HEADER TRANSFERASE/TRANSFERASE INHIBITOR 20-MAR-12 3VQ4 TITLE FRAGMENTS BOUND TO HIV-1 INTEGRASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POL POLYPROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: INTEGRASE CATALYTIC CORE DOMAIN, UNP RESIDUES 770-927; 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 RNASEH, DNA BINDING, DNA CLEAVAGE, DNA INTEGRATION, TRANSFERASE- KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.WIELENS,D.K.CHALMERS,M.W.PARKER,M.J.SCANLON REVDAT 2 08-NOV-23 3VQ4 1 REMARK SEQADV LINK REVDAT 1 30-JAN-13 3VQ4 0 JRNL AUTH J.WIELENS,S.J.HEADEY,D.I.RHODES,R.J.MULDER,O.DOLEZAL, JRNL AUTH 2 J.J.DEADMAN,J.NEWMAN,D.K.CHALMERS,M.W.PARKER,T.S.PEAT, JRNL AUTH 3 M.J.SCANLON JRNL TITL PARALLEL SCREENING OF LOW MOLECULAR WEIGHT FRAGMENT JRNL TITL 2 LIBRARIES: DO DIFFERENCES IN METHODOLOGY AFFECT HIT JRNL TITL 3 IDENTIFICATION? JRNL REF J BIOMOL SCREEN V. 18 147 2013 JRNL REFN ISSN 1087-0571 JRNL PMID 23139382 JRNL DOI 10.1177/1087057112465979 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) : 49.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 23866 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1267 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) : 1732 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2175 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 83 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : 0.74000 REMARK 3 B33 (A**2) : -1.16000 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): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.904 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2261 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1488 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3056 ; 1.917 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3646 ; 1.124 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 280 ; 6.601 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;33.658 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 387 ;17.807 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;17.777 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 344 ; 0.255 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2491 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 431 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 470 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1432 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1040 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1101 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 105 ; 0.221 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.409 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 25 ; 0.241 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 50 ; 0.308 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.286 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.977 ; 0.200 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): 1819 ; 1.737 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 586 ; 0.351 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2245 ; 2.066 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1001 ; 3.000 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 811 ; 3.997 ; 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 : 1.20 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 3VQ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-MAR-12. REMARK 100 THE DEPOSITION ID IS D_1000095360. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-SEP-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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 REMARK 200 MONOCHROMATOR : CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25118 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 49.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : 0.11700 REMARK 200 FOR THE DATA SET : 13.5000 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 : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 3L3U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6M AMSO4, 0.1M NA CITRATE PH 5.6, REMARK 280 50MM CDCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K 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 30.30050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.04350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.16150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.04350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.30050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.16150 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: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 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 ASP A 55 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 208 REMARK 465 GLN A 209 REMARK 465 THR A 210 REMARK 465 LYS A 211 REMARK 465 GLU A 212 REMARK 465 ASP B 55 REMARK 465 SER B 56 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 GLY B 149 REMARK 465 VAL B 150 REMARK 465 ILE B 151 REMARK 465 GLN B 209 REMARK 465 THR B 210 REMARK 465 LYS B 211 REMARK 465 GLU B 212 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 OE1 GLU A 92 CD CD A 301 1.64 REMARK 500 O4 SO4 A 303 O HOH A 431 1.87 REMARK 500 OE1 GLU B 87 O HOH B 426 2.09 REMARK 500 OD1 ASP A 207 O HOH A 427 2.13 REMARK 500 NZ LYS B 136 OE2 GLU B 138 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 301 O HOH B 440 4555 1.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 THR B 124 CB THR B 124 OG1 -0.160 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 ARG B 199 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG B 199 NE - CZ - NH2 ANGL. DEV. = 4.2 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 SER A 57 152.68 -45.79 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 A 301 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 65 SG REMARK 620 2 HIS A 67 NE2 110.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 302 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 65 SG REMARK 620 2 GLU A 92 OE2 85.9 REMARK 620 3 ASP A 116 OD2 103.9 170.2 REMARK 620 4 HOH A 401 O 105.7 86.4 91.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B 301 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 65 SG REMARK 620 2 GLU B 92 OE2 90.9 REMARK 620 3 ASP B 116 OD2 104.3 161.4 REMARK 620 4 HOH B 430 O 165.2 81.2 86.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B 302 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 65 SG REMARK 620 2 HIS B 67 NE2 111.4 REMARK 620 3 GLU B 92 OE1 96.1 91.2 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0NX A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0NX A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0NX B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3L3U RELATED DB: PDB REMARK 900 RELATED ID: 3L3V RELATED DB: PDB REMARK 900 RELATED ID: 3OVN RELATED DB: PDB REMARK 900 RELATED ID: 3VQ5 RELATED DB: PDB REMARK 900 RELATED ID: 3VQ6 RELATED DB: PDB REMARK 900 RELATED ID: 3VQ7 RELATED DB: PDB REMARK 900 RELATED ID: 3VQ8 RELATED DB: PDB REMARK 900 RELATED ID: 3VQ9 RELATED DB: PDB REMARK 900 RELATED ID: 3VQA RELATED DB: PDB REMARK 900 RELATED ID: 3VQB RELATED DB: PDB REMARK 900 RELATED ID: 3VQC RELATED DB: PDB REMARK 900 RELATED ID: 3VQD RELATED DB: PDB REMARK 900 RELATED ID: 3VQE RELATED DB: PDB REMARK 900 RELATED ID: 3VQP RELATED DB: PDB REMARK 900 RELATED ID: 3VQQ RELATED DB: PDB DBREF 3VQ4 A 55 212 UNP Q72498 Q72498_9HIV1 770 927 DBREF 3VQ4 B 55 212 UNP Q72498 Q72498_9HIV1 770 927 SEQADV 3VQ4 SER A 56 UNP Q72498 CYS 771 ENGINEERED MUTATION SEQADV 3VQ4 ASP A 131 UNP Q72498 TRP 846 ENGINEERED MUTATION SEQADV 3VQ4 ASP A 139 UNP Q72498 PHE 854 ENGINEERED MUTATION SEQADV 3VQ4 HIS A 185 UNP Q72498 PHE 900 ENGINEERED MUTATION SEQADV 3VQ4 SER B 56 UNP Q72498 CYS 771 ENGINEERED MUTATION SEQADV 3VQ4 ASP B 131 UNP Q72498 TRP 846 ENGINEERED MUTATION SEQADV 3VQ4 ASP B 139 UNP Q72498 PHE 854 ENGINEERED MUTATION SEQADV 3VQ4 HIS B 185 UNP Q72498 PHE 900 ENGINEERED MUTATION SEQRES 1 A 158 ASP SER SER PRO GLY ILE TRP GLN LEU ASP CYS THR HIS SEQRES 2 A 158 LEU GLU GLY LYS VAL ILE LEU VAL ALA VAL HIS VAL ALA SEQRES 3 A 158 SER GLY TYR ILE GLU ALA GLU VAL ILE PRO ALA GLU THR SEQRES 4 A 158 GLY GLN GLU THR ALA TYR PHE LEU LEU LYS LEU ALA GLY SEQRES 5 A 158 ARG TRP PRO VAL LYS THR VAL HIS THR ASP ASN GLY SER SEQRES 6 A 158 ASN PHE THR SER THR THR VAL LYS ALA ALA CYS ASP TRP SEQRES 7 A 158 ALA GLY ILE LYS GLN GLU ASP GLY ILE PRO TYR ASN PRO SEQRES 8 A 158 GLN SER GLN GLY VAL ILE GLU SER MET ASN LYS GLU LEU SEQRES 9 A 158 LYS LYS ILE ILE GLY GLN VAL ARG ASP GLN ALA GLU HIS SEQRES 10 A 158 LEU LYS THR ALA VAL GLN MET ALA VAL PHE ILE HIS ASN SEQRES 11 A 158 HIS LYS ARG LYS GLY GLY ILE GLY GLY TYR SER ALA GLY SEQRES 12 A 158 GLU ARG ILE VAL ASP ILE ILE ALA THR ASP ILE GLN THR SEQRES 13 A 158 LYS GLU SEQRES 1 B 158 ASP SER SER PRO GLY ILE TRP GLN LEU ASP CYS THR HIS SEQRES 2 B 158 LEU GLU GLY LYS VAL ILE LEU VAL ALA VAL HIS VAL ALA SEQRES 3 B 158 SER GLY TYR ILE GLU ALA GLU VAL ILE PRO ALA GLU THR SEQRES 4 B 158 GLY GLN GLU THR ALA TYR PHE LEU LEU LYS LEU ALA GLY SEQRES 5 B 158 ARG TRP PRO VAL LYS THR VAL HIS THR ASP ASN GLY SER SEQRES 6 B 158 ASN PHE THR SER THR THR VAL LYS ALA ALA CYS ASP TRP SEQRES 7 B 158 ALA GLY ILE LYS GLN GLU ASP GLY ILE PRO TYR ASN PRO SEQRES 8 B 158 GLN SER GLN GLY VAL ILE GLU SER MET ASN LYS GLU LEU SEQRES 9 B 158 LYS LYS ILE ILE GLY GLN VAL ARG ASP GLN ALA GLU HIS SEQRES 10 B 158 LEU LYS THR ALA VAL GLN MET ALA VAL PHE ILE HIS ASN SEQRES 11 B 158 HIS LYS ARG LYS GLY GLY ILE GLY GLY TYR SER ALA GLY SEQRES 12 B 158 GLU ARG ILE VAL ASP ILE ILE ALA THR ASP ILE GLN THR SEQRES 13 B 158 LYS GLU HET CD A 301 1 HET CD A 302 1 HET SO4 A 303 5 HET 0NX A 304 13 HET 0NX A 305 13 HET CD B 301 1 HET CD B 302 1 HET 0NX B 303 13 HETNAM CD CADMIUM ION HETNAM SO4 SULFATE ION HETNAM 0NX (5-PHENYL-1,2-OXAZOL-3-YL)METHANOL FORMUL 3 CD 4(CD 2+) FORMUL 5 SO4 O4 S 2- FORMUL 6 0NX 3(C10 H9 N O2) FORMUL 11 HOH *83(H2 O) HELIX 1 1 THR A 93 TRP A 108 1 16 HELIX 2 2 GLY A 118 THR A 122 5 5 HELIX 3 3 SER A 123 GLY A 134 1 12 HELIX 4 4 GLU A 152 ARG A 166 1 15 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 ALA A 196 ALA A 205 1 10 HELIX 8 8 THR B 93 TRP B 108 1 16 HELIX 9 9 GLY B 118 SER B 123 1 6 HELIX 10 10 SER B 123 GLY B 134 1 12 HELIX 11 11 SER B 153 ASP B 167 1 15 HELIX 12 12 HIS B 171 LYS B 186 1 16 HELIX 13 13 SER B 195 ILE B 208 1 14 SHEET 1 A 5 ILE A 84 ILE A 89 0 SHEET 2 A 5 LYS A 71 HIS A 78 -1 N ALA A 76 O GLU A 85 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 TRP A 61 SHEET 5 A 5 LYS A 136 ASP A 139 1 O GLU A 138 N VAL A 113 SHEET 1 B 2 ARG A 187 LYS A 188 0 SHEET 2 B 2 TYR A 194 SER A 195 -1 O TYR A 194 N LYS A 188 SHEET 1 C 5 ILE B 84 ILE B 89 0 SHEET 2 C 5 LYS B 71 HIS B 78 -1 N ALA B 76 O GLU B 85 SHEET 3 C 5 ILE B 60 LEU B 68 -1 N LEU B 68 O LYS B 71 SHEET 4 C 5 THR B 112 HIS B 114 1 O HIS B 114 N LEU B 63 SHEET 5 C 5 LYS B 136 GLU B 138 1 O LYS B 136 N VAL B 113 LINK SG CYS A 65 CD CD A 301 1555 1555 2.48 LINK SG CYS A 65 CD CD A 302 1555 1555 2.56 LINK NE2 HIS A 67 CD CD A 301 1555 1555 2.46 LINK OE2 GLU A 92 CD CD A 302 1555 1555 2.45 LINK OD2 ASP A 116 CD CD A 302 1555 1555 2.46 LINK CD CD A 302 O HOH A 401 1555 1555 2.64 LINK SG CYS B 65 CD CD B 301 1555 1555 2.69 LINK SG CYS B 65 CD CD B 302 1555 1555 2.68 LINK NE2 HIS B 67 CD CD B 302 1555 1555 2.34 LINK OE2 GLU B 92 CD CD B 301 1555 1555 2.07 LINK OE1 GLU B 92 CD CD B 302 1555 1555 2.42 LINK OD2 ASP B 116 CD CD B 301 1555 1555 2.29 LINK CD CD B 301 O HOH B 430 1555 1555 2.61 SITE 1 AC1 6 CYS A 65 HIS A 67 GLU A 92 CD A 302 SITE 2 AC1 6 ASP B 131 HOH B 440 SITE 1 AC2 6 CYS A 65 GLU A 92 ASP A 116 CD A 301 SITE 2 AC2 6 HOH A 401 ASP B 131 SITE 1 AC3 9 GLU A 69 LYS A 71 ARG A 166 GLU A 170 SITE 2 AC3 9 HIS A 171 LEU A 172 ARG A 187 HOH A 406 SITE 3 AC3 9 HOH A 431 SITE 1 AC4 7 ARG A 107 ILE A 204 ALA A 205 THR A 206 SITE 2 AC4 7 GLY B 197 GLU B 198 ASP B 202 SITE 1 AC5 8 GLN A 95 ALA A 98 TYR A 99 LEU A 102 SITE 2 AC5 8 THR A 125 ALA A 128 TRP A 132 GLU B 170 SITE 1 AC6 6 CYS B 65 GLU B 92 ASP B 116 CD B 302 SITE 2 AC6 6 HOH B 407 HOH B 430 SITE 1 AC7 5 CYS B 65 HIS B 67 GLU B 92 CD B 301 SITE 2 AC7 5 HOH B 443 SITE 1 AC8 7 TYR A 83 GLY A 197 GLU A 198 GLY B 106 SITE 2 AC8 7 ARG B 107 ILE B 204 ILE B 208 CRYST1 60.601 62.323 82.087 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 0.016501 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016045 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012182 0.00000