 SER A 151 LEU A 157 1 7 HELIX 7 AA7 MET A 172 LEU A 176 5 5 HELIX 8 AA8 ASN A 181 ASN A 203 1 23 HELIX 9 AA9 ASP B 14 LEU B 19 1 6 HELIX 10 AB1 SER B 23 GLU B 32 1 10 HELIX 11 AB2 ASP B 44 ILE B 48 5 5 HELIX 12 AB3 GLU B 49 LYS B 72 1 24 HELIX 13 AB4 LYS B 101 ILE B 120 1 20 HELIX 14 AB5 SER B 151 LEU B 157 1 7 HELIX 15 AB6 MET B 172 LEU B 176 5 5 HELIX 16 AB7 ASN B 181 THR B 199 1 19 HELIX 17 AB8 ASP C 14 LEU C 19 1 6 HELIX 18 AB9 SER C 23 GLU C 32 1 10 HELIX 19 AC1 ASP C 44 ILE C 48 5 5 HELIX 20 AC2 GLU C 49 LYS C 72 1 24 HELIX 21 AC3 LYS C 101 ILE C 120 1 20 HELIX 22 AC4 SER C 151 LEU C 157 1 7 HELIX 23 AC5 MET C 172 LEU C 176 5 5 HELIX 24 AC6 ASN C 181 GLN C 202 1 22 HELIX 25 AC7 ASN C 203 GLU C 205 5 3 HELIX 26 AC8 ASP D 14 LEU D 19 1 6 HELIX 27 AC9 SER D 23 GLU D 32 1 10 HELIX 28 AD1 ASP D 44 ILE D 48 5 5 HELIX 29 AD2 GLU D 49 LYS D 72 1 24 HELIX 30 AD3 LYS D 101 TYR D 121 1 21 HELIX 31 AD4 SER D 151 LEU D 157 1 7 HELIX 32 AD5 MET D 172 LEU D 176 5 5 HELIX 33 AD6 ASN D 181 HIS D 195 1 15 SHEET 1 AA1 5 PHE A 132 VAL A 134 0 SHEET 2 AA1 5 PHE A 4 VAL A 11 -1 N VAL A 8 O ALA A 133 SHEET 3 AA1 5 PHE A 89 GLU A 96 -1 O VAL A 93 N ILE A 7 SHEET 4 AA1 5 PHE A 78 LYS A 84 -1 N GLU A 83 O HIS A 90 SHEET 5 AA1 5 LEU A 165 THR A 170 -1 O TRP A 169 N VAL A 80 SHEET 1 AA2 3 PHE B 132 VAL B 134 0 SHEET 2 AA2 3 PHE B 4 VAL B 11 -1 N VAL B 8 O ALA B 133 SHEET 3 AA2 3 VAL B 147 VAL B 148 -1 O VAL B 148 N PHE B 4 SHEET 1 AA3 5 PHE B 132 VAL B 134 0 SHEET 2 AA3 5 PHE B 4 VAL B 11 -1 N VAL B 8 O ALA B 133 SHEET 3 AA3 5 PHE B 89 GLU B 96 -1 O VAL B 93 N ILE B 7 SHEET 4 AA3 5 PHE B 78 LYS B 84 -1 N GLU B 83 O HIS B 90 SHEET 5 AA3 5 LEU B 165 THR B 170 -1 O TRP B 169 N VAL B 80 SHEET 1 AA4 5 PHE C 132 VAL C 134 0 SHEET 2 AA4 5 PHE C 4 VAL C 11 -1 N VAL C 8 O ALA C 133 SHEET 3 AA4 5 PHE C 89 GLU C 96 -1 O VAL C 95 N TYR C 5 SHEET 4 AA4 5 PHE C 78 LYS C 84 -1 N GLU C 83 O HIS C 90 SHEET 5 AA4 5 LEU C 165 THR C 170 -1 O TRP C 169 N VAL C 80 SHEET 1 AA5 3 PHE D 132 VAL D 134 0 SHEET 2 AA5 3 PHE D 4 VAL D 11 -1 N VAL D 8 O ALA D 133 SHEET 3 AA5 3 VAL D 147 VAL D 148 -1 O VAL D 148 N PHE D 4 SHEET 1 AA6 5 PHE D 132 VAL D 134 0 SHEET 2 AA6 5 PHE D 4 VAL D 11 -1 N VAL D 8 O ALA D 133 SHEET 3 AA6 5 PHE D 89 GLU D 96 -1 O PHE D 89 N VAL D 11 SHEET 4 AA6 5 PHE D 78 LYS D 84 -1 N GLU D 83 O HIS D 90 SHEET 5 AA6 5 LEU D 165 THR D 170 -1 O TRP D 169 N VAL D 80 LINK NE2 HIS B 92 ZN ZN B 301 1555 1555 2.31 LINK OE2 GLU C 83 ZN ZN C 301 1555 1555 2.60 LINK NE2 HIS C 92 ZN ZN C 301 1555 1555 2.33 CISPEP 1 GLN A 162 PRO A 163 0 2.98 CISPEP 2 GLN B 162 PRO B 163 0 5.20 CISPEP 3 GLN C 162 PRO C 163 0 2.81 CISPEP 4 GLN D 162 PRO D 163 0 4.15 CRYST1 170.180 173.220 173.450 90.00 90.00 90.00 I 2 2 2 32 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 0.005876 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005773 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005765 0.00000