HEADER VIRAL PROTEIN 24-FEB-10 2X78 TITLE HUMAN FOAMY VIRUS INTEGRASE - CATALYTIC CORE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRASE; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: CATALYTIC CORE, RESIDUES 861-1060; COMPND 5 SYNONYM: IN, P42IN, PFV INTEGRASE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN SPUMARETROVIRUS; SOURCE 3 ORGANISM_TAXID: 11963; SOURCE 4 STRAIN: HSRV2; SOURCE 5 ATCC: P11963; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-15B KEYWDS VIRAL PROTEIN, RETROVIRAL INTEGRASE, DNA-DIRECTED DNA POLYMERASE, KEYWDS 2 NUCLEOTIDYLTRANSFERASE, DNA INTEGRATION, ASPARTYL PROTEASE, DNA KEYWDS 3 RECOMBINATION, TRANSFERASE, NUCLEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.RETY,O.DELELIS,L.REZABKOVA,B.DUBANCHET,P.LEGRAND,J.SILHAN,A.LEWIT- AUTHOR 2 BENTLEY REVDAT 3 20-DEC-23 2X78 1 REMARK REVDAT 2 18-APR-12 2X78 1 JRNL REMARK VERSN REVDAT 1 11-AUG-10 2X78 0 JRNL AUTH S.RETY,L.REZABKOVA,B.DUBANCHET,J.SILHAN,P.LEGRAND, JRNL AUTH 2 A.LEWIT-BENTLEY JRNL TITL STRUCTURAL STUDIES OF THE CATALYTIC CORE OF THE PRIMATE JRNL TITL 2 FOAMY VIRUS (PFV-1) INTEGRASE JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 66 881 2010 JRNL REFN ESSN 1744-3091 JRNL PMID 20693659 JRNL DOI 10.1107/S1744309110022852 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 3 NUMBER OF REFLECTIONS : 36271 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1910 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1073 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 36.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.3760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4239 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 362 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : -0.04000 REMARK 3 B33 (A**2) : -0.05000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.227 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.204 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.154 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.660 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4377 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5961 ; 1.217 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 522 ; 5.437 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;34.433 ;23.278 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 737 ;16.398 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;17.845 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 691 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3233 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2659 ; 1.235 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4349 ; 2.185 ; 3.500 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1718 ; 2.228 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1612 ; 3.472 ; 5.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS.U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 2X78 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1290043020. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 180 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93100 REMARK 200 MONOCHROMATOR : SI (111) CHANNEL-CUT CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38236 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 49.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 53.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL 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: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 2X74 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CITRATE, PH=5, 14% PEG REMARK 280 8000, 10% GLUCOSE, 5% MPD, 4MG/ML PROTEIN REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 120.16000 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 120.16000 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 25.90000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.02000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 25.90000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.02000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 120.16000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 25.90000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.02000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 120.16000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 25.90000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.02000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 -1.000000 0.000000 0.000000 51.80000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 120.16000 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 110 REMARK 465 PRO A 111 REMARK 465 ILE A 112 REMARK 465 LEU A 113 REMARK 465 ARG A 114 REMARK 465 PRO A 115 REMARK 465 ASP A 116 REMARK 465 ARG A 117 REMARK 465 PRO A 118 REMARK 465 PRO A 211 REMARK 465 TYR A 212 REMARK 465 HIS A 213 REMARK 465 PRO A 214 REMARK 465 GLN A 215 REMARK 465 SER A 216 REMARK 465 GLY A 217 REMARK 465 ASP A 273 REMARK 465 SER A 274 REMARK 465 ASN A 275 REMARK 465 THR A 276 REMARK 465 PRO A 277 REMARK 465 PHE A 278 REMARK 465 ALA A 279 REMARK 465 ASN A 280 REMARK 465 GLN A 281 REMARK 465 SER A 306 REMARK 465 THR A 307 REMARK 465 PRO A 308 REMARK 465 PRO A 309 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 ASP B 116 REMARK 465 ARG B 117 REMARK 465 TYR B 212 REMARK 465 HIS B 213 REMARK 465 PRO B 214 REMARK 465 GLN B 215 REMARK 465 SER B 216 REMARK 465 GLY B 217 REMARK 465 SER B 218 REMARK 465 ASP B 273 REMARK 465 SER B 274 REMARK 465 ASN B 275 REMARK 465 THR B 276 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 GLY C 110 REMARK 465 PRO C 111 REMARK 465 ILE C 112 REMARK 465 LEU C 113 REMARK 465 ARG C 114 REMARK 465 PRO C 115 REMARK 465 ASP C 116 REMARK 465 ARG C 117 REMARK 465 PRO C 211 REMARK 465 TYR C 212 REMARK 465 HIS C 213 REMARK 465 PRO C 214 REMARK 465 GLN C 215 REMARK 465 SER C 306 REMARK 465 THR C 307 REMARK 465 PRO C 308 REMARK 465 PRO C 309 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 LYS B 219 CG CD CE NZ 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 OH TYR C 243 O HOH C 2114 2.17 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 GLN A 137 47.37 33.75 REMARK 500 ASP A 185 -158.69 -89.64 REMARK 500 GLN B 186 32.06 -93.34 REMARK 500 ARG B 238 56.17 -155.56 REMARK 500 PHE C 122 -1.66 76.72 REMARK 500 ARG C 238 54.40 -157.15 REMARK 500 PRO C 277 2.95 -65.62 REMARK 500 THR C 287 -49.10 -136.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH C2059 DISTANCE = 5.90 ANGSTROMS 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 999 REMARK 999 SEQUENCE REMARK 999 THE DIFFERENCE R71K (WHICH IS R180K IN THE NEW NUMBERING) IS REMARK 999 DUE TO A DIFFERENCE IN THE PFV-POL CDNA SEQUENCE THAT WAS USED REMARK 999 TO CLONE THE CATALYTIC CORE.R180K MUTATION IN CDNA DBREF 2X78 A 110 309 UNP P14350 POL_FOAMV 861 1060 DBREF 2X78 B 110 309 UNP P14350 POL_FOAMV 861 1060 DBREF 2X78 C 110 309 UNP P14350 POL_FOAMV 861 1060 SEQADV 2X78 ARG A 180 UNP P14350 LYS 931 SEE REMARK 999 SEQADV 2X78 ARG B 180 UNP P14350 LYS 931 SEE REMARK 999 SEQADV 2X78 ARG C 180 UNP P14350 LYS 931 SEE REMARK 999 SEQRES 1 A 200 GLY PRO ILE LEU ARG PRO ASP ARG PRO GLN LYS PRO PHE SEQRES 2 A 200 ASP LYS PHE PHE ILE ASP TYR ILE GLY PRO LEU PRO PRO SEQRES 3 A 200 SER GLN GLY TYR LEU TYR VAL LEU VAL VAL VAL ASP GLY SEQRES 4 A 200 MET THR GLY PHE THR TRP LEU TYR PRO THR LYS ALA PRO SEQRES 5 A 200 SER THR SER ALA THR VAL LYS SER LEU ASN VAL LEU THR SEQRES 6 A 200 SER ILE ALA ILE PRO ARG VAL ILE HIS SER ASP GLN GLY SEQRES 7 A 200 ALA ALA PHE THR SER SER THR PHE ALA GLU TRP ALA LYS SEQRES 8 A 200 GLU ARG GLY ILE HIS LEU GLU PHE SER THR PRO TYR HIS SEQRES 9 A 200 PRO GLN SER GLY SER LYS VAL GLU ARG LYS ASN SER ASP SEQRES 10 A 200 ILE LYS ARG LEU LEU THR LYS LEU LEU VAL GLY ARG PRO SEQRES 11 A 200 THR LYS TRP TYR ASP LEU LEU PRO VAL VAL GLN LEU ALA SEQRES 12 A 200 LEU ASN ASN THR TYR SER PRO VAL LEU LYS TYR THR PRO SEQRES 13 A 200 HIS GLN LEU LEU PHE GLY ILE ASP SER ASN THR PRO PHE SEQRES 14 A 200 ALA ASN GLN ASP THR LEU ASP LEU THR ARG GLU GLU GLU SEQRES 15 A 200 LEU SER LEU LEU GLN GLU ILE ARG THR SER LEU TYR HIS SEQRES 16 A 200 PRO SER THR PRO PRO SEQRES 1 B 200 GLY PRO ILE LEU ARG PRO ASP ARG PRO GLN LYS PRO PHE SEQRES 2 B 200 ASP LYS PHE PHE ILE ASP TYR ILE GLY PRO LEU PRO PRO SEQRES 3 B 200 SER GLN GLY TYR LEU TYR VAL LEU VAL VAL VAL ASP GLY SEQRES 4 B 200 MET THR GLY PHE THR TRP LEU TYR PRO THR LYS ALA PRO SEQRES 5 B 200 SER THR SER ALA THR VAL LYS SER LEU ASN VAL LEU THR SEQRES 6 B 200 SER ILE ALA ILE PRO ARG VAL ILE HIS SER ASP GLN GLY SEQRES 7 B 200 ALA ALA PHE THR SER SER THR PHE ALA GLU TRP ALA LYS SEQRES 8 B 200 GLU ARG GLY ILE HIS LEU GLU PHE SER THR PRO TYR HIS SEQRES 9 B 200 PRO GLN SER GLY SER LYS VAL GLU ARG LYS ASN SER ASP SEQRES 10 B 200 ILE LYS ARG LEU LEU THR LYS LEU LEU VAL GLY ARG PRO SEQRES 11 B 200 THR LYS TRP TYR ASP LEU LEU PRO VAL VAL GLN LEU ALA SEQRES 12 B 200 LEU ASN ASN THR TYR SER PRO VAL LEU LYS TYR THR PRO SEQRES 13 B 200 HIS GLN LEU LEU PHE GLY ILE ASP SER ASN THR PRO PHE SEQRES 14 B 200 ALA ASN GLN ASP THR LEU ASP LEU THR ARG GLU GLU GLU SEQRES 15 B 200 LEU SER LEU LEU GLN GLU ILE ARG THR SER LEU TYR HIS SEQRES 16 B 200 PRO SER THR PRO PRO SEQRES 1 C 200 GLY PRO ILE LEU ARG PRO ASP ARG PRO GLN LYS PRO PHE SEQRES 2 C 200 ASP LYS PHE PHE ILE ASP TYR ILE GLY PRO LEU PRO PRO SEQRES 3 C 200 SER GLN GLY TYR LEU TYR VAL LEU VAL VAL VAL ASP GLY SEQRES 4 C 200 MET THR GLY PHE THR TRP LEU TYR PRO THR LYS ALA PRO SEQRES 5 C 200 SER THR SER ALA THR VAL LYS SER LEU ASN VAL LEU THR SEQRES 6 C 200 SER ILE ALA ILE PRO ARG VAL ILE HIS SER ASP GLN GLY SEQRES 7 C 200 ALA ALA PHE THR SER SER THR PHE ALA GLU TRP ALA LYS SEQRES 8 C 200 GLU ARG GLY ILE HIS LEU GLU PHE SER THR PRO TYR HIS SEQRES 9 C 200 PRO GLN SER GLY SER LYS VAL GLU ARG LYS ASN SER ASP SEQRES 10 C 200 ILE LYS ARG LEU LEU THR LYS LEU LEU VAL GLY ARG PRO SEQRES 11 C 200 THR LYS TRP TYR ASP LEU LEU PRO VAL VAL GLN LEU ALA SEQRES 12 C 200 LEU ASN ASN THR TYR SER PRO VAL LEU LYS TYR THR PRO SEQRES 13 C 200 HIS GLN LEU LEU PHE GLY ILE ASP SER ASN THR PRO PHE SEQRES 14 C 200 ALA ASN GLN ASP THR LEU ASP LEU THR ARG GLU GLU GLU SEQRES 15 C 200 LEU SER LEU LEU GLN GLU ILE ARG THR SER LEU TYR HIS SEQRES 16 C 200 PRO SER THR PRO PRO FORMUL 4 HOH *362(H2 O) HELIX 1 1 SER A 162 THR A 174 1 13 HELIX 2 2 GLY A 187 SER A 192 1 6 HELIX 3 3 SER A 192 GLY A 203 1 12 HELIX 4 4 SER A 218 GLY A 237 1 20 HELIX 5 5 LEU A 245 ASN A 255 1 11 HELIX 6 6 THR A 264 GLY A 271 1 8 HELIX 7 7 ARG A 288 HIS A 304 1 17 HELIX 8 8 SER B 162 THR B 174 1 13 HELIX 9 9 SER B 192 GLY B 203 1 12 HELIX 10 10 LYS B 219 VAL B 236 1 18 HELIX 11 11 ARG B 238 THR B 240 5 3 HELIX 12 12 LYS B 241 ASN B 255 1 15 HELIX 13 13 THR B 264 GLY B 271 1 8 HELIX 14 14 ARG B 288 HIS B 304 1 17 HELIX 15 15 SER C 162 THR C 174 1 13 HELIX 16 16 GLY C 187 SER C 192 1 6 HELIX 17 17 SER C 192 GLY C 203 1 12 HELIX 18 18 SER C 218 LEU C 235 1 18 HELIX 19 19 ARG C 238 THR C 240 5 3 HELIX 20 20 LYS C 241 ASN C 255 1 15 HELIX 21 21 THR C 264 PHE C 270 1 7 HELIX 22 22 ARG C 288 HIS C 304 1 17 SHEET 1 AA 5 THR A 153 THR A 158 0 SHEET 2 AA 5 TYR A 141 ASP A 147 -1 O TYR A 141 N THR A 158 SHEET 3 AA 5 LYS A 124 ILE A 130 -1 O PHE A 126 N VAL A 146 SHEET 4 AA 5 VAL A 181 SER A 184 1 O VAL A 181 N PHE A 125 SHEET 5 AA 5 HIS A 205 PHE A 208 1 O HIS A 205 N ILE A 182 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 ILE B 130 -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 SHEET 1 CA 5 THR C 153 THR C 158 0 SHEET 2 CA 5 TYR C 141 ASP C 147 -1 O TYR C 141 N THR C 158 SHEET 3 CA 5 LYS C 124 ILE C 130 -1 O PHE C 126 N VAL C 146 SHEET 4 CA 5 VAL C 181 SER C 184 1 O VAL C 181 N PHE C 125 SHEET 5 CA 5 HIS C 205 PHE C 208 1 O HIS C 205 N ILE C 182 CISPEP 1 GLY A 131 PRO A 132 0 5.36 CISPEP 2 GLY B 131 PRO B 132 0 5.66 CISPEP 3 GLY C 131 PRO C 132 0 4.45 CRYST1 51.800 98.040 240.320 90.00 90.00 90.00 C 2 2 21 24 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 0.019305 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010200 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004161 0.00000