HEADER HYDROLASE/HYDROLASE INHIBITOR 23-FEB-15 4YE3 TITLE CRYSTAL STRUCTURE OF MULTIDRUG RESISTANT HIV-1 PROTEASE CLINICAL TITLE 2 ISOLATE PR20 WITH INHIBITOR GRL-4410A COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PR, RETROPEPSIN; COMPND 5 EC: 3.4.23.16; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 GROUP M SOURCE 3 SUBTYPE B; SOURCE 4 ORGANISM_COMMON: HIV-1; SOURCE 5 ORGANISM_TAXID: 11678; SOURCE 6 STRAIN: ISOLATE PR20; SOURCE 7 GENE: GAG-POL; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HIV-1 PROTEASE, DRUG RESISTANCE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.AGNISWAMY,I.T.WEBER REVDAT 5 27-SEP-23 4YE3 1 REMARK REVDAT 4 23-MAR-22 4YE3 1 LINK REVDAT 3 05-DEC-18 4YE3 1 COMPND SOURCE JRNL REMARK REVDAT 3 2 1 SEQADV SEQRES LINK SITE REVDAT 3 3 1 ATOM REVDAT 2 08-JUL-15 4YE3 1 JRNL REVDAT 1 10-JUN-15 4YE3 0 JRNL AUTH J.AGNISWAMY,J.M.LOUIS,C.H.SHEN,S.YASHCHUK,A.K.GHOSH, JRNL AUTH 2 I.T.WEBER JRNL TITL SUBSTITUTED BIS-THF PROTEASE INHIBITORS WITH IMPROVED JRNL TITL 2 POTENCY AGAINST HIGHLY RESISTANT MATURE HIV-1 PROTEASE PR20. JRNL REF J.MED.CHEM. V. 58 5088 2015 JRNL REFN ISSN 0022-2623 JRNL PMID 26010498 JRNL DOI 10.1021/ACS.JMEDCHEM.5B00474 REMARK 2 REMARK 2 RESOLUTION. 1.35 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) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 38558 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1928 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.39 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2468 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 134 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1518 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.06000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.09000 REMARK 3 B12 (A**2) : 0.03000 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): 0.075 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.066 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.147 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2013 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2787 ; 2.698 ; 2.020 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 275 ; 7.650 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;44.082 ;24.648 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 333 ;16.761 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;17.546 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 319 ; 0.165 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1548 ; 0.016 ; 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): 1217 ; 2.940 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2027 ; 4.342 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 796 ; 6.030 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 754 ; 8.477 ; 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): 2013 ; 3.195 ; 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4YE3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000207302. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL 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 : ROSENBAUM-ROCK DOUBLE-CRYSTAL REMARK 200 SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38558 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.40 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.47200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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 (%): 41.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2M SODIUM CHLORIDE, 0.1M SODIUM REMARK 280 ACETATE PH 5.5, 0.01M YITTRIUM CHLORIDE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.59167 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.18333 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 42.88750 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 71.47917 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 14.29583 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: 6060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -102.0 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 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 A 202 O HOH A 248 2.08 REMARK 500 O HOH B 319 O HOH B 342 2.14 REMARK 500 OE1 GLN B 18 O HOH B 309 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 OD1 ASP B 35 CL CL B 204 5554 2.15 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 A 14 CB LYS A 14 CG -0.191 REMARK 500 GLY A 49 N GLY A 49 CA -0.145 REMARK 500 VAL B 47 CB VAL B 47 CG2 -0.163 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 LYS A 14 CB - CG - CD ANGL. DEV. = -17.9 DEGREES REMARK 500 ASP A 35 CB - CG - OD1 ANGL. DEV. = -6.7 DEGREES REMARK 500 GLY A 49 N - CA - C ANGL. DEV. = -19.7 DEGREES REMARK 500 ASP B 29 CB - CG - OD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ASP B 88 CB - CG - OD1 ANGL. DEV. = 5.8 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 ILE A 50 -167.75 -60.85 REMARK 500 PRO A 79 48.79 -80.42 REMARK 500 PRO B 79 49.49 -82.19 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 Y1 A 101 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 34 OE1 REMARK 620 2 GLU A 34 OE2 29.0 REMARK 620 3 ASP A 35 OD1 67.0 95.2 REMARK 620 4 ASP A 35 OD2 80.7 92.2 52.1 REMARK 620 5 GLU A 58 OE2 52.8 50.1 77.6 44.9 REMARK 620 6 ASP A 60 OD1 59.3 59.4 73.0 35.6 9.5 REMARK 620 7 ASP A 60 OD2 55.6 57.0 71.1 36.8 8.3 3.8 REMARK 620 8 HOH A 201 O 60.7 36.7 113.1 80.3 38.1 45.8 46.1 REMARK 620 9 HOH A 217 O 95.1 114.6 65.7 114.0 139.2 137.6 134.9 150.6 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 Y1 A 102 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 34 OE2 REMARK 620 2 ASP A 35 OD2 80.8 REMARK 620 3 GLU A 58 OE2 59.9 58.2 REMARK 620 4 ASP A 60 OD1 67.7 51.6 9.6 REMARK 620 5 ASP A 60 OD2 64.1 50.4 8.3 4.0 REMARK 620 6 HOH A 217 O 81.7 77.4 123.5 122.7 119.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 Y1 B 202 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 34 OE1 REMARK 620 2 ASP B 35 OD1 95.3 REMARK 620 3 ASP B 35 OD2 93.0 54.3 REMARK 620 4 GLU B 58 OE2 48.8 77.4 46.0 REMARK 620 5 ASP B 60 OD1 55.8 71.1 38.0 8.2 REMARK 620 6 ASP B 60 OD2 58.3 72.9 36.4 9.7 3.7 REMARK 620 7 HOH B 332 O 48.5 71.5 44.8 6.5 7.9 11.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 Y1 B 203 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 34 OE1 REMARK 620 2 ASP B 35 OD2 85.1 REMARK 620 3 GLU B 58 OE2 59.0 57.9 REMARK 620 4 ASP B 60 OD1 63.6 50.0 8.3 REMARK 620 5 ASP B 60 OD2 67.2 50.7 9.8 3.9 REMARK 620 6 HOH B 332 O 55.8 53.7 6.4 7.9 11.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue Y1 A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue Y1 A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue G04 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue Y1 B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue Y1 B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 205 DBREF 4YE3 A 1 99 UNP P03366 POL_HV1B1 501 599 DBREF 4YE3 B 1 99 UNP P03366 POL_HV1B1 501 599 SEQADV 4YE3 LYS A 7 UNP P03366 GLN 507 ENGINEERED MUTATION SEQADV 4YE3 PHE A 10 UNP P03366 LEU 510 ENGINEERED MUTATION SEQADV 4YE3 VAL A 13 UNP P03366 ILE 513 ENGINEERED MUTATION SEQADV 4YE3 VAL A 15 UNP P03366 ILE 515 ENGINEERED MUTATION SEQADV 4YE3 ASN A 30 UNP P03366 ASP 530 ENGINEERED MUTATION SEQADV 4YE3 ILE A 32 UNP P03366 VAL 532 ENGINEERED MUTATION SEQADV 4YE3 PHE A 33 UNP P03366 LEU 533 ENGINEERED MUTATION SEQADV 4YE3 ASP A 35 UNP P03366 GLU 535 ENGINEERED MUTATION SEQADV 4YE3 ILE A 36 UNP P03366 MET 536 ENGINEERED MUTATION SEQADV 4YE3 ASN A 37 UNP P03366 SER 537 ENGINEERED MUTATION SEQADV 4YE3 VAL A 47 UNP P03366 ILE 547 ENGINEERED MUTATION SEQADV 4YE3 LEU A 54 UNP P03366 ILE 554 ENGINEERED MUTATION SEQADV 4YE3 GLU A 58 UNP P03366 GLN 558 ENGINEERED MUTATION SEQADV 4YE3 VAL A 62 UNP P03366 ILE 562 ENGINEERED MUTATION SEQADV 4YE3 PRO A 63 UNP P03366 LEU 563 ENGINEERED MUTATION SEQADV 4YE3 ALA A 67 UNP P03366 CYS 567 ENGINEERED MUTATION SEQADV 4YE3 VAL A 71 UNP P03366 ALA 571 ENGINEERED MUTATION SEQADV 4YE3 VAL A 84 UNP P03366 ILE 584 ENGINEERED MUTATION SEQADV 4YE3 ASP A 88 UNP P03366 ASN 588 ENGINEERED MUTATION SEQADV 4YE3 THR A 89 UNP P03366 LEU 589 ENGINEERED MUTATION SEQADV 4YE3 MET A 90 UNP P03366 LEU 590 ENGINEERED MUTATION SEQADV 4YE3 ALA A 95 UNP P03366 CYS 595 ENGINEERED MUTATION SEQADV 4YE3 LYS B 7 UNP P03366 GLN 507 ENGINEERED MUTATION SEQADV 4YE3 PHE B 10 UNP P03366 LEU 510 ENGINEERED MUTATION SEQADV 4YE3 VAL B 13 UNP P03366 ILE 513 ENGINEERED MUTATION SEQADV 4YE3 VAL B 15 UNP P03366 ILE 515 ENGINEERED MUTATION SEQADV 4YE3 ASN B 30 UNP P03366 ASP 530 ENGINEERED MUTATION SEQADV 4YE3 ILE B 32 UNP P03366 VAL 532 ENGINEERED MUTATION SEQADV 4YE3 PHE B 33 UNP P03366 LEU 533 ENGINEERED MUTATION SEQADV 4YE3 ASP B 35 UNP P03366 GLU 535 ENGINEERED MUTATION SEQADV 4YE3 ILE B 36 UNP P03366 MET 536 ENGINEERED MUTATION SEQADV 4YE3 ASN B 37 UNP P03366 SER 537 ENGINEERED MUTATION SEQADV 4YE3 VAL B 47 UNP P03366 ILE 547 ENGINEERED MUTATION SEQADV 4YE3 LEU B 54 UNP P03366 ILE 554 ENGINEERED MUTATION SEQADV 4YE3 GLU B 58 UNP P03366 GLN 558 ENGINEERED MUTATION SEQADV 4YE3 VAL B 62 UNP P03366 ILE 562 ENGINEERED MUTATION SEQADV 4YE3 PRO B 63 UNP P03366 LEU 563 ENGINEERED MUTATION SEQADV 4YE3 ALA B 67 UNP P03366 CYS 567 ENGINEERED MUTATION SEQADV 4YE3 VAL B 71 UNP P03366 ALA 571 ENGINEERED MUTATION SEQADV 4YE3 VAL B 84 UNP P03366 ILE 584 ENGINEERED MUTATION SEQADV 4YE3 ASP B 88 UNP P03366 ASN 588 ENGINEERED MUTATION SEQADV 4YE3 THR B 89 UNP P03366 LEU 589 ENGINEERED MUTATION SEQADV 4YE3 MET B 90 UNP P03366 LEU 590 ENGINEERED MUTATION SEQADV 4YE3 ALA B 95 UNP P03366 CYS 595 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 ASP 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 ASP 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 HET Y1 A 101 1 HET Y1 A 102 1 HET CL A 103 1 HET CL A 104 1 HET CL A 105 1 HET GOL A 106 6 HET GOL A 107 6 HET G04 B 201 82 HET Y1 B 202 1 HET Y1 B 203 1 HET CL B 204 1 HET CL B 205 1 HETNAM Y1 YTTRIUM ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM G04 (3R,3AS,4R,6AR)-4-METHOXYHEXAHYDROFURO[2,3-B]FURAN-3-YL HETNAM 2 G04 [(2S,3R)-3-HYDROXY-4-{[(4-METHOXYPHENYL)SULFONYL](2- HETNAM 3 G04 METHYLPROPYL)AMINO}-1-PHENYLBUTAN-2-YL]CARBAMATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 Y1 4(Y 2+) FORMUL 5 CL 5(CL 1-) FORMUL 8 GOL 2(C3 H8 O3) FORMUL 10 G04 C29 H40 N2 O9 S FORMUL 15 HOH *176(H2 O) HELIX 1 AA1 GLY A 86 THR A 91 1 6 HELIX 2 AA2 GLN A 92 GLY A 94 5 3 HELIX 3 AA3 GLY B 86 THR B 91 1 6 HELIX 4 AA4 GLN B 92 GLY B 94 5 3 SHEET 1 AA1 4 GLN A 2 ILE A 3 0 SHEET 2 AA1 4 THR B 96 ASN B 98 -1 O LEU B 97 N ILE A 3 SHEET 3 AA1 4 THR A 96 ASN A 98 -1 N THR A 96 O ASN B 98 SHEET 4 AA1 4 GLN B 2 ILE B 3 -1 O ILE B 3 N LEU A 97 SHEET 1 AA2 8 LYS A 43 GLY A 48 0 SHEET 2 AA2 8 PHE A 53 ILE A 66 -1 O GLU A 58 N LYS A 43 SHEET 3 AA2 8 HIS A 69 VAL A 77 -1 O GLY A 73 N VAL A 62 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 PHE A 53 ILE A 66 -1 O GLU A 65 N LYS A 14 SHEET 1 AA3 8 LYS B 43 GLY B 49 0 SHEET 2 AA3 8 GLY B 52 ILE B 66 -1 O GLY B 52 N GLY B 49 SHEET 3 AA3 8 HIS B 69 VAL B 77 -1 O VAL B 71 N ILE B 64 SHEET 4 AA3 8 ILE B 32 PHE B 33 1 N PHE B 33 O LEU B 76 SHEET 5 AA3 8 VAL B 84 ILE B 85 -1 O VAL B 84 N ILE B 32 SHEET 6 AA3 8 GLN B 18 LEU B 24 1 N LEU B 23 O ILE B 85 SHEET 7 AA3 8 PHE B 10 VAL B 15 -1 N VAL B 13 O LYS B 20 SHEET 8 AA3 8 GLY B 52 ILE B 66 -1 O GLU B 65 N LYS B 14 LINK OE1BGLU A 34 Y Y1 A 101 1555 1555 2.83 LINK OE2AGLU A 34 Y Y1 A 101 1555 1555 2.65 LINK OE2AGLU A 34 Y Y1 A 102 1555 1555 2.89 LINK OD1 ASP A 35 Y Y1 A 101 1555 1555 2.73 LINK OD2 ASP A 35 Y Y1 A 101 1555 1555 2.26 LINK OD2 ASP A 35 Y Y1 A 102 1555 1555 2.56 LINK OE2 GLU A 58 Y Y1 A 101 1555 5554 2.24 LINK OE2 GLU A 58 Y Y1 A 102 1555 5554 2.27 LINK OD1 ASP A 60 Y Y1 A 101 1555 5554 3.17 LINK OD2 ASP A 60 Y Y1 A 101 1555 5554 2.79 LINK OD1 ASP A 60 Y Y1 A 102 1555 5554 2.42 LINK OD2 ASP A 60 Y Y1 A 102 1555 5554 2.52 LINK Y Y1 A 101 O HOH A 201 1555 1555 2.36 LINK Y Y1 A 101 O HOH A 217 1555 1555 2.17 LINK Y Y1 A 102 O HOH A 217 1555 1555 3.30 LINK OE1 GLU B 34 Y Y1 B 202 1555 5554 2.59 LINK OE1 GLU B 34 Y Y1 B 203 1555 5554 2.76 LINK OD1 ASP B 35 Y Y1 B 202 1555 5554 2.57 LINK OD2 ASP B 35 Y Y1 B 202 1555 5554 2.32 LINK OD2 ASP B 35 Y Y1 B 203 1555 5554 2.50 LINK OE2 GLU B 58 Y Y1 B 202 1555 1555 2.19 LINK OE2 GLU B 58 Y Y1 B 203 1555 1555 2.27 LINK OD1 ASP B 60 Y Y1 B 202 1555 1555 2.81 LINK OD2 ASP B 60 Y Y1 B 202 1555 1555 3.24 LINK OD1 ASP B 60 Y Y1 B 203 1555 1555 2.58 LINK OD2 ASP B 60 Y Y1 B 203 1555 1555 2.55 LINK Y Y1 B 202 O HOH B 332 1555 1555 2.21 LINK Y Y1 B 203 O HOH B 332 1555 1555 3.26 SITE 1 AC1 9 GLU A 34 ASP A 35 GLU A 58 ASP A 60 SITE 2 AC1 9 Y1 A 102 CL A 103 CL A 104 HOH A 201 SITE 3 AC1 9 HOH A 217 SITE 1 AC2 8 GLU A 34 ASP A 35 GLU A 58 ASP A 60 SITE 2 AC2 8 Y1 A 101 CL A 103 CL A 104 HOH A 201 SITE 1 AC3 6 GLU A 34 ASP A 35 GLU A 58 Y1 A 101 SITE 2 AC3 6 Y1 A 102 HOH A 217 SITE 1 AC4 8 GLU A 34 ASP A 35 GLU A 58 ASP A 60 SITE 2 AC4 8 Y1 A 101 Y1 A 102 HOH A 201 HOH A 228 SITE 1 AC5 2 LYS A 7 ARG A 8 SITE 1 AC6 4 TRP A 6 HOH A 218 ARG B 87 ASP B 88 SITE 1 AC7 4 ARG A 87 ASP A 88 HOH A 229 TRP B 6 SITE 1 AC8 29 LEU A 23 ASP A 25 GLY A 27 ALA A 28 SITE 2 AC8 29 ASP A 29 ASN A 30 ILE A 32 VAL A 47 SITE 3 AC8 29 GLY A 48 GLY A 49 ILE A 50 VAL A 82 SITE 4 AC8 29 ASP B 25 GLY B 27 ALA B 28 ASP B 29 SITE 5 AC8 29 ASN B 30 ILE B 32 VAL B 47 GLY B 48 SITE 6 AC8 29 GLY B 49 ILE B 50 VAL B 82 HOH B 302 SITE 7 AC8 29 HOH B 303 HOH B 304 HOH B 306 HOH B 313 SITE 8 AC8 29 HOH B 316 SITE 1 AC9 8 GLU B 34 ASP B 35 GLU B 58 ASP B 60 SITE 2 AC9 8 Y1 B 203 CL B 204 CL B 205 HOH B 332 SITE 1 AD1 7 GLU B 34 ASP B 35 GLU B 58 ASP B 60 SITE 2 AD1 7 Y1 B 202 CL B 204 CL B 205 SITE 1 AD2 6 GLU B 34 ASP B 35 GLU B 58 Y1 B 202 SITE 2 AD2 6 Y1 B 203 HOH B 332 SITE 1 AD3 7 GLU B 34 ASP B 35 GLU B 58 ASP B 60 SITE 2 AD3 7 Y1 B 202 Y1 B 203 HOH B 334 CRYST1 60.349 60.349 85.775 90.00 90.00 120.00 P 61 12 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 0.016570 0.009567 0.000000 0.00000 SCALE2 0.000000 0.019134 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011658 0.00000