HEADER VIRAL PROTEIN/TRANSFERASE INHIBITOR 17-SEP-10 3AO1 TITLE FRAGMENT-BASED APPROACH TO THE DESIGN OF LIGANDS TARGETING A NOVEL TITLE 2 SITE IN HIV-1 INTEGRASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POL POLYPROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: INTEGRASE CATALYTIC CORE DOMAIN, 765-927; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 STRAIN: NL43; SOURCE 5 GENE: POL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET23B+ KEYWDS DNA INTEGRATION, AIDS, INTEGRASE, ENDONUCLEASE, POLYNUCLEOTIDYL KEYWDS 2 TRANSFERASE, DNA BINDING, VIRAL PROTEIN, RNASEH, FRAGMENT BINDING, KEYWDS 3 VIRAL PROTEIN-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.WIELENS,M.W.PARKER,D.K.CHALMERS,M.J.SCANLON REVDAT 2 01-NOV-23 3AO1 1 REMARK SEQADV LINK REVDAT 1 09-MAR-11 3AO1 0 JRNL AUTH J.WIELENS,S.J.HEADEY,J.J.DEADMAN,D.I.RHODES,M.W.PARKER, JRNL AUTH 2 D.K.CHALMERS,M.J.SCANLON JRNL TITL FRAGMENT-BASED DESIGN OF LIGANDS TARGETING A NOVEL SITE ON JRNL TITL 2 THE INTEGRASE ENZYME OF HUMAN IMMUNODEFICIENCY VIRUS 1 JRNL REF CHEMMEDCHEM V. 6 258 2011 JRNL REFN ISSN 1860-7179 JRNL PMID 21275048 JRNL DOI 10.1002/CMDC.201000483 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 23602 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1234 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1706 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.3440 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.3980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2159 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 72 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.33000 REMARK 3 B22 (A**2) : 2.64000 REMARK 3 B33 (A**2) : -2.31000 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): 0.165 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.161 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2235 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3024 ; 1.374 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 279 ; 4.863 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;33.015 ;24.831 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 382 ;14.597 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;12.575 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 343 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1637 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 421 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 462 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1457 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1071 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1107 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 116 ; 0.181 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.004 ; 0.200 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 5 ; 0.254 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 15 ; 0.114 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 46 ; 0.249 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.386 ; 0.200 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): 1390 ; 2.152 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 585 ; 0.184 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2232 ; 3.119 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 845 ; 3.050 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 792 ; 4.325 ; 4.500 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 REMARK 4 REMARK 4 3AO1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000029485. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97937 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : DOUBLE CRYSTAL MONOCHROMATOR AND REMARK 200 K-B PAIR OF BIOMORPH MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24930 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 62.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.09300 REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : 0.52000 REMARK 200 FOR SHELL : 3.200 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: PDB ENTRY 3L3U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6M AMSO4, 0.1M NA CITRATE PH 5.6, REMARK 280 5MM CDCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 30.29350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.88250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.99850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.88250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.29350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.99850 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 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 MET A 50 REMARK 465 HIS A 51 REMARK 465 GLY A 52 REMARK 465 GLN A 53 REMARK 465 VAL A 54 REMARK 465 ASP A 55 REMARK 465 SER A 56 REMARK 465 TYR A 143 REMARK 465 ASN A 144 REMARK 465 PRO A 145 REMARK 465 GLN A 146 REMARK 465 SER A 147 REMARK 465 GLN A 148 REMARK 465 GLY A 149 REMARK 465 VAL A 150 REMARK 465 ILE A 151 REMARK 465 GLU A 152 REMARK 465 ILE A 208 REMARK 465 GLN A 209 REMARK 465 THR A 210 REMARK 465 LYS A 211 REMARK 465 GLU A 212 REMARK 465 MET B 50 REMARK 465 HIS B 51 REMARK 465 GLY B 52 REMARK 465 GLN B 53 REMARK 465 VAL B 54 REMARK 465 ASP B 55 REMARK 465 SER B 56 REMARK 465 ASP B 139 REMARK 465 GLY B 140 REMARK 465 ILE B 141 REMARK 465 PRO B 142 REMARK 465 TYR B 143 REMARK 465 ASN B 144 REMARK 465 PRO B 145 REMARK 465 GLN B 146 REMARK 465 SER B 147 REMARK 465 GLN B 148 REMARK 465 GLN B 209 REMARK 465 THR B 210 REMARK 465 LYS B 211 REMARK 465 GLU B 212 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 GLN A 95 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD CD A 1003 O HOH B 223 4455 1.95 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 CD A1004 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 30 O REMARK 620 2 CYS A 65 SG 164.8 REMARK 620 3 GLU A 92 OE1 77.9 90.4 REMARK 620 4 ASP A 116 OD2 87.2 105.2 163.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1003 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 65 SG REMARK 620 2 HIS A 67 NE2 113.6 REMARK 620 3 GLU A 92 OE2 115.1 88.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B1001 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 3 O REMARK 620 2 CYS B 65 SG 166.3 REMARK 620 3 GLU B 92 OE2 84.3 91.6 REMARK 620 4 ASP B 116 OD2 82.0 101.8 166.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B1002 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 65 SG REMARK 620 2 HIS B 67 NE2 114.4 REMARK 620 3 GLU B 92 OE1 99.5 89.4 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 CD A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BZX A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BZX A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BZX B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3L3U RELATED DB: PDB REMARK 900 HIV-1 INTEGRASE CORE DOMAIN REMARK 900 RELATED ID: 3OVN RELATED DB: PDB REMARK 900 RELATED ID: 3AO2 RELATED DB: PDB REMARK 900 RELATED ID: 3AO3 RELATED DB: PDB REMARK 900 RELATED ID: 3AO4 RELATED DB: PDB REMARK 900 RELATED ID: 3AO5 RELATED DB: PDB DBREF 3AO1 A 50 212 UNP Q72498 Q72498_9HIV1 765 927 DBREF 3AO1 B 50 212 UNP Q72498 Q72498_9HIV1 765 927 SEQADV 3AO1 SER A 56 UNP Q72498 CYS 771 ENGINEERED MUTATION SEQADV 3AO1 ASP A 131 UNP Q72498 TRP 846 ENGINEERED MUTATION SEQADV 3AO1 ASP A 139 UNP Q72498 PHE 854 ENGINEERED MUTATION SEQADV 3AO1 HIS A 185 UNP Q72498 PHE 900 ENGINEERED MUTATION SEQADV 3AO1 SER B 56 UNP Q72498 CYS 771 ENGINEERED MUTATION SEQADV 3AO1 ASP B 131 UNP Q72498 TRP 846 ENGINEERED MUTATION SEQADV 3AO1 ASP B 139 UNP Q72498 PHE 854 ENGINEERED MUTATION SEQADV 3AO1 HIS B 185 UNP Q72498 PHE 900 ENGINEERED MUTATION SEQRES 1 A 163 MET HIS GLY GLN VAL ASP SER SER PRO GLY ILE TRP GLN SEQRES 2 A 163 LEU ASP CYS THR HIS LEU GLU GLY LYS VAL ILE LEU VAL SEQRES 3 A 163 ALA VAL HIS VAL ALA SER GLY TYR ILE GLU ALA GLU VAL SEQRES 4 A 163 ILE PRO ALA GLU THR GLY GLN GLU THR ALA TYR PHE LEU SEQRES 5 A 163 LEU LYS LEU ALA GLY ARG TRP PRO VAL LYS THR VAL HIS SEQRES 6 A 163 THR ASP ASN GLY SER ASN PHE THR SER THR THR VAL LYS SEQRES 7 A 163 ALA ALA CYS ASP TRP ALA GLY ILE LYS GLN GLU ASP GLY SEQRES 8 A 163 ILE PRO TYR ASN PRO GLN SER GLN GLY VAL ILE GLU SER SEQRES 9 A 163 MET ASN LYS GLU LEU LYS LYS ILE ILE GLY GLN VAL ARG SEQRES 10 A 163 ASP GLN ALA GLU HIS LEU LYS THR ALA VAL GLN MET ALA SEQRES 11 A 163 VAL PHE ILE HIS ASN HIS LYS ARG LYS GLY GLY ILE GLY SEQRES 12 A 163 GLY TYR SER ALA GLY GLU ARG ILE VAL ASP ILE ILE ALA SEQRES 13 A 163 THR ASP ILE GLN THR LYS GLU SEQRES 1 B 163 MET HIS GLY GLN VAL ASP SER SER PRO GLY ILE TRP GLN SEQRES 2 B 163 LEU ASP CYS THR HIS LEU GLU GLY LYS VAL ILE LEU VAL SEQRES 3 B 163 ALA VAL HIS VAL ALA SER GLY TYR ILE GLU ALA GLU VAL SEQRES 4 B 163 ILE PRO ALA GLU THR GLY GLN GLU THR ALA TYR PHE LEU SEQRES 5 B 163 LEU LYS LEU ALA GLY ARG TRP PRO VAL LYS THR VAL HIS SEQRES 6 B 163 THR ASP ASN GLY SER ASN PHE THR SER THR THR VAL LYS SEQRES 7 B 163 ALA ALA CYS ASP TRP ALA GLY ILE LYS GLN GLU ASP GLY SEQRES 8 B 163 ILE PRO TYR ASN PRO GLN SER GLN GLY VAL ILE GLU SER SEQRES 9 B 163 MET ASN LYS GLU LEU LYS LYS ILE ILE GLY GLN VAL ARG SEQRES 10 B 163 ASP GLN ALA GLU HIS LEU LYS THR ALA VAL GLN MET ALA SEQRES 11 B 163 VAL PHE ILE HIS ASN HIS LYS ARG LYS GLY GLY ILE GLY SEQRES 12 B 163 GLY TYR SER ALA GLY GLU ARG ILE VAL ASP ILE ILE ALA SEQRES 13 B 163 THR ASP ILE GLN THR LYS GLU HET CD A1003 1 HET CD A1004 1 HET SO4 A 1 5 HET BZX A 213 10 HET BZX A 214 10 HET CD B1001 1 HET CD B1002 1 HET BZX B 1 10 HETNAM CD CADMIUM ION HETNAM SO4 SULFATE ION HETNAM BZX 1,3-BENZODIOXOL-5-OL FORMUL 3 CD 4(CD 2+) FORMUL 5 SO4 O4 S 2- FORMUL 6 BZX 3(C7 H6 O3) FORMUL 11 HOH *72(H2 O) HELIX 1 1 THR A 93 TRP A 108 1 16 HELIX 2 2 GLY A 118 SER A 123 1 6 HELIX 3 3 SER A 123 GLY A 134 1 12 HELIX 4 4 SER A 153 ARG A 166 1 14 HELIX 5 5 ASP A 167 ALA A 169 5 3 HELIX 6 6 HIS A 171 LYS A 186 1 16 HELIX 7 7 SER A 195 ALA A 205 1 11 HELIX 8 8 THR B 93 TRP B 108 1 16 HELIX 9 9 GLY B 118 THR B 122 5 5 HELIX 10 10 SER B 123 GLY B 134 1 12 HELIX 11 11 VAL B 150 ARG B 166 1 17 HELIX 12 12 ASP B 167 ALA B 169 5 3 HELIX 13 13 HIS B 171 LYS B 186 1 16 HELIX 14 14 ALA B 196 ILE B 208 1 13 SHEET 1 A 5 ILE A 84 ILE A 89 0 SHEET 2 A 5 LYS A 71 HIS A 78 -1 N VAL A 72 O ILE A 89 SHEET 3 A 5 ILE A 60 LEU A 68 -1 N THR A 66 O ILE A 73 SHEET 4 A 5 THR A 112 THR A 115 1 O HIS A 114 N LEU A 63 SHEET 5 A 5 LYS A 136 ASP A 139 1 O GLU A 138 N VAL A 113 SHEET 1 B 5 ILE B 84 ILE B 89 0 SHEET 2 B 5 LYS B 71 HIS B 78 -1 N ALA B 76 O GLU B 85 SHEET 3 B 5 ILE B 60 LEU B 68 -1 N ASP B 64 O VAL B 75 SHEET 4 B 5 THR B 112 HIS B 114 1 O HIS B 114 N LEU B 63 SHEET 5 B 5 LYS B 136 GLU B 138 1 O LYS B 136 N VAL B 113 SHEET 1 C 2 ARG B 187 LYS B 188 0 SHEET 2 C 2 TYR B 194 SER B 195 -1 O TYR B 194 N LYS B 188 LINK O HOH A 30 CD CD A1004 1555 1555 2.46 LINK SG CYS A 65 CD CD A1003 1555 1555 2.56 LINK SG CYS A 65 CD CD A1004 1555 1555 2.62 LINK NE2 HIS A 67 CD CD A1003 1555 1555 2.41 LINK OE2 GLU A 92 CD CD A1003 1555 1555 1.93 LINK OE1 GLU A 92 CD CD A1004 1555 1555 2.38 LINK OD2 ASP A 116 CD CD A1004 1555 1555 2.37 LINK O HOH B 3 CD CD B1001 1555 1555 2.65 LINK SG CYS B 65 CD CD B1001 1555 1555 2.69 LINK SG CYS B 65 CD CD B1002 1555 1555 2.59 LINK NE2 HIS B 67 CD CD B1002 1555 1555 2.22 LINK OE2 GLU B 92 CD CD B1001 1555 1555 2.01 LINK OE1 GLU B 92 CD CD B1002 1555 1555 2.28 LINK OD2 ASP B 116 CD CD B1001 1555 1555 2.24 SITE 1 AC1 6 CYS A 65 HIS A 67 GLU A 92 CD A1004 SITE 2 AC1 6 ASP B 131 HOH B 223 SITE 1 AC2 7 HOH A 4 HOH A 30 CYS A 65 GLU A 92 SITE 2 AC2 7 ASP A 116 CD A1003 ASP B 131 SITE 1 AC3 9 HOH A 11 GLU A 69 LYS A 71 ARG A 166 SITE 2 AC3 9 GLU A 170 HIS A 171 LEU A 172 ARG A 187 SITE 3 AC3 9 HOH A 221 SITE 1 AC4 9 HOH A 31 TYR A 83 ASN A 184 HIS A 185 SITE 2 AC4 9 GLY A 197 VAL A 201 GLY B 106 ARG B 107 SITE 3 AC4 9 PRO B 109 SITE 1 AC5 4 HOH A 9 GLY A 70 HIS A 185 PRO B 109 SITE 1 AC6 6 HOH B 3 CYS B 65 GLU B 92 ASP B 116 SITE 2 AC6 6 HOH B 213 CD B1002 SITE 1 AC7 5 CYS B 65 HIS B 67 GLU B 92 HOH B 224 SITE 2 AC7 5 CD B1001 SITE 1 AC8 12 GLY A 106 ARG A 107 TRP A 108 PRO A 109 SITE 2 AC8 12 HOH B 22 HOH B 36 TYR B 83 ASN B 184 SITE 3 AC8 12 HIS B 185 GLY B 197 GLU B 198 HOH B 225 CRYST1 60.587 61.997 81.765 90.00 90.00 90.00 P 21 21 21 8 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 0.016505 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016130 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012230 0.00000