HEADER HYDROLASE 02-APR-15 4Z50 TITLE CRYSTAL STRUCTURE OF MULTIDRUG RESISTANT HIV-1 PROTEASE CLINICAL TITLE 2 ISOLATE PR20D25N WITH TUCKED FLAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 GENE: POL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS HIV-1 PROTEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.AGNISWAMY,C.-H.SHEN,I.T.WEBER REVDAT 4 27-SEP-23 4Z50 1 LINK REVDAT 3 25-DEC-19 4Z50 1 REMARK REVDAT 2 27-SEP-17 4Z50 1 REMARK REVDAT 1 14-OCT-15 4Z50 0 JRNL AUTH C.H.SHEN,Y.C.CHANG,J.AGNISWAMY,R.W.HARRISON,I.T.WEBER JRNL TITL CONFORMATIONAL VARIATION OF AN EXTREME DRUG RESISTANT MUTANT JRNL TITL 2 OF HIV PROTEASE. JRNL REF J.MOL.GRAPH.MODEL. V. 62 87 2015 JRNL REFN ISSN 1093-3263 JRNL PMID 26397743 JRNL DOI 10.1016/J.JMGM.2015.09.006 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 55791 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) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 3070 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2609 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE SET COUNT : 155 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3036 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.081 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.073 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.175 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3235 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4427 ; 2.057 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 428 ; 6.514 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 126 ;37.133 ;24.683 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 560 ;12.260 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ; 6.208 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 516 ; 0.157 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2410 ; 0.013 ; 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): 2029 ; 2.739 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3329 ; 4.049 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1206 ; 5.769 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1083 ; 8.528 ; 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): 3235 ; 2.884 ; 3.000 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: NULL REMARK 4 REMARK 4 4Z50 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000208650. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8 REMARK 200 MONOCHROMATOR : SI 220 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59088 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 45.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.31600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3UCB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.9M SODIUM CHLORIDE AND 0.2 M SODIUM REMARK 280 ACETATE, PH 4.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 24.28450 REMARK 290 SMTRY3 2 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: 2750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 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: 3020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 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 O HOH D 349 O HOH D 390 2.00 REMARK 500 O HOH B 373 O HOH B 391 2.02 REMARK 500 O HOH D 380 O HOH D 390 2.02 REMARK 500 O HOH A 208 O HOH A 209 2.09 REMARK 500 OE1 GLN D 161 O HOH D 302 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 O HOH D 362 O HOH D 365 2556 2.05 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 LYS B 107 CB LYS B 107 CG -0.170 REMARK 500 LYS C 55 CE LYS C 55 NZ 0.183 REMARK 500 VAL C 82 CB VAL C 82 CG2 -0.170 REMARK 500 LYS D 155 CB LYS D 155 CG -0.239 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 A 41 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 88 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 88 CB - CG - OD2 ANGL. DEV. = -7.0 DEGREES REMARK 500 MET C 46 CG - SD - CE ANGL. DEV. = -9.8 DEGREES REMARK 500 ASP C 88 CB - CG - OD1 ANGL. DEV. = 7.9 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 ASP B 135 73.18 52.85 REMARK 500 PRO C 79 104.16 -50.51 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 NA B 205 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 119 O REMARK 620 2 HOH B 375 O 127.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 204 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 160 O REMARK 620 2 HOH B 305 O 96.0 REMARK 620 3 HOH B 306 O 92.4 73.7 REMARK 620 4 HOH B 349 O 175.9 82.9 91.2 REMARK 620 5 HOH B 363 O 87.8 152.3 78.8 94.9 REMARK 620 6 HOH B 386 O 92.4 103.0 174.4 83.9 104.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C 104 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 60 O REMARK 620 2 HOH C 218 O 99.1 REMARK 620 3 HOH C 243 O 167.3 93.5 REMARK 620 4 HOH C 255 O 85.4 86.6 94.1 REMARK 620 5 HOH C 265 O 90.9 80.7 92.4 166.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 203 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 160 O REMARK 620 2 HOH D 302 O 80.6 REMARK 620 3 HOH D 324 O 90.9 82.6 REMARK 620 4 HOH D 349 O 172.8 100.2 96.3 REMARK 620 5 HOH D 364 O 86.7 161.5 84.3 94.1 REMARK 620 6 HOH D 380 O 82.9 96.5 173.8 89.9 95.2 REMARK 620 7 HOH D 390 O 120.0 69.1 131.9 54.3 129.3 52.5 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA C 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA D 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Z4X RELATED DB: PDB DBREF 4Z50 A 1 99 UNP Q0PQ60 Q0PQ60_9HIV1 1 99 DBREF 4Z50 B 101 199 UNP Q0PQ60 Q0PQ60_9HIV1 1 99 DBREF 4Z50 C 1 99 UNP Q0PQ60 Q0PQ60_9HIV1 1 99 DBREF 4Z50 D 101 199 UNP Q0PQ60 Q0PQ60_9HIV1 1 99 SEQADV 4Z50 LYS A 7 UNP Q0PQ60 GLN 7 ENGINEERED MUTATION SEQADV 4Z50 ASN A 25 UNP Q0PQ60 ASP 25 ENGINEERED MUTATION SEQADV 4Z50 ILE A 32 UNP Q0PQ60 VAL 32 ENGINEERED MUTATION SEQADV 4Z50 ASN A 37 UNP Q0PQ60 GLU 37 ENGINEERED MUTATION SEQADV 4Z50 VAL A 47 UNP Q0PQ60 ILE 47 ENGINEERED MUTATION SEQADV 4Z50 LEU A 54 UNP Q0PQ60 VAL 54 ENGINEERED MUTATION SEQADV 4Z50 GLU A 58 UNP Q0PQ60 GLN 58 ENGINEERED MUTATION SEQADV 4Z50 ALA A 67 UNP Q0PQ60 CYS 67 ENGINEERED MUTATION SEQADV 4Z50 VAL A 71 UNP Q0PQ60 ALA 71 ENGINEERED MUTATION SEQADV 4Z50 THR A 89 UNP Q0PQ60 PHE 89 ENGINEERED MUTATION SEQADV 4Z50 ILE A 93 UNP Q0PQ60 LEU 93 ENGINEERED MUTATION SEQADV 4Z50 ALA A 95 UNP Q0PQ60 CYS 95 ENGINEERED MUTATION SEQADV 4Z50 LYS B 107 UNP Q0PQ60 GLN 7 ENGINEERED MUTATION SEQADV 4Z50 ASN B 125 UNP Q0PQ60 ASP 25 ENGINEERED MUTATION SEQADV 4Z50 ILE B 132 UNP Q0PQ60 VAL 32 ENGINEERED MUTATION SEQADV 4Z50 ASN B 137 UNP Q0PQ60 GLU 37 ENGINEERED MUTATION SEQADV 4Z50 VAL B 147 UNP Q0PQ60 ILE 47 ENGINEERED MUTATION SEQADV 4Z50 LEU B 154 UNP Q0PQ60 VAL 54 ENGINEERED MUTATION SEQADV 4Z50 GLU B 158 UNP Q0PQ60 GLN 58 ENGINEERED MUTATION SEQADV 4Z50 ALA B 167 UNP Q0PQ60 CYS 67 ENGINEERED MUTATION SEQADV 4Z50 VAL B 171 UNP Q0PQ60 ALA 71 ENGINEERED MUTATION SEQADV 4Z50 THR B 189 UNP Q0PQ60 PHE 89 ENGINEERED MUTATION SEQADV 4Z50 ILE B 193 UNP Q0PQ60 LEU 93 ENGINEERED MUTATION SEQADV 4Z50 ALA B 195 UNP Q0PQ60 CYS 95 ENGINEERED MUTATION SEQADV 4Z50 LYS C 7 UNP Q0PQ60 GLN 7 ENGINEERED MUTATION SEQADV 4Z50 ASN C 25 UNP Q0PQ60 ASP 25 ENGINEERED MUTATION SEQADV 4Z50 ILE C 32 UNP Q0PQ60 VAL 32 ENGINEERED MUTATION SEQADV 4Z50 ASN C 37 UNP Q0PQ60 GLU 37 ENGINEERED MUTATION SEQADV 4Z50 VAL C 47 UNP Q0PQ60 ILE 47 ENGINEERED MUTATION SEQADV 4Z50 LEU C 54 UNP Q0PQ60 VAL 54 ENGINEERED MUTATION SEQADV 4Z50 GLU C 58 UNP Q0PQ60 GLN 58 ENGINEERED MUTATION SEQADV 4Z50 ALA C 67 UNP Q0PQ60 CYS 67 ENGINEERED MUTATION SEQADV 4Z50 VAL C 71 UNP Q0PQ60 ALA 71 ENGINEERED MUTATION SEQADV 4Z50 THR C 89 UNP Q0PQ60 PHE 89 ENGINEERED MUTATION SEQADV 4Z50 ILE C 93 UNP Q0PQ60 LEU 93 ENGINEERED MUTATION SEQADV 4Z50 ALA C 95 UNP Q0PQ60 CYS 95 ENGINEERED MUTATION SEQADV 4Z50 LYS D 107 UNP Q0PQ60 GLN 7 ENGINEERED MUTATION SEQADV 4Z50 ASN D 125 UNP Q0PQ60 ASP 25 ENGINEERED MUTATION SEQADV 4Z50 ILE D 132 UNP Q0PQ60 VAL 32 ENGINEERED MUTATION SEQADV 4Z50 ASN D 137 UNP Q0PQ60 GLU 37 ENGINEERED MUTATION SEQADV 4Z50 VAL D 147 UNP Q0PQ60 ILE 47 ENGINEERED MUTATION SEQADV 4Z50 LEU D 154 UNP Q0PQ60 VAL 54 ENGINEERED MUTATION SEQADV 4Z50 GLU D 158 UNP Q0PQ60 GLN 58 ENGINEERED MUTATION SEQADV 4Z50 ALA D 167 UNP Q0PQ60 CYS 67 ENGINEERED MUTATION SEQADV 4Z50 VAL D 171 UNP Q0PQ60 ALA 71 ENGINEERED MUTATION SEQADV 4Z50 THR D 189 UNP Q0PQ60 PHE 89 ENGINEERED MUTATION SEQADV 4Z50 ILE D 193 UNP Q0PQ60 LEU 93 ENGINEERED MUTATION SEQADV 4Z50 ALA D 195 UNP Q0PQ60 CYS 95 ENGINEERED MUTATION SEQRES 1 A 99 PRO GLN ILE THR LEU TRP LYS ARG PRO PHE VAL THR VAL SEQRES 2 A 99 LYS VAL GLY GLY GLN LEU LYS GLU ALA LEU LEU ASN THR SEQRES 3 A 99 GLY ALA ASP ASN THR ILE PHE GLU ASP ILE ASN LEU PRO SEQRES 4 A 99 GLY ARG TRP LYS PRO LYS MET VAL GLY GLY ILE GLY GLY SEQRES 5 A 99 PHE LEU LYS VAL ARG GLU TYR ASP GLN VAL PRO ILE GLU SEQRES 6 A 99 ILE ALA GLY HIS LYS VAL ILE GLY THR VAL LEU VAL GLY SEQRES 7 A 99 PRO THR PRO VAL ASN VAL ILE GLY ARG ASP THR MET THR SEQRES 8 A 99 GLN ILE GLY ALA THR LEU ASN PHE SEQRES 1 B 99 PRO GLN ILE THR LEU TRP LYS ARG PRO PHE VAL THR VAL SEQRES 2 B 99 LYS VAL GLY GLY GLN LEU LYS GLU ALA LEU LEU ASN THR SEQRES 3 B 99 GLY ALA ASP ASN THR ILE PHE GLU ASP ILE ASN LEU PRO SEQRES 4 B 99 GLY ARG TRP LYS PRO LYS MET VAL GLY GLY ILE GLY GLY SEQRES 5 B 99 PHE LEU LYS VAL ARG GLU TYR ASP GLN VAL PRO ILE GLU SEQRES 6 B 99 ILE ALA GLY HIS LYS VAL ILE GLY THR VAL LEU VAL GLY SEQRES 7 B 99 PRO THR PRO VAL ASN VAL ILE GLY ARG ASP THR MET THR SEQRES 8 B 99 GLN ILE GLY ALA THR LEU ASN PHE SEQRES 1 C 99 PRO GLN ILE THR LEU TRP LYS ARG PRO PHE VAL THR VAL SEQRES 2 C 99 LYS VAL GLY GLY GLN LEU LYS GLU ALA LEU LEU ASN THR SEQRES 3 C 99 GLY ALA ASP ASN THR ILE PHE GLU ASP ILE ASN LEU PRO SEQRES 4 C 99 GLY ARG TRP LYS PRO LYS MET VAL GLY GLY ILE GLY GLY SEQRES 5 C 99 PHE LEU LYS VAL ARG GLU TYR ASP GLN VAL PRO ILE GLU SEQRES 6 C 99 ILE ALA GLY HIS LYS VAL ILE GLY THR VAL LEU VAL GLY SEQRES 7 C 99 PRO THR PRO VAL ASN VAL ILE GLY ARG ASP THR MET THR SEQRES 8 C 99 GLN ILE GLY ALA THR LEU ASN PHE SEQRES 1 D 99 PRO GLN ILE THR LEU TRP LYS ARG PRO PHE VAL THR VAL SEQRES 2 D 99 LYS VAL GLY GLY GLN LEU LYS GLU ALA LEU LEU ASN THR SEQRES 3 D 99 GLY ALA ASP ASN THR ILE PHE GLU ASP ILE ASN LEU PRO SEQRES 4 D 99 GLY ARG TRP LYS PRO LYS MET VAL GLY GLY ILE GLY GLY SEQRES 5 D 99 PHE LEU LYS VAL ARG GLU TYR ASP GLN VAL PRO ILE GLU SEQRES 6 D 99 ILE ALA GLY HIS LYS VAL ILE GLY THR VAL LEU VAL GLY SEQRES 7 D 99 PRO THR PRO VAL ASN VAL ILE GLY ARG ASP THR MET THR SEQRES 8 D 99 GLN ILE GLY ALA THR LEU ASN PHE HET CL A 101 1 HET CL B 201 1 HET CL B 202 1 HET CL B 203 1 HET NA B 204 1 HET NA B 205 1 HET GOL B 206 6 HET CL C 101 1 HET CL C 102 1 HET CL C 103 1 HET NA C 104 1 HET CL D 201 1 HET CL D 202 1 HET NA D 203 1 HET GOL D 204 6 HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 CL 9(CL 1-) FORMUL 9 NA 4(NA 1+) FORMUL 11 GOL 2(C3 H8 O3) FORMUL 20 HOH *400(H2 O) HELIX 1 AA1 GLY A 86 ILE A 93 1 8 HELIX 2 AA2 GLY B 186 ILE B 193 1 8 HELIX 3 AA3 GLY C 86 ILE C 93 1 8 HELIX 4 AA4 GLY D 186 GLY D 194 1 9 SHEET 1 AA1 4 GLN A 2 ILE A 3 0 SHEET 2 AA1 4 THR B 196 ASN B 198 -1 O LEU B 197 N ILE A 3 SHEET 3 AA1 4 THR A 96 ASN A 98 -1 N THR A 96 O ASN B 198 SHEET 4 AA1 4 GLN B 102 ILE B 103 -1 O ILE B 103 N LEU A 97 SHEET 1 AA2 8 LYS A 43 GLY A 49 0 SHEET 2 AA2 8 GLY A 52 ILE A 66 -1 O VAL A 56 N LYS A 45 SHEET 3 AA2 8 HIS A 69 VAL A 77 -1 O VAL A 71 N ILE A 64 SHEET 4 AA2 8 ILE A 32 PHE A 33 1 N PHE A 33 O LEU A 76 SHEET 5 AA2 8 VAL A 84 ILE A 85 -1 O VAL A 84 N ILE A 32 SHEET 6 AA2 8 GLN A 18 LEU A 24 1 N LEU A 23 O ILE A 85 SHEET 7 AA2 8 PHE A 10 VAL A 15 -1 N VAL A 13 O LYS A 20 SHEET 8 AA2 8 GLY A 52 ILE A 66 -1 O GLU A 65 N LYS A 14 SHEET 1 AA3 8 TRP B 142 GLY B 149 0 SHEET 2 AA3 8 GLY B 152 ILE B 166 -1 O LEU B 154 N VAL B 147 SHEET 3 AA3 8 HIS B 169 VAL B 177 -1 O GLY B 173 N VAL B 162 SHEET 4 AA3 8 ILE B 132 PHE B 133 1 N PHE B 133 O LEU B 176 SHEET 5 AA3 8 VAL B 184 ILE B 185 -1 O VAL B 184 N ILE B 132 SHEET 6 AA3 8 GLN B 118 LEU B 124 1 N LEU B 123 O ILE B 185 SHEET 7 AA3 8 PHE B 110 VAL B 115 -1 N VAL B 113 O LYS B 120 SHEET 8 AA3 8 GLY B 152 ILE B 166 -1 O GLU B 165 N LYS B 114 SHEET 1 AA4 4 GLN C 2 ILE C 3 0 SHEET 2 AA4 4 THR D 196 ASN D 198 -1 O LEU D 197 N ILE C 3 SHEET 3 AA4 4 THR C 96 ASN C 98 -1 N ASN C 98 O THR D 196 SHEET 4 AA4 4 GLN D 102 ILE D 103 -1 O ILE D 103 N LEU C 97 SHEET 1 AA5 8 LYS C 43 VAL C 47 0 SHEET 2 AA5 8 LEU C 54 ILE C 66 -1 O GLU C 58 N LYS C 43 SHEET 3 AA5 8 HIS C 69 VAL C 77 -1 O VAL C 71 N ILE C 64 SHEET 4 AA5 8 ILE C 32 PHE C 33 1 N PHE C 33 O LEU C 76 SHEET 5 AA5 8 VAL C 84 ILE C 85 -1 O VAL C 84 N ILE C 32 SHEET 6 AA5 8 GLN C 18 LEU C 24 1 N LEU C 23 O ILE C 85 SHEET 7 AA5 8 PHE C 10 VAL C 15 -1 N VAL C 13 O LYS C 20 SHEET 8 AA5 8 LEU C 54 ILE C 66 -1 O GLU C 65 N LYS C 14 SHEET 1 AA6 8 LYS D 143 GLY D 149 0 SHEET 2 AA6 8 GLY D 152 ILE D 166 -1 O LEU D 154 N VAL D 147 SHEET 3 AA6 8 HIS D 169 VAL D 177 -1 O GLY D 173 N VAL D 162 SHEET 4 AA6 8 ILE D 132 PHE D 133 1 N PHE D 133 O LEU D 176 SHEET 5 AA6 8 VAL D 184 ILE D 185 -1 O VAL D 184 N ILE D 132 SHEET 6 AA6 8 GLN D 118 LEU D 124 1 N LEU D 123 O ILE D 185 SHEET 7 AA6 8 PHE D 110 VAL D 115 -1 N VAL D 113 O LYS D 120 SHEET 8 AA6 8 GLY D 152 ILE D 166 -1 O GLU D 165 N LYS D 114 LINK O LEU B 119 NA NA B 205 1555 1555 2.65 LINK O ASP B 160 NA NA B 204 1555 1555 2.44 LINK NA NA B 204 O HOH B 305 1555 1555 2.29 LINK NA NA B 204 O HOH B 306 1555 1555 2.58 LINK NA NA B 204 O HOH B 349 1555 1555 2.47 LINK NA NA B 204 O HOH B 363 1555 1555 2.16 LINK NA NA B 204 O HOH B 386 1555 1555 2.22 LINK NA NA B 205 O HOH B 375 1555 2655 2.57 LINK O ASP C 60 NA NA C 104 1555 1555 2.43 LINK NA NA C 104 O HOH C 218 1555 1555 2.35 LINK NA NA C 104 O HOH C 243 1555 1555 2.60 LINK NA NA C 104 O HOH C 255 1555 1555 2.07 LINK NA NA C 104 O HOH C 265 1555 1555 2.58 LINK O ASP D 160 NA NA D 203 1555 1555 2.47 LINK NA NA D 203 O HOH D 302 1555 1555 2.32 LINK NA NA D 203 O HOH D 324 1555 1555 2.66 LINK NA NA D 203 O HOH D 349 1555 1555 2.37 LINK NA NA D 203 O HOH D 364 1555 1555 2.09 LINK NA NA D 203 O HOH D 380 1555 1555 2.49 LINK NA NA D 203 O HOH D 390 1555 1555 1.93 SITE 1 AC1 1 GLU A 21 SITE 1 AC2 2 LYS B 155 TRP D 106 SITE 1 AC3 2 GLU B 121 HOH B 378 SITE 1 AC4 2 LYS B 107 ARG B 108 SITE 1 AC5 6 ASP B 160 HOH B 305 HOH B 306 HOH B 349 SITE 2 AC5 6 HOH B 363 HOH B 386 SITE 1 AC6 1 LEU B 119 SITE 1 AC7 4 THR B 112 GLU B 165 ALA B 167 GLY B 168 SITE 1 AC8 3 LYS C 7 ARG C 8 HOH C 227 SITE 1 AC9 1 GLU C 21 SITE 1 AD1 1 ARG C 8 SITE 1 AD2 5 ASP C 60 HOH C 218 HOH C 243 HOH C 255 SITE 2 AD2 5 HOH C 265 SITE 1 AD3 1 GLU D 121 SITE 1 AD4 3 LYS D 107 ARG D 108 HOH D 366 SITE 1 AD5 7 ASP D 160 HOH D 302 HOH D 324 HOH D 349 SITE 2 AD5 7 HOH D 364 HOH D 380 HOH D 390 SITE 1 AD6 6 HOH A 270 HIS D 169 GLN D 192 ILE D 193 SITE 2 AD6 6 HOH D 308 HOH D 326 CRYST1 54.148 48.569 69.680 90.00 99.15 90.00 P 1 21 1 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 0.018468 0.000000 0.002974 0.00000 SCALE2 0.000000 0.020589 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014536 0.00000