PDB Short entry for 4BAC HEADER TRANSFERASE/DNA 12-SEP-12 4BAC TITLE PROTOTYPE FOAMY VIRUS STRAND TRANSFER COMPLEXES ON PRODUCT DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: IN, P42IN; COMPND 5 EC: 2.7.7.49, 2.7.7.7, 3.1.26.13; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP COMPND 9 *TP*TP*GP*TP*AP)-3'; COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (38-MER); COMPND 14 CHAIN: D; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: 5'-D(*AP*GP*GP*AP*GP*CP*CP*AP*AP*GP*AP*CP*GP*GP *AP*TP*CP)- COMPND 18 3'; COMPND 19 CHAIN: E; COMPND 20 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN SPUMARETROVIRUS; SOURCE 3 ORGANISM_TAXID: 11963; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-15B; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630; SOURCE 17 MOL_ID: 4; SOURCE 18 SYNTHETIC: YES; SOURCE 19 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 20 ORGANISM_TAXID: 32630 KEYWDS TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Z.YIN,M.LAPKOUSKI,W.YANG,R.CRAIGIE REVDAT 4 20-DEC-23 4BAC 1 REMARK LINK REVDAT 3 08-MAY-19 4BAC 1 REMARK REVDAT 2 12-DEC-12 4BAC 1 HEADER KEYWDS JRNL REVDAT 1 10-OCT-12 4BAC 0 JRNL AUTH Z.YIN,M.LAPKOUSKI,W.YANG,R.CRAIGIE JRNL TITL ASSEMBLY OF PROTOTYPE FOAMY VIRUS STRAND TRANSFER COMPLEXES JRNL TITL 2 ON PRODUCT DNA BYPASSING CATALYSIS OF INTEGRATION. JRNL REF PROTEIN SCI. V. 21 1849 2012 JRNL REFN ISSN 0961-8368 JRNL PMID 23011895 JRNL DOI 10.1002/PRO.2166 REMARK 2 REMARK 2 RESOLUTION. 3.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.130 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 24101 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1223 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 29.1426 - 6.7613 0.95 2771 137 0.1702 0.2089 REMARK 3 2 6.7613 - 5.3776 0.96 2691 142 0.1655 0.1993 REMARK 3 3 5.3776 - 4.7011 0.96 2644 143 0.1477 0.1771 REMARK 3 4 4.7011 - 4.2727 0.96 2637 132 0.1383 0.1881 REMARK 3 5 4.2727 - 3.9673 0.95 2540 161 0.1637 0.1865 REMARK 3 6 3.9673 - 3.7339 0.91 2477 132 0.1991 0.2672 REMARK 3 7 3.7339 - 3.5472 0.91 2447 130 0.2149 0.2817 REMARK 3 8 3.5472 - 3.3930 0.88 2365 115 0.2427 0.2809 REMARK 3 9 3.3930 - 3.2626 0.86 2306 131 0.2935 0.3555 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 : 0.26 REMARK 3 B_SOL : 21.77 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 9.91390 REMARK 3 B22 (A**2) : 9.91390 REMARK 3 B33 (A**2) : -19.82780 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 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 : 0.009 5960 REMARK 3 ANGLE : 1.313 8390 REMARK 3 CHIRALITY : 0.073 951 REMARK 3 PLANARITY : 0.007 847 REMARK 3 DIHEDRAL : 21.720 2298 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4BAC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1290054045. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL - SI (220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25740 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.260 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.26 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.62000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3L2R REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN THROUGH REVERSE REMARK 280 VAPOR DIFFUSION IN HANGING DROPS AT 23 C BY MIXING 1 UL IN-DNA REMARK 280 COMPLEX SOLUTION (20 MM HEPES, PH 7.5, 500 MM NACL, 5 MM MGCL2, REMARK 280 2 MM TCEP AND 8% (W/V) GLYCEROL) WITH 1 UL RESERVOIR SOLUTION REMARK 280 (50 MM NA CACODYLATE, PH 6.5, 100 MM MGCL2, 1 MM COCL3 AND 6% (V/ REMARK 280 V) ETHANOL)., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 62.54600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 80.30850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 80.30850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.27300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 80.30850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 80.30850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 93.81900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 80.30850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.30850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.27300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 80.30850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.30850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 93.81900 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 62.54600 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 64960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -200.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -62.54600 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 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 CYS A 1 REMARK 465 ASN A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 LYS A 5 REMARK 465 PRO A 6 REMARK 465 ASN A 7 REMARK 465 ASN A 376 REMARK 465 GLY A 377 REMARK 465 THR A 378 REMARK 465 THR A 379 REMARK 465 ASN A 380 REMARK 465 ASP A 381 REMARK 465 THR A 382 REMARK 465 ALA A 383 REMARK 465 THR A 384 REMARK 465 MET A 385 REMARK 465 ASP A 386 REMARK 465 HIS A 387 REMARK 465 LEU A 388 REMARK 465 GLU A 389 REMARK 465 LYS A 390 REMARK 465 ASN A 391 REMARK 465 GLU A 392 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 HIS B -1 REMARK 465 MET B 0 REMARK 465 CYS B 1 REMARK 465 ASN B 2 REMARK 465 THR B 3 REMARK 465 LYS B 4 REMARK 465 LYS B 5 REMARK 465 PRO B 6 REMARK 465 ASN B 7 REMARK 465 LEU B 8 REMARK 465 ASP B 9 REMARK 465 ALA B 10 REMARK 465 GLU B 11 REMARK 465 LEU B 12 REMARK 465 ASP B 13 REMARK 465 GLN B 14 REMARK 465 LEU B 15 REMARK 465 LEU B 16 REMARK 465 GLN B 17 REMARK 465 GLY B 18 REMARK 465 HIS B 19 REMARK 465 TYR B 20 REMARK 465 ILE B 21 REMARK 465 LYS B 22 REMARK 465 GLY B 23 REMARK 465 TYR B 24 REMARK 465 PRO B 25 REMARK 465 LYS B 26 REMARK 465 GLN B 27 REMARK 465 TYR B 28 REMARK 465 THR B 29 REMARK 465 TYR B 30 REMARK 465 PHE B 31 REMARK 465 LEU B 32 REMARK 465 GLU B 33 REMARK 465 ASP B 34 REMARK 465 GLY B 35 REMARK 465 LYS B 36 REMARK 465 VAL B 37 REMARK 465 LYS B 38 REMARK 465 VAL B 39 REMARK 465 SER B 40 REMARK 465 ARG B 41 REMARK 465 PRO B 42 REMARK 465 GLU B 43 REMARK 465 GLY B 44 REMARK 465 VAL B 45 REMARK 465 LYS B 46 REMARK 465 ILE B 47 REMARK 465 ILE B 48 REMARK 465 PRO B 49 REMARK 465 PRO B 50 REMARK 465 GLN B 51 REMARK 465 SER B 52 REMARK 465 ASP B 53 REMARK 465 ARG B 54 REMARK 465 GLN B 55 REMARK 465 LYS B 56 REMARK 465 ILE B 57 REMARK 465 VAL B 58 REMARK 465 LEU B 59 REMARK 465 GLN B 60 REMARK 465 ALA B 61 REMARK 465 HIS B 62 REMARK 465 ASN B 63 REMARK 465 LEU B 64 REMARK 465 ALA B 65 REMARK 465 HIS B 66 REMARK 465 THR B 67 REMARK 465 GLY B 68 REMARK 465 ARG B 69 REMARK 465 GLU B 70 REMARK 465 ALA B 71 REMARK 465 THR B 72 REMARK 465 LEU B 73 REMARK 465 LEU B 74 REMARK 465 LYS B 75 REMARK 465 ILE B 76 REMARK 465 ALA B 77 REMARK 465 ASN B 78 REMARK 465 LEU B 79 REMARK 465 TYR B 80 REMARK 465 TRP B 81 REMARK 465 TRP B 82 REMARK 465 PRO B 83 REMARK 465 ASN B 84 REMARK 465 MET B 85 REMARK 465 ARG B 86 REMARK 465 LYS B 87 REMARK 465 ASP B 88 REMARK 465 VAL B 89 REMARK 465 VAL B 90 REMARK 465 LYS B 91 REMARK 465 GLN B 92 REMARK 465 LEU B 93 REMARK 465 GLY B 94 REMARK 465 ARG B 95 REMARK 465 CYS B 96 REMARK 465 GLN B 97 REMARK 465 GLN B 98 REMARK 465 CYS B 99 REMARK 465 LEU B 100 REMARK 465 ILE B 101 REMARK 465 THR B 102 REMARK 465 ASN B 103 REMARK 465 ALA B 104 REMARK 465 SER B 105 REMARK 465 ASN B 106 REMARK 465 LYS B 107 REMARK 465 ALA B 108 REMARK 465 SER B 109 REMARK 465 GLY B 110 REMARK 465 PRO B 111 REMARK 465 ILE B 112 REMARK 465 LEU B 113 REMARK 465 ARG B 114 REMARK 465 PRO B 115 REMARK 465 THR B 300 REMARK 465 SER B 301 REMARK 465 LEU B 302 REMARK 465 TYR B 303 REMARK 465 HIS B 304 REMARK 465 PRO B 305 REMARK 465 SER B 306 REMARK 465 THR B 307 REMARK 465 PRO B 308 REMARK 465 PRO B 309 REMARK 465 ALA B 310 REMARK 465 SER B 311 REMARK 465 SER B 312 REMARK 465 ARG B 313 REMARK 465 SER B 314 REMARK 465 TRP B 315 REMARK 465 SER B 316 REMARK 465 PRO B 317 REMARK 465 VAL B 318 REMARK 465 VAL B 319 REMARK 465 GLY B 320 REMARK 465 GLN B 321 REMARK 465 LEU B 322 REMARK 465 VAL B 323 REMARK 465 GLN B 324 REMARK 465 GLU B 325 REMARK 465 ARG B 326 REMARK 465 VAL B 327 REMARK 465 ALA B 328 REMARK 465 ARG B 329 REMARK 465 PRO B 330 REMARK 465 ALA B 331 REMARK 465 SER B 332 REMARK 465 LEU B 333 REMARK 465 ARG B 334 REMARK 465 PRO B 335 REMARK 465 ARG B 336 REMARK 465 TRP B 337 REMARK 465 HIS B 338 REMARK 465 LYS B 339 REMARK 465 PRO B 340 REMARK 465 SER B 341 REMARK 465 THR B 342 REMARK 465 VAL B 343 REMARK 465 LEU B 344 REMARK 465 LYS B 345 REMARK 465 VAL B 346 REMARK 465 LEU B 347 REMARK 465 ASN B 348 REMARK 465 PRO B 349 REMARK 465 ARG B 350 REMARK 465 THR B 351 REMARK 465 VAL B 352 REMARK 465 VAL B 353 REMARK 465 ILE B 354 REMARK 465 LEU B 355 REMARK 465 ASP B 356 REMARK 465 HIS B 357 REMARK 465 LEU B 358 REMARK 465 GLY B 359 REMARK 465 ASN B 360 REMARK 465 ASN B 361 REMARK 465 ARG B 362 REMARK 465 THR B 363 REMARK 465 VAL B 364 REMARK 465 SER B 365 REMARK 465 ILE B 366 REMARK 465 ASP B 367 REMARK 465 ASN B 368 REMARK 465 LEU B 369 REMARK 465 LYS B 370 REMARK 465 PRO B 371 REMARK 465 THR B 372 REMARK 465 SER B 373 REMARK 465 HIS B 374 REMARK 465 GLN B 375 REMARK 465 ASN B 376 REMARK 465 GLY B 377 REMARK 465 THR B 378 REMARK 465 THR B 379 REMARK 465 ASN B 380 REMARK 465 ASP B 381 REMARK 465 THR B 382 REMARK 465 ALA B 383 REMARK 465 THR B 384 REMARK 465 MET B 385 REMARK 465 ASP B 386 REMARK 465 HIS B 387 REMARK 465 LEU B 388 REMARK 465 GLU B 389 REMARK 465 LYS B 390 REMARK 465 ASN B 391 REMARK 465 GLU B 392 REMARK 465 DC D 34 REMARK 465 DT D 35 REMARK 465 DC D 36 REMARK 465 DC D 37 REMARK 465 DT D 38 REMARK 465 DA E 2 REMARK 465 DG E 3 REMARK 465 DG E 4 REMARK 465 DA E 5 REMARK 465 DG E 6 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 LEU A 8 CG CD1 CD2 REMARK 470 ARG A 329 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 215 CG CD OE1 NE2 REMARK 470 LYS B 262 CG CD CE NZ REMARK 470 LEU B 294 CG CD1 CD2 REMARK 470 LEU B 295 CG CD1 CD2 REMARK 470 ARG B 299 CG CD NE CZ NH1 NH2 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 HIS A 66 71.61 51.89 REMARK 500 LEU A 79 -42.25 -131.82 REMARK 500 ASN A 84 70.16 57.19 REMARK 500 ILE A 130 57.07 -99.19 REMARK 500 LEU A 140 -30.05 -130.81 REMARK 500 LYS A 262 -3.40 71.35 REMARK 500 SER A 274 -153.74 -79.98 REMARK 500 THR A 283 34.30 -94.66 REMARK 500 SER A 301 45.82 -100.74 REMARK 500 ARG A 313 76.91 -119.10 REMARK 500 ALA A 328 -74.43 -57.36 REMARK 500 PRO A 349 8.86 -61.20 REMARK 500 HIS A 374 70.89 61.06 REMARK 500 GLN B 186 41.26 -77.77 REMARK 500 TYR B 212 -19.81 73.39 REMARK 500 SER B 216 -31.22 -138.96 REMARK 500 THR B 283 4.03 -67.32 REMARK 500 LEU B 284 -5.60 66.71 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 A1376 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 62 NE2 REMARK 620 2 HIS A 66 ND1 104.9 REMARK 620 3 CYS A 96 SG 90.0 86.7 REMARK 620 4 CYS A 99 SG 121.7 130.4 107.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1377 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 128 OD1 REMARK 620 2 HOH A2002 O 92.3 REMARK 620 3 HOH A2003 O 156.4 110.4 REMARK 620 4 DC E 18 O3' 101.6 77.4 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 128 OD1 REMARK 620 2 ASP B 185 OD2 62.6 REMARK 620 3 DA C 19 O3' 111.6 70.1 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1376 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1377 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2X6N RELATED DB: PDB REMARK 900 HUMAN FOAMY VIRUS INTEGRASE - CATALYTIC CORE. MANGANESE- BOUND REMARK 900 STRUCTURE. REMARK 900 RELATED ID: 2X6S RELATED DB: PDB REMARK 900 HUMAN FOAMY VIRUS INTEGRASE - CATALYTIC CORE. MAGNESIUM- BOUND REMARK 900 STRUCTURE. REMARK 900 RELATED ID: 2X74 RELATED DB: PDB REMARK 900 HUMAN FOAMY VIRUS INTEGRASE - CATALYTIC CORE. REMARK 900 RELATED ID: 2X78 RELATED DB: PDB REMARK 900 HUMAN FOAMY VIRUS INTEGRASE - CATALYTIC CORE. DBREF 4BAC A 1 392 UNP P14350 POL_FOAMV 752 1143 DBREF 4BAC B 1 392 UNP P14350 POL_FOAMV 752 1143 DBREF 4BAC C 1 19 PDB 4BAC 4BAC 1 19 DBREF 4BAC D 1 38 PDB 4BAC 4BAC 1 38 DBREF 4BAC E 2 18 PDB 4BAC 4BAC 2 18 SEQADV 4BAC GLY A -3 UNP P14350 EXPRESSION TAG SEQADV 4BAC SER A -2 UNP P14350 EXPRESSION TAG SEQADV 4BAC HIS A -1 UNP P14350 EXPRESSION TAG SEQADV 4BAC MET A 0 UNP P14350 EXPRESSION TAG SEQADV 4BAC GLY B -3 UNP P14350 EXPRESSION TAG SEQADV 4BAC SER B -2 UNP P14350 EXPRESSION TAG SEQADV 4BAC HIS B -1 UNP P14350 EXPRESSION TAG SEQADV 4BAC MET B 0 UNP P14350 EXPRESSION TAG SEQRES 1 A 396 GLY SER HIS MET CYS ASN THR LYS LYS PRO ASN LEU ASP SEQRES 2 A 396 ALA GLU LEU ASP GLN LEU LEU GLN GLY HIS TYR ILE LYS SEQRES 3 A 396 GLY TYR PRO LYS GLN TYR THR TYR PHE LEU GLU ASP GLY SEQRES 4 A 396 LYS VAL LYS VAL SER ARG PRO GLU GLY VAL LYS ILE ILE SEQRES 5 A 396 PRO PRO GLN SER ASP ARG GLN LYS ILE VAL LEU GLN ALA SEQRES 6 A 396 HIS ASN LEU ALA HIS THR GLY ARG GLU ALA THR LEU LEU SEQRES 7 A 396 LYS ILE ALA ASN LEU TYR TRP TRP PRO ASN MET ARG LYS SEQRES 8 A 396 ASP VAL VAL LYS GLN LEU GLY ARG CYS GLN GLN CYS LEU SEQRES 9 A 396 ILE THR ASN ALA SER ASN LYS ALA SER GLY PRO ILE LEU SEQRES 10 A 396 ARG PRO ASP ARG PRO GLN LYS PRO PHE ASP LYS PHE PHE SEQRES 11 A 396 ILE ASP TYR ILE GLY PRO LEU PRO PRO SER GLN GLY TYR SEQRES 12 A 396 LEU TYR VAL LEU VAL VAL VAL ASP GLY MET THR GLY PHE SEQRES 13 A 396 THR TRP LEU TYR PRO THR LYS ALA PRO SER THR SER ALA SEQRES 14 A 396 THR VAL LYS SER LEU ASN VAL LEU THR SER ILE ALA ILE SEQRES 15 A 396 PRO LYS VAL ILE HIS SER ASP GLN GLY ALA ALA PHE THR SEQRES 16 A 396 SER SER THR PHE ALA GLU TRP ALA LYS GLU ARG GLY ILE SEQRES 17 A 396 HIS LEU GLU PHE SER THR PRO TYR HIS PRO GLN SER GLY SEQRES 18 A 396 SER LYS VAL GLU ARG LYS ASN SER ASP ILE LYS ARG LEU SEQRES 19 A 396 LEU THR LYS LEU LEU VAL GLY ARG PRO THR LYS TRP TYR SEQRES 20 A 396 ASP LEU LEU PRO VAL VAL GLN LEU ALA LEU ASN ASN THR SEQRES 21 A 396 TYR SER PRO VAL LEU LYS TYR THR PRO HIS GLN LEU LEU SEQRES 22 A 396 PHE GLY ILE ASP SER ASN THR PRO PHE ALA ASN GLN ASP SEQRES 23 A 396 THR LEU ASP LEU THR ARG GLU GLU GLU LEU SER LEU LEU SEQRES 24 A 396 GLN GLU ILE ARG THR SER LEU TYR HIS PRO SER THR PRO SEQRES 25 A 396 PRO ALA SER SER ARG SER TRP SER PRO VAL VAL GLY GLN SEQRES 26 A 396 LEU VAL GLN GLU ARG VAL ALA ARG PRO ALA SER LEU ARG SEQRES 27 A 396 PRO ARG TRP HIS LYS PRO SER THR VAL LEU LYS VAL LEU SEQRES 28 A 396 ASN PRO ARG THR VAL VAL ILE LEU ASP HIS LEU GLY ASN SEQRES 29 A 396 ASN ARG THR VAL SER ILE ASP ASN LEU LYS PRO THR SER SEQRES 30 A 396 HIS GLN ASN GLY THR THR ASN ASP THR ALA THR MET ASP SEQRES 31 A 396 HIS LEU GLU LYS ASN GLU SEQRES 1 B 396 GLY SER HIS MET CYS ASN THR LYS LYS PRO ASN LEU ASP SEQRES 2 B 396 ALA GLU LEU ASP GLN LEU LEU GLN GLY HIS TYR ILE LYS SEQRES 3 B 396 GLY TYR PRO LYS GLN TYR THR TYR PHE LEU GLU ASP GLY SEQRES 4 B 396 LYS VAL LYS VAL SER ARG PRO GLU GLY VAL LYS ILE ILE SEQRES 5 B 396 PRO PRO GLN SER ASP ARG GLN LYS ILE VAL LEU GLN ALA SEQRES 6 B 396 HIS ASN LEU ALA HIS THR GLY ARG GLU ALA THR LEU LEU SEQRES 7 B 396 LYS ILE ALA ASN LEU TYR TRP TRP PRO ASN MET ARG LYS SEQRES 8 B 396 ASP VAL VAL LYS GLN LEU GLY ARG CYS GLN GLN CYS LEU SEQRES 9 B 396 ILE THR ASN ALA SER ASN LYS ALA SER GLY PRO ILE LEU SEQRES 10 B 396 ARG PRO ASP ARG PRO GLN LYS PRO PHE ASP LYS PHE PHE SEQRES 11 B 396 ILE ASP TYR ILE GLY PRO LEU PRO PRO SER GLN GLY TYR SEQRES 12 B 396 LEU TYR VAL LEU VAL VAL VAL ASP GLY MET THR GLY PHE SEQRES 13 B 396 THR TRP LEU TYR PRO THR LYS ALA PRO SER THR SER ALA SEQRES 14 B 396 THR VAL LYS SER LEU ASN VAL LEU THR SER ILE ALA ILE SEQRES 15 B 396 PRO LYS VAL ILE HIS SER ASP GLN GLY ALA ALA PHE THR SEQRES 16 B 396 SER SER THR PHE ALA GLU TRP ALA LYS GLU ARG GLY ILE SEQRES 17 B 396 HIS LEU GLU PHE SER THR PRO TYR HIS PRO GLN SER GLY SEQRES 18 B 396 SER LYS VAL GLU ARG LYS ASN SER ASP ILE LYS ARG LEU SEQRES 19 B 396 LEU THR LYS LEU LEU VAL GLY ARG PRO THR LYS TRP TYR SEQRES 20 B 396 ASP LEU LEU PRO VAL VAL GLN LEU ALA LEU ASN ASN THR SEQRES 21 B 396 TYR SER PRO VAL LEU LYS TYR THR PRO HIS GLN LEU LEU SEQRES 22 B 396 PHE GLY ILE ASP SER ASN THR PRO PHE ALA ASN GLN ASP SEQRES 23 B 396 THR LEU ASP LEU THR ARG GLU GLU GLU LEU SER LEU LEU SEQRES 24 B 396 GLN GLU ILE ARG THR SER LEU TYR HIS PRO SER THR PRO SEQRES 25 B 396 PRO ALA SER SER ARG SER TRP SER PRO VAL VAL GLY GLN SEQRES 26 B 396 LEU VAL GLN GLU ARG VAL ALA ARG PRO ALA SER LEU ARG SEQRES 27 B 396 PRO ARG TRP HIS LYS PRO SER THR VAL LEU LYS VAL LEU SEQRES 28 B 396 ASN PRO ARG THR VAL VAL ILE LEU ASP HIS LEU GLY ASN SEQRES 29 B 396 ASN ARG THR VAL SER ILE ASP ASN LEU LYS PRO THR SER SEQRES 30 B 396 HIS GLN ASN GLY THR THR ASN ASP THR ALA THR MET ASP SEQRES 31 B 396 HIS LEU GLU LYS ASN GLU SEQRES 1 C 19 DA DT DT DG DT DC DA DT DG DG DA DA DT SEQRES 2 C 19 DT DT DT DG DT DA SEQRES 1 D 38 DT DA DC DA DA DA DA DT DT DC DC DA DT SEQRES 2 D 38 DG DA DC DA DG DT DA DC DG DA DT DC DC SEQRES 3 D 38 DG DT DC DT DT DG DA DC DT DC DC DT SEQRES 1 E 17 DA DG DG DA DG DC DC DA DA DG DA DC DG SEQRES 2 E 17 DG DA DT DC HET ZN A1376 1 HET MG A1377 1 HET MG B1300 1 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION FORMUL 6 ZN ZN 2+ FORMUL 7 MG 2(MG 2+) FORMUL 9 HOH *3(H2 O) HELIX 1 1 ASP A 9 GLN A 17 1 9 HELIX 2 2 PRO A 50 ASN A 63 1 14 HELIX 3 3 GLY A 68 ALA A 77 1 10 HELIX 4 4 ASN A 84 GLY A 94 1 11 HELIX 5 5 CYS A 96 ILE A 101 1 6 HELIX 6 6 SER A 162 THR A 174 1 13 HELIX 7 7 GLY A 187 SER A 192 1 6 HELIX 8 8 SER A 192 GLY A 203 1 12 HELIX 9 9 HIS A 213 SER A 216 5 4 HELIX 10 10 GLY A 217 LEU A 235 1 19 HELIX 11 11 LEU A 245 ASN A 255 1 11 HELIX 12 12 THR A 264 PHE A 270 1 7 HELIX 13 13 THR A 287 SER A 301 1 15 HELIX 14 14 SER B 162 SER B 175 1 14 HELIX 15 15 SER B 192 GLY B 203 1 12 HELIX 16 16 GLY B 217 VAL B 236 1 20 HELIX 17 17 LEU B 245 ASN B 255 1 11 HELIX 18 18 THR B 264 PHE B 270 1 7 HELIX 19 19 THR B 287 ARG B 299 1 13 SHEET 1 AA 3 TYR A 30 GLU A 33 0 SHEET 2 AA 3 LYS A 36 SER A 40 -1 O LYS A 36 N GLU A 33 SHEET 3 AA 3 VAL A 45 ILE A 47 -1 O LYS A 46 N VAL A 39 SHEET 1 AB 2 ALA A 108 SER A 109 0 SHEET 2 AB 2 SER A 314 TRP A 315 1 N TRP A 315 O ALA A 108 SHEET 1 AC 5 THR A 153 THR A 158 0 SHEET 2 AC 5 TYR A 141 ASP A 147 -1 O TYR A 141 N THR A 158 SHEET 3 AC 5 LYS A 124 TYR A 129 -1 O PHE A 126 N VAL A 146 SHEET 4 AC 5 VAL A 181 SER A 184 1 O VAL A 181 N PHE A 125 SHEET 5 AC 5 HIS A 205 PHE A 208 1 O HIS A 205 N ILE A 182 SHEET 1 AD 5 ASN A 361 SER A 365 0 SHEET 2 AD 5 THR A 351 LEU A 355 -1 O VAL A 352 N VAL A 364 SHEET 3 AD 5 SER A 341 ASN A 348 -1 O THR A 342 N LEU A 355 SHEET 4 AD 5 LEU A 322 GLU A 325 -1 O VAL A 323 N SER A 341 SHEET 5 AD 5 LEU A 369 PRO A 371 -1 O LYS A 370 N GLN A 324 SHEET 1 BA 5 THR B 153 THR B 158 0 SHEET 2 BA 5 TYR B 141 ASP B 147 -1 O TYR B 141 N THR B 158 SHEET 3 BA 5 LYS B 124 TYR B 129 -1 O PHE B 126 N VAL B 146 SHEET 4 BA 5 VAL B 181 SER B 184 1 O VAL B 181 N PHE B 125 SHEET 5 BA 5 HIS B 205 PHE B 208 1 O HIS B 205 N ILE B 182 LINK NE2 HIS A 62 ZN ZN A1376 1555 1555 2.15 LINK ND1 HIS A 66 ZN ZN A1376 1555 1555 2.40 LINK SG CYS A 96 ZN ZN A1376 1555 1555 2.93 LINK SG CYS A 99 ZN ZN A1376 1555 1555 1.51 LINK OD1 ASP A 128 MG MG A1377 1555 1555 2.44 LINK MG MG A1377 O HOH A2002 1555 1555 1.99 LINK MG MG A1377 O HOH A2003 1555 1555 2.46 LINK MG MG A1377 O3' DC E 18 1555 8554 2.35 LINK OD1 ASP B 128 MG MG B1300 1555 1555 2.66 LINK OD2 ASP B 185 MG MG B1300 1555 1555 2.97 LINK MG MG B1300 O3' DA C 19 1555 3555 2.43 SITE 1 AC1 4 HIS A 62 HIS A 66 CYS A 96 CYS A 99 SITE 1 AC2 5 ASP A 128 ASP A 185 HOH A2002 HOH A2003 SITE 2 AC2 5 DC E 18 SITE 1 AC3 4 ASP B 128 TYR B 129 ASP B 185 DA C 19 CRYST1 160.617 160.617 125.092 90.00 90.00 90.00 P 41 21 2 16 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 0.006226 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006226 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007994 0.00000