PDB Short entry for 3BGR HEADER TRANSFERASE, HYDROLASE 27-NOV-07 3BGR TITLE CRYSTAL STRUCTURE OF K103N/Y181C MUTANT HIV-1 REVERSE TRANSCRIPTASE TITLE 2 (RT) IN COMPLEX WITH TMC278 (RILPIVIRINE), A NON-NUCLEOSIDE RT TITLE 3 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: REVERSE TRANSCRIPTASE/RIBONUCLEASE H; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: P66; COMPND 5 SYNONYM: REVERSE TRANSCRIPTASE P66 SUBUNIT; COMPND 6 EC: 2.7.7.49, 2.7.7.7, 3.1.26.4; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: P51 RT; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: P51; COMPND 13 SYNONYM: REVERSE TRANSCRIPTASE P51 SUBUNIT; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 GENE: GAG-POL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BH10 ISOLATE; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PRT52A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 12 ORGANISM_TAXID: 11676; SOURCE 13 GENE: GAG-POL; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BH10 ISOLATE; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PRT52A KEYWDS P51/P66, HETERO DIMER, NNRTI, NONNUCLEOSIDE INHIBITOR, AIDS, HIV, KEYWDS 2 R278474, RILPIVIRINE, DIARYLPYRIMIDINE, DAPY, DNA RECOMBINATION, KEYWDS 3 RNA-DIRECTED DNA POLYMERASE, DNA POLYMERASE, ENDONUCLEASE, KEYWDS 4 HYDROLASE, MULTIFUNCTIONAL ENZYME, TRANSFERASE, K103N, Y181C EXPDTA X-RAY DIFFRACTION AUTHOR K.DAS,J.D.BAUMAN,A.D.CLARK JR.,A.J.SHATKIN,E.ARNOLD REVDAT 6 01-NOV-23 3BGR 1 REMARK REVDAT 5 10-NOV-21 3BGR 1 REMARK SEQADV REVDAT 4 17-JUN-15 3BGR 1 HETSYN REVDAT 3 18-JUL-12 3BGR 1 HETSYN VERSN REVDAT 2 24-FEB-09 3BGR 1 VERSN REVDAT 1 12-FEB-08 3BGR 0 JRNL AUTH K.DAS,J.D.BAUMAN,A.D.CLARK JR.,Y.V.FRENKEL,P.J.LEWI, JRNL AUTH 2 A.J.SHATKIN,S.H.HUGHES,E.ARNOLD JRNL TITL HIGH-RESOLUTION STRUCTURES OF HIV-1 REVERSE JRNL TITL 2 TRANSCRIPTASE/TMC278 COMPLEXES: STRATEGIC FLEXIBILITY JRNL TITL 3 EXPLAINS POTENCY AGAINST RESISTANCE MUTATIONS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 1466 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18230722 JRNL DOI 10.1073/PNAS.0711209105 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.DAS,S.G.SARAFIANOS,A.D.CLARK,P.L.BOYER,S.H.HUGHES,E.ARNOLD REMARK 1 TITL CRYSTAL STRUCTURES OF CLINICALLY RELEVANT REMARK 1 TITL 2 LYS103ASN/TYR181CYS DOUBLE MUTANT HIV-1 REVERSE REMARK 1 TITL 3 TRANSCRIPTASE IN COMPLEXES WITH ATP AND NON-NUCLEOSIDE REMARK 1 TITL 4 INHIBITOR HBY 097. REMARK 1 REF J.MOL.BIOL. V. 365 77 2007 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 17056061 REMARK 1 DOI 10.1016/J.JMB.2006.08.097 REMARK 1 REFERENCE 2 REMARK 1 AUTH K.DAS,A.D.CLARK,P.J.LEWI,J.HEERES,M.R.DE JONGE,L.M.KOYMANS, REMARK 1 AUTH 2 H.M.VINKERS,F.DAEYAERT,D.W.LUDOVICI,M.J.KUKLA,B.DE CORTE, REMARK 1 AUTH 3 R.W.KAVASH,C.Y.HO,H.YE,M.A.LICHTENSTEIN,K.ANDRIES,R.PAUWELS, REMARK 1 AUTH 4 P.L.BOYER,P.CLARK,S.H.HUGHES,P.A.JANSSEN,E.ARNOLD REMARK 1 TITL ROLES OF CONFORMATIONAL AND POSITIONAL ADAPTABILITY IN REMARK 1 TITL 2 STRUCTURE-BASED DESIGN OF TMC125-R165335 (ETRAVIRINE) AND REMARK 1 TITL 3 RELATED NON-NUCLEOSIDE REVERSE TRANSCRIPTASE INHIBITORS THAT REMARK 1 TITL 4 ARE HIGHLY POTENT AND EFFECTIVE AGAINST WILD-TYPE AND REMARK 1 TITL 5 DRUG-RESISTANT HIV-1 VARIANTS. REMARK 1 REF J.MED.CHEM. V. 47 2550 2004 REMARK 1 REFN ISSN 0022-2623 REMARK 1 PMID 15115397 REMARK 1 DOI 10.1021/JM030558S REMARK 1 REFERENCE 3 REMARK 1 AUTH K.DAS,J.DING,Y.HSIOU,A.D.CLARK,H.MOEREELS,L.KOYMANS, REMARK 1 AUTH 2 K.ANDRIES,R.PAUWELS,P.A.JANSSEN,P.L.BOYER,P.CLARK,R.H.SMITH, REMARK 1 AUTH 3 M.B.KROEGER SMITH,C.J.MICHEJDA,S.H.HUGHES,E.ARNOLD REMARK 1 TITL CRYSTAL STRUCTURES OF 8-CL AND 9-CL TIBO COMPLEXED WITH REMARK 1 TITL 2 WILD-TYPE HIV-1 RT AND 8-CL TIBO COMPLEXED WITH THE REMARK 1 TITL 3 TYR181CYS HIV-1 RT DRUG-RESISTANT MUTANT. REMARK 1 REF J.MOL.BIOL. V. 264 1085 1996 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 9000632 REMARK 1 DOI 10.1006/JMBI.1996.0698 REMARK 1 REFERENCE 4 REMARK 1 AUTH Y.HSIOU,J.DING,K.DAS,A.D.CLARK,P.L.BOYER,P.LEWI,P.A.JANSSEN, REMARK 1 AUTH 2 J.P.KLEIM,S.H.HUGHES,E.ARNOLD REMARK 1 TITL THE LYS103ASN MUTATION OF HIV-1 RT: A NOVEL MECHANISM OF REMARK 1 TITL 2 DRUG RESISTANCE. REMARK 1 REF J.MOL.BIOL. V. 309 437 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 11371163 REMARK 1 DOI 10.1006/JMBI.2001.4648 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2593226.410 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 72840 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 SET) : 0.228 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2189 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 11520 REMARK 3 BIN R VALUE (WORKING SET) : 0.3390 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 359 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7908 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 475 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.36000 REMARK 3 B22 (A**2) : -1.96000 REMARK 3 B33 (A**2) : 7.32000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -6.57000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.42 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.42 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.950 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.460 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.870 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.500 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 47.15 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : 278.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : EDO.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : 278.TOP REMARK 3 TOPOLOGY FILE 5 : EDO.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3BGR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045500. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.80 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73049 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.56800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: CNS REMARK 200 STARTING MODEL: 1S6Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM SULFATE, MGCL2, REMARK 280 IMIDAZOLE, PH 6.80, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 81.42000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.59000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 81.42000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.59000 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 300 REMARK: P66/P51 HETERODIMER 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: 5290 ANGSTROM**2 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 SER A 553 REMARK 465 ALA A 554 REMARK 465 GLY A 555 REMARK 465 PRO B 1 REMARK 465 ILE B 2 REMARK 465 SER B 3 REMARK 465 PRO B 4 REMARK 465 THR B 215 REMARK 465 THR B 216 REMARK 465 PRO B 217 REMARK 465 ASP B 218 REMARK 465 LYS B 219 REMARK 465 LYS B 220 REMARK 465 HIS B 221 REMARK 465 GLN B 222 REMARK 465 LYS B 223 REMARK 465 GLU B 224 REMARK 465 PRO B 225 REMARK 465 PRO B 226 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 MET A -1 CG SD CE 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 220 N - CA - C ANGL. DEV. = -27.0 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 ASN A 54 120.85 -39.82 REMARK 500 THR A 69 35.94 -75.16 REMARK 500 GLN A 85 162.27 -49.76 REMARK 500 GLU A 89 72.54 -68.16 REMARK 500 VAL A 90 5.83 -56.83 REMARK 500 GLN A 91 63.45 -102.74 REMARK 500 SER A 117 8.22 -66.61 REMARK 500 MET A 184 -146.14 67.74 REMARK 500 ASP A 185 25.41 -75.89 REMARK 500 ILE A 195 -13.50 -41.04 REMARK 500 ASP A 218 107.01 -46.99 REMARK 500 HIS A 221 160.63 -48.32 REMARK 500 GLN A 222 2.88 -64.05 REMARK 500 PRO A 225 137.45 -32.81 REMARK 500 PRO A 243 127.49 -28.49 REMARK 500 VAL A 276 21.76 -145.16 REMARK 500 LEU A 283 42.95 -101.82 REMARK 500 PHE A 346 -0.16 77.59 REMARK 500 GLU A 413 121.88 -29.44 REMARK 500 PRO A 420 152.38 -49.64 REMARK 500 ASN A 545 59.31 -63.20 REMARK 500 GLU A 546 72.93 -64.67 REMARK 500 LYS B 65 -169.96 -68.39 REMARK 500 LYS B 66 109.83 -50.70 REMARK 500 GLU B 89 -159.82 -75.22 REMARK 500 HIS B 96 126.02 -36.42 REMARK 500 PRO B 97 90.10 -64.29 REMARK 500 ASN B 136 13.91 54.63 REMARK 500 MET B 184 -124.84 54.87 REMARK 500 ILE B 195 -51.41 -25.82 REMARK 500 TRP B 212 41.87 -74.47 REMARK 500 TRP B 229 -18.92 -46.36 REMARK 500 LEU B 283 31.83 -99.34 REMARK 500 LYS B 347 66.91 -119.19 REMARK 500 ALA B 355 110.74 171.61 REMARK 500 MET B 357 47.06 -90.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T27 A 556 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 429 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZD1 RELATED DB: PDB REMARK 900 RELATED ID: 2ZE2 RELATED DB: PDB REMARK 900 RELATED ID: 1S6Q RELATED DB: PDB REMARK 900 RELATED ID: 2IC3 RELATED DB: PDB REMARK 900 RELATED ID: 1SV5 RELATED DB: PDB DBREF 3BGR A 1 555 UNP P03366 POL_HV1B1 600 1154 DBREF 3BGR B 1 428 UNP P03366 POL_HV1B1 600 1027 SEQADV 3BGR MET A -1 UNP P03366 EXPRESSION TAG SEQADV 3BGR VAL A 0 UNP P03366 EXPRESSION TAG SEQADV 3BGR ASN A 103 UNP P03366 LYS 702 ENGINEERED MUTATION SEQADV 3BGR ALA A 172 UNP P03366 LYS 771 ENGINEERED MUTATION SEQADV 3BGR ALA A 173 UNP P03366 LYS 772 ENGINEERED MUTATION SEQADV 3BGR CYS A 181 UNP P03366 TYR 780 ENGINEERED MUTATION SEQADV 3BGR SER A 280 UNP P03366 CYS 879 ENGINEERED MUTATION SEQADV 3BGR SER B 280 UNP P03366 CYS 879 ENGINEERED MUTATION SEQRES 1 A 557 MET VAL PRO ILE SER PRO ILE GLU THR VAL PRO VAL LYS SEQRES 2 A 557 LEU LYS PRO GLY MET ASP GLY PRO LYS VAL LYS GLN TRP SEQRES 3 A 557 PRO LEU THR GLU GLU LYS ILE LYS ALA LEU VAL GLU ILE SEQRES 4 A 557 CYS THR GLU MET GLU LYS GLU GLY LYS ILE SER LYS ILE SEQRES 5 A 557 GLY PRO GLU ASN PRO TYR ASN THR PRO VAL PHE ALA ILE SEQRES 6 A 557 LYS LYS LYS ASP SER THR LYS TRP ARG LYS LEU VAL ASP SEQRES 7 A 557 PHE ARG GLU LEU ASN LYS ARG THR GLN ASP PHE TRP GLU SEQRES 8 A 557 VAL GLN LEU GLY ILE PRO HIS PRO ALA GLY LEU LYS LYS SEQRES 9 A 557 ASN LYS SER VAL THR VAL LEU ASP VAL GLY ASP ALA TYR SEQRES 10 A 557 PHE SER VAL PRO LEU ASP GLU ASP PHE ARG LYS TYR THR SEQRES 11 A 557 ALA PHE THR ILE PRO SER ILE ASN ASN GLU THR PRO GLY SEQRES 12 A 557 ILE ARG TYR GLN TYR ASN VAL LEU PRO GLN GLY TRP LYS SEQRES 13 A 557 GLY SER PRO ALA ILE PHE GLN SER SER MET THR LYS ILE SEQRES 14 A 557 LEU GLU PRO PHE ALA ALA GLN ASN PRO ASP ILE VAL ILE SEQRES 15 A 557 CYS GLN TYR MET ASP ASP LEU TYR VAL GLY SER ASP LEU SEQRES 16 A 557 GLU ILE GLY GLN HIS ARG THR LYS ILE GLU GLU LEU ARG SEQRES 17 A 557 GLN HIS LEU LEU ARG TRP GLY LEU THR THR PRO ASP LYS SEQRES 18 A 557 LYS HIS GLN LYS GLU PRO PRO PHE LEU TRP MET GLY TYR SEQRES 19 A 557 GLU LEU HIS PRO ASP LYS TRP THR VAL GLN PRO ILE VAL SEQRES 20 A 557 LEU PRO GLU LYS ASP SER TRP THR VAL ASN ASP ILE GLN SEQRES 21 A 557 LYS LEU VAL GLY LYS LEU ASN TRP ALA SER GLN ILE TYR SEQRES 22 A 557 PRO GLY ILE LYS VAL ARG GLN LEU SER LYS LEU LEU ARG SEQRES 23 A 557 GLY THR LYS ALA LEU THR GLU VAL ILE PRO LEU THR GLU SEQRES 24 A 557 GLU ALA GLU LEU GLU LEU ALA GLU ASN ARG GLU ILE LEU SEQRES 25 A 557 LYS GLU PRO VAL HIS GLY VAL TYR TYR ASP PRO SER LYS SEQRES 26 A 557 ASP LEU ILE ALA GLU ILE GLN LYS GLN GLY GLN GLY GLN SEQRES 27 A 557 TRP THR TYR GLN ILE TYR GLN GLU PRO PHE LYS ASN LEU SEQRES 28 A 557 LYS THR GLY LYS TYR ALA ARG MET ARG GLY ALA HIS THR SEQRES 29 A 557 ASN ASP VAL LYS GLN LEU THR GLU ALA VAL GLN LYS ILE SEQRES 30 A 557 THR THR GLU SER ILE VAL ILE TRP GLY LYS THR PRO LYS SEQRES 31 A 557 PHE LYS LEU PRO ILE GLN LYS GLU THR TRP GLU THR TRP SEQRES 32 A 557 TRP THR GLU TYR TRP GLN ALA THR TRP ILE PRO GLU TRP SEQRES 33 A 557 GLU PHE VAL ASN THR PRO PRO LEU VAL LYS LEU TRP TYR SEQRES 34 A 557 GLN LEU GLU LYS GLU PRO ILE VAL GLY ALA GLU THR PHE SEQRES 35 A 557 TYR VAL ASP GLY ALA ALA ASN ARG GLU THR LYS LEU GLY SEQRES 36 A 557 LYS ALA GLY TYR VAL THR ASN LYS GLY ARG GLN LYS VAL SEQRES 37 A 557 VAL PRO LEU THR ASN THR THR ASN GLN LYS THR GLU LEU SEQRES 38 A 557 GLN ALA ILE TYR LEU ALA LEU GLN ASP SER GLY LEU GLU SEQRES 39 A 557 VAL ASN ILE VAL THR ASP SER GLN TYR ALA LEU GLY ILE SEQRES 40 A 557 ILE GLN ALA GLN PRO ASP LYS SER GLU SER GLU LEU VAL SEQRES 41 A 557 ASN GLN ILE ILE GLU GLN LEU ILE LYS LYS GLU LYS VAL SEQRES 42 A 557 TYR LEU ALA TRP VAL PRO ALA HIS LYS GLY ILE GLY GLY SEQRES 43 A 557 ASN GLU GLN VAL ASP LYS LEU VAL SER ALA GLY SEQRES 1 B 428 PRO ILE SER PRO ILE GLU THR VAL PRO VAL LYS LEU LYS SEQRES 2 B 428 PRO GLY MET ASP GLY PRO LYS VAL LYS GLN TRP PRO LEU SEQRES 3 B 428 THR GLU GLU LYS ILE LYS ALA LEU VAL GLU ILE CYS THR SEQRES 4 B 428 GLU MET GLU LYS GLU GLY LYS ILE SER LYS ILE GLY PRO SEQRES 5 B 428 GLU ASN PRO TYR ASN THR PRO VAL PHE ALA ILE LYS LYS SEQRES 6 B 428 LYS ASP SER THR LYS TRP ARG LYS LEU VAL ASP PHE ARG SEQRES 7 B 428 GLU LEU ASN LYS ARG THR GLN ASP PHE TRP GLU VAL GLN SEQRES 8 B 428 LEU GLY ILE PRO HIS PRO ALA GLY LEU LYS LYS LYS LYS SEQRES 9 B 428 SER VAL THR VAL LEU ASP VAL GLY ASP ALA TYR PHE SER SEQRES 10 B 428 VAL PRO LEU ASP GLU ASP PHE ARG LYS TYR THR ALA PHE SEQRES 11 B 428 THR ILE PRO SER ILE ASN ASN GLU THR PRO GLY ILE ARG SEQRES 12 B 428 TYR GLN TYR ASN VAL LEU PRO GLN GLY TRP LYS GLY SER SEQRES 13 B 428 PRO ALA ILE PHE GLN SER SER MET THR LYS ILE LEU GLU SEQRES 14 B 428 PRO PHE LYS LYS GLN ASN PRO ASP ILE VAL ILE TYR GLN SEQRES 15 B 428 TYR MET ASP ASP LEU TYR VAL GLY SER ASP LEU GLU ILE SEQRES 16 B 428 GLY GLN HIS ARG THR LYS ILE GLU GLU LEU ARG GLN HIS SEQRES 17 B 428 LEU LEU ARG TRP GLY LEU THR THR PRO ASP LYS LYS HIS SEQRES 18 B 428 GLN LYS GLU PRO PRO PHE LEU TRP MET GLY TYR GLU LEU SEQRES 19 B 428 HIS PRO ASP LYS TRP THR VAL GLN PRO ILE VAL LEU PRO SEQRES 20 B 428 GLU LYS ASP SER TRP THR VAL ASN ASP ILE GLN LYS LEU SEQRES 21 B 428 VAL GLY LYS LEU ASN TRP ALA SER GLN ILE TYR PRO GLY SEQRES 22 B 428 ILE LYS VAL ARG GLN LEU SER LYS LEU LEU ARG GLY THR SEQRES 23 B 428 LYS ALA LEU THR GLU VAL ILE PRO LEU THR GLU GLU ALA SEQRES 24 B 428 GLU LEU GLU LEU ALA GLU ASN ARG GLU ILE LEU LYS GLU SEQRES 25 B 428 PRO VAL HIS GLY VAL TYR TYR ASP PRO SER LYS ASP LEU SEQRES 26 B 428 ILE ALA GLU ILE GLN LYS GLN GLY GLN GLY GLN TRP THR SEQRES 27 B 428 TYR GLN ILE TYR GLN GLU PRO PHE LYS ASN LEU LYS THR SEQRES 28 B 428 GLY LYS TYR ALA ARG MET ARG GLY ALA HIS THR ASN ASP SEQRES 29 B 428 VAL LYS GLN LEU THR GLU ALA VAL GLN LYS ILE THR THR SEQRES 30 B 428 GLU SER ILE VAL ILE TRP GLY LYS THR PRO LYS PHE LYS SEQRES 31 B 428 LEU PRO ILE GLN LYS GLU THR TRP GLU THR TRP TRP THR SEQRES 32 B 428 GLU TYR TRP GLN ALA THR TRP ILE PRO GLU TRP GLU PHE SEQRES 33 B 428 VAL ASN THR PRO PRO LEU VAL LYS LEU TRP TYR GLN HET T27 A 556 28 HET EDO B 429 4 HETNAM T27 4-{[4-({4-[(E)-2-CYANOETHENYL]-2,6- HETNAM 2 T27 DIMETHYLPHENYL}AMINO)PYRIMIDIN-2-YL]AMINO}BENZONITRILE HETNAM EDO 1,2-ETHANEDIOL HETSYN T27 RILPIVIRINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 T27 C22 H18 N6 FORMUL 4 EDO C2 H6 O2 FORMUL 5 HOH *475(H2 O) HELIX 1 1 THR A 27 GLY A 45 1 19 HELIX 2 2 PHE A 77 ARG A 83 1 7 HELIX 3 3 HIS A 96 LEU A 100 5 5 HELIX 4 4 ALA A 114 VAL A 118 5 5 HELIX 5 5 ASP A 121 ALA A 129 5 9 HELIX 6 6 SER A 134 GLU A 138 5 5 HELIX 7 7 GLY A 155 ASN A 175 1 21 HELIX 8 8 GLU A 194 ARG A 211 1 18 HELIX 9 9 THR A 253 SER A 268 1 16 HELIX 10 10 VAL A 276 LEU A 282 1 7 HELIX 11 11 THR A 296 GLU A 312 1 17 HELIX 12 12 ASN A 363 GLY A 384 1 22 HELIX 13 13 GLN A 394 TYR A 405 1 12 HELIX 14 14 THR A 473 SER A 489 1 17 HELIX 15 15 SER A 499 GLN A 507 1 9 HELIX 16 16 SER A 515 LYS A 528 1 14 HELIX 17 17 GLU A 546 VAL A 552 1 7 HELIX 18 18 THR B 27 GLU B 44 1 18 HELIX 19 19 PHE B 77 THR B 84 1 8 HELIX 20 20 VAL B 111 PHE B 116 1 6 HELIX 21 21 ASP B 121 LYS B 126 1 6 HELIX 22 22 TYR B 127 ALA B 129 5 3 HELIX 23 23 SER B 134 GLU B 138 5 5 HELIX 24 24 LYS B 154 ASN B 175 1 22 HELIX 25 25 GLU B 194 TRP B 212 1 19 HELIX 26 26 HIS B 235 TRP B 239 5 5 HELIX 27 27 VAL B 254 SER B 268 1 15 HELIX 28 28 VAL B 276 LEU B 282 1 7 HELIX 29 29 THR B 296 GLU B 312 1 17 HELIX 30 30 ASN B 363 GLY B 384 1 22 HELIX 31 31 GLN B 394 TRP B 402 1 9 HELIX 32 32 THR B 403 TYR B 405 5 3 HELIX 33 33 PRO B 421 GLN B 428 5 8 SHEET 1 A 3 ILE A 47 LYS A 49 0 SHEET 2 A 3 ILE A 142 TYR A 146 -1 O GLN A 145 N SER A 48 SHEET 3 A 3 PHE A 130 ILE A 132 -1 N PHE A 130 O TYR A 144 SHEET 1 B 2 VAL A 60 LYS A 64 0 SHEET 2 B 2 TRP A 71 VAL A 75 -1 O LEU A 74 N PHE A 61 SHEET 1 C 3 SER A 105 ASP A 110 0 SHEET 2 C 3 ASP A 186 SER A 191 -1 O VAL A 189 N THR A 107 SHEET 3 C 3 ILE A 178 TYR A 183 -1 N VAL A 179 O GLY A 190 SHEET 1 D 3 PHE A 227 TRP A 229 0 SHEET 2 D 3 TYR A 232 LEU A 234 -1 O LEU A 234 N PHE A 227 SHEET 3 D 3 TRP A 239 VAL A 241 -1 O THR A 240 N GLU A 233 SHEET 1 E 5 LYS A 347 ALA A 355 0 SHEET 2 E 5 GLN A 336 GLU A 344 -1 N ILE A 341 O LEU A 349 SHEET 3 E 5 ILE A 326 GLY A 333 -1 N GLN A 332 O GLN A 336 SHEET 4 E 5 LYS A 388 LEU A 391 1 O LYS A 388 N ALA A 327 SHEET 5 E 5 TRP A 414 PHE A 416 1 O GLU A 415 N PHE A 389 SHEET 1 F 2 HIS A 361 THR A 362 0 SHEET 2 F 2 LYS A 512 SER A 513 -1 O LYS A 512 N THR A 362 SHEET 1 G 5 GLN A 464 LEU A 469 0 SHEET 2 G 5 GLY A 453 THR A 459 -1 N GLY A 453 O LEU A 469 SHEET 3 G 5 THR A 439 ALA A 446 -1 N TYR A 441 O VAL A 458 SHEET 4 G 5 GLU A 492 THR A 497 1 O ASN A 494 N PHE A 440 SHEET 5 G 5 LYS A 530 TRP A 535 1 O TYR A 532 N ILE A 495 SHEET 1 H 3 ILE B 47 LYS B 49 0 SHEET 2 H 3 ILE B 142 TYR B 146 -1 O GLN B 145 N SER B 48 SHEET 3 H 3 PHE B 130 ILE B 132 -1 N ILE B 132 O ILE B 142 SHEET 1 I 2 VAL B 60 LYS B 64 0 SHEET 2 I 2 TRP B 71 VAL B 75 -1 O ARG B 72 N ILE B 63 SHEET 1 J 4 VAL B 179 TYR B 183 0 SHEET 2 J 4 ASP B 186 SER B 191 -1 O TYR B 188 N TYR B 181 SHEET 3 J 4 SER B 105 ASP B 110 -1 N THR B 107 O VAL B 189 SHEET 4 J 4 GLU B 233 LEU B 234 -1 O LEU B 234 N VAL B 106 SHEET 1 K 2 TRP B 252 THR B 253 0 SHEET 2 K 2 VAL B 292 ILE B 293 -1 O ILE B 293 N TRP B 252 SHEET 1 L 5 LYS B 347 TYR B 354 0 SHEET 2 L 5 GLN B 336 GLU B 344 -1 N ILE B 341 O LYS B 350 SHEET 3 L 5 ILE B 326 GLY B 333 -1 N ILE B 326 O TYR B 342 SHEET 4 L 5 LYS B 388 LEU B 391 1 O LYS B 390 N ALA B 327 SHEET 5 L 5 GLU B 413 PHE B 416 1 O GLU B 415 N LEU B 391 CISPEP 1 PRO A 225 PRO A 226 0 0.07 CISPEP 2 PRO A 420 PRO A 421 0 0.13 SITE 1 AC1 15 LEU A 100 LYS A 101 ASN A 103 VAL A 179 SITE 2 AC1 15 CYS A 181 TYR A 183 TYR A 188 PHE A 227 SITE 3 AC1 15 TRP A 229 LEU A 234 HIS A 235 PRO A 236 SITE 4 AC1 15 TYR A 318 HOH A 780 GLU B 138 SITE 1 AC2 3 GLU B 399 TRP B 402 HOH B 509 CRYST1 162.840 73.180 108.920 90.00 100.79 90.00 C 1 2 1 4 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 0.006141 0.000000 0.001170 0.00000 SCALE2 0.000000 0.013665 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009346 0.00000