HEADER HYDROLASE/HYDROLASE INHIBITOR 03-JAN-03 1NKM TITLE COMPLEX STRUCTURE OF HCMV PROTEASE AND A PEPTIDOMIMETIC INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASSEMBLIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTEASE, CAPSID ASSEMBLY PROTEIN; COMPND 5 EC: 3.4.21.97; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 5; SOURCE 3 ORGANISM_COMMON: HUMAN CYTOMEGALOVIRUS; SOURCE 4 ORGANISM_TAXID: 10359; SOURCE 5 GENE: UL80, APNG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEASE, PEPTIDOMIMETIC INHIBITOR, INDUCED-FIT, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.KHAYAT,R.BATRA,C.QIAN,T.HALMOS,M.BAILEY,L.TONG REVDAT 5 13-MAR-24 1NKM 1 COMPND SOURCE REVDAT 4 27-OCT-21 1NKM 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 1NKM 1 VERSN REVDAT 2 24-FEB-09 1NKM 1 VERSN REVDAT 1 11-FEB-03 1NKM 0 JRNL AUTH R.KHAYAT,R.BATRA,C.QIAN,T.HALMOS,M.BAILEY,L.TONG JRNL TITL STRUCTURAL AND BIOCHEMICAL STUDIES OF INHIBITOR BINDING TO JRNL TITL 2 HUMAN CYTOMEGALOVIRUS PROTEASE JRNL REF BIOCHEMISTRY V. 42 885 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12549906 JRNL DOI 10.1021/BI027045S REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 0.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 2631533 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 80.7 REMARK 3 NUMBER OF REFLECTIONS : 13923 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) : 0.236 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.800 REMARK 3 FREE R VALUE TEST SET COUNT : 952 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 52.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1362 REMARK 3 BIN R VALUE (WORKING SET) : 0.3610 REMARK 3 BIN FREE R VALUE : 0.4040 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 115 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.038 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3452 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 4.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 14.93000 REMARK 3 B22 (A**2) : 22.98000 REMARK 3 B33 (A**2) : -37.91000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.53 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) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.65 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) : 23.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.990 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.30 REMARK 3 BSOL : 26.17 REMARK 3 REMARK 3 NCS MODEL : CONSTR 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 : PARAM.HCMV REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : TOP.HCMV REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NKM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JAN-03. REMARK 100 THE DEPOSITION ID IS D_1000017953. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97620 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16733 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.2 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: COMO REMARK 200 SOFTWARE USED: COMO REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, HEPES, EDTA, SODIUM REMARK 280 CHLORIDE, SODIUM SULFATE, DTT, SPERMINE_HCL, GLYCEROL, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 108.21500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.94000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.94000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 54.10750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.94000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.94000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 162.32250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.94000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.94000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 54.10750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.94000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.94000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 162.32250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 108.21500 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: 4460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 MET A 3 REMARK 465 GLY A 47 REMARK 465 GLN A 48 REMARK 465 GLY A 49 REMARK 465 GLN A 50 REMARK 465 PRO A 51 REMARK 465 SER A 52 REMARK 465 LEU A 53 REMARK 465 SER A 54 REMARK 465 VAL A 55 REMARK 465 CYS A 138 REMARK 465 ASP A 139 REMARK 465 ASP A 140 REMARK 465 VAL A 141 REMARK 465 GLU A 142 REMARK 465 GLN A 143 REMARK 465 ALA A 144 REMARK 465 THR A 145 REMARK 465 SER A 146 REMARK 465 LEU A 147 REMARK 465 SER A 148 REMARK 465 GLY A 149 REMARK 465 SER A 150 REMARK 465 GLU A 151 REMARK 465 ARG A 201 REMARK 465 CYS A 202 REMARK 465 GLY A 203 REMARK 465 SER A 204 REMARK 465 THR A 205 REMARK 465 ALA A 206 REMARK 465 VAL A 207 REMARK 465 ASP A 208 REMARK 465 ALA A 209 REMARK 465 SER A 210 REMARK 465 MET B 301 REMARK 465 THR B 302 REMARK 465 MET B 303 REMARK 465 GLY B 347 REMARK 465 GLN B 348 REMARK 465 GLY B 349 REMARK 465 GLN B 350 REMARK 465 PRO B 351 REMARK 465 SER B 352 REMARK 465 SER B 435 REMARK 465 ARG B 436 REMARK 465 ARG B 437 REMARK 465 CYS B 438 REMARK 465 ASP B 439 REMARK 465 ASP B 440 REMARK 465 VAL B 441 REMARK 465 GLU B 442 REMARK 465 GLN B 443 REMARK 465 ALA B 444 REMARK 465 THR B 445 REMARK 465 SER B 446 REMARK 465 LEU B 447 REMARK 465 SER B 448 REMARK 465 GLY B 449 REMARK 465 SER B 450 REMARK 465 GLU B 451 REMARK 465 THR B 452 REMARK 465 ARG B 501 REMARK 465 CYS B 502 REMARK 465 GLY B 503 REMARK 465 SER B 504 REMARK 465 THR B 505 REMARK 465 ALA B 506 REMARK 465 VAL B 507 REMARK 465 ASP B 508 REMARK 465 ALA B 509 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 PRO B 411 C - N - CA ANGL. DEV. = 10.9 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 GLU A 5 -73.74 62.72 REMARK 500 GLN A 7 -7.66 -55.81 REMARK 500 VAL A 11 17.74 -67.15 REMARK 500 PRO A 13 152.15 -49.56 REMARK 500 ASP A 24 28.08 -76.29 REMARK 500 PRO A 27 161.72 -41.40 REMARK 500 LEU A 34 85.94 -150.89 REMARK 500 ALA A 45 -99.61 -82.25 REMARK 500 ALA A 67 53.12 -140.04 REMARK 500 VAL A 78 -145.32 -80.89 REMARK 500 THR A 89 -30.69 -133.56 REMARK 500 SER A 90 108.99 -45.14 REMARK 500 SER A 113 -83.88 12.90 REMARK 500 ARG A 136 -75.27 -108.54 REMARK 500 THR A 153 87.75 66.54 REMARK 500 VAL A 163 126.59 -170.93 REMARK 500 ALA A 197 31.75 -80.24 REMARK 500 GLN A 198 -48.62 -138.86 REMARK 500 ASP A 212 98.68 -27.34 REMARK 500 ARG A 215 -4.14 -144.57 REMARK 500 ARG A 234 -75.72 -51.38 REMARK 500 GLU A 249 -2.79 73.22 REMARK 500 GLU A 251 -0.42 -153.02 REMARK 500 GLU B 305 -67.73 71.14 REMARK 500 VAL B 311 35.64 -81.63 REMARK 500 ALA B 321 144.12 179.05 REMARK 500 ASP B 328 -0.86 -58.72 REMARK 500 ALA B 330 -92.90 -38.62 REMARK 500 GLU B 331 -74.11 36.16 REMARK 500 LEU B 332 -76.71 -52.76 REMARK 500 LEU B 333 116.18 70.58 REMARK 500 PRO B 335 125.45 -12.26 REMARK 500 ARG B 336 -85.54 -23.24 REMARK 500 ASP B 337 -29.14 -38.97 REMARK 500 VAL B 338 -86.60 -55.32 REMARK 500 ASN B 362 47.68 35.48 REMARK 500 ASP B 365 -2.09 -58.77 REMARK 500 SER B 390 105.09 -34.74 REMARK 500 SER B 413 -97.15 25.20 REMARK 500 ASP B 418 79.12 -166.90 REMARK 500 TYR B 428 56.36 -114.13 REMARK 500 SER B 516 -169.63 -76.48 REMARK 500 GLU B 549 27.43 -74.40 REMARK 500 SER B 552 -155.06 -149.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR B 530 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE INHIBITOR 0FP IS COVALENTLY CONNECTED AT CARBON C4 REMARK 600 TO THE ACTIVE SITE SERINE A 132 VIA HEMIKETAL LINKAGE REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: N-(6-AMINOHEXANOYL)-3-METHYL-L-VALYL-3-METHYL-L- REMARK 630 VALYL-N~1~-[(2S,3S)-3-HYDROXY-4-OXO-4-{[(1R)-1-PHENYLPROPYL]AMINO} REMARK 630 BUTAN-2-YL]-N~4~,N~4~-DIMETHYL-L-ASPARTAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 0FP A 260 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: ACA TBG TBG DMH 9AL REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0FP A 260 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WPO RELATED DB: PDB REMARK 900 RELATED ID: 1NJT RELATED DB: PDB REMARK 900 RELATED ID: 1NJU RELATED DB: PDB REMARK 900 RELATED ID: 1NKK RELATED DB: PDB DBREF 1NKM A 1 256 UNP P16753 VP40_HCMVA 1 256 DBREF 1NKM B 301 556 UNP P16753 VP40_HCMVA 1 256 SEQADV 1NKM GLN A 143 UNP P16753 ALA 143 ENGINEERED MUTATION SEQADV 1NKM GLN B 443 UNP P16753 ALA 143 ENGINEERED MUTATION SEQRES 1 A 256 MET THR MET ASP GLU GLN GLN SER GLN ALA VAL ALA PRO SEQRES 2 A 256 VAL TYR VAL GLY GLY PHE LEU ALA ARG TYR ASP GLN SER SEQRES 3 A 256 PRO ASP GLU ALA GLU LEU LEU LEU PRO ARG ASP VAL VAL SEQRES 4 A 256 GLU HIS TRP LEU HIS ALA GLN GLY GLN GLY GLN PRO SER SEQRES 5 A 256 LEU SER VAL ALA LEU PRO LEU ASN ILE ASN HIS ASP ASP SEQRES 6 A 256 THR ALA VAL VAL GLY HIS VAL ALA ALA MET GLN SER VAL SEQRES 7 A 256 ARG ASP GLY LEU PHE CYS LEU GLY CYS VAL THR SER PRO SEQRES 8 A 256 ARG PHE LEU GLU ILE VAL ARG ARG ALA SER GLU LYS SER SEQRES 9 A 256 GLU LEU VAL SER ARG GLY PRO VAL SER PRO LEU GLN PRO SEQRES 10 A 256 ASP LYS VAL VAL GLU PHE LEU SER GLY SER TYR ALA GLY SEQRES 11 A 256 LEU SER LEU SER SER ARG ARG CYS ASP ASP VAL GLU GLN SEQRES 12 A 256 ALA THR SER LEU SER GLY SER GLU THR THR PRO PHE LYS SEQRES 13 A 256 HIS VAL ALA LEU CYS SER VAL GLY ARG ARG ARG GLY THR SEQRES 14 A 256 LEU ALA VAL TYR GLY ARG ASP PRO GLU TRP VAL THR GLN SEQRES 15 A 256 ARG PHE PRO ASP LEU THR ALA ALA ASP ARG ASP GLY LEU SEQRES 16 A 256 ARG ALA GLN TRP GLN ARG CYS GLY SER THR ALA VAL ASP SEQRES 17 A 256 ALA SER GLY ASP PRO PHE ARG SER ASP SER TYR GLY LEU SEQRES 18 A 256 LEU GLY ASN SER VAL ASP ALA LEU TYR ILE ARG GLU ARG SEQRES 19 A 256 LEU PRO LYS LEU ARG TYR ASP LYS GLN LEU VAL GLY VAL SEQRES 20 A 256 THR GLU ARG GLU SER TYR VAL LYS ALA SEQRES 1 B 256 MET THR MET ASP GLU GLN GLN SER GLN ALA VAL ALA PRO SEQRES 2 B 256 VAL TYR VAL GLY GLY PHE LEU ALA ARG TYR ASP GLN SER SEQRES 3 B 256 PRO ASP GLU ALA GLU LEU LEU LEU PRO ARG ASP VAL VAL SEQRES 4 B 256 GLU HIS TRP LEU HIS ALA GLN GLY GLN GLY GLN PRO SER SEQRES 5 B 256 LEU SER VAL ALA LEU PRO LEU ASN ILE ASN HIS ASP ASP SEQRES 6 B 256 THR ALA VAL VAL GLY HIS VAL ALA ALA MET GLN SER VAL SEQRES 7 B 256 ARG ASP GLY LEU PHE CYS LEU GLY CYS VAL THR SER PRO SEQRES 8 B 256 ARG PHE LEU GLU ILE VAL ARG ARG ALA SER GLU LYS SER SEQRES 9 B 256 GLU LEU VAL SER ARG GLY PRO VAL SER PRO LEU GLN PRO SEQRES 10 B 256 ASP LYS VAL VAL GLU PHE LEU SER GLY SER TYR ALA GLY SEQRES 11 B 256 LEU SER LEU SER SER ARG ARG CYS ASP ASP VAL GLU GLN SEQRES 12 B 256 ALA THR SER LEU SER GLY SER GLU THR THR PRO PHE LYS SEQRES 13 B 256 HIS VAL ALA LEU CYS SER VAL GLY ARG ARG ARG GLY THR SEQRES 14 B 256 LEU ALA VAL TYR GLY ARG ASP PRO GLU TRP VAL THR GLN SEQRES 15 B 256 ARG PHE PRO ASP LEU THR ALA ALA ASP ARG ASP GLY LEU SEQRES 16 B 256 ARG ALA GLN TRP GLN ARG CYS GLY SER THR ALA VAL ASP SEQRES 17 B 256 ALA SER GLY ASP PRO PHE ARG SER ASP SER TYR GLY LEU SEQRES 18 B 256 LEU GLY ASN SER VAL ASP ALA LEU TYR ILE ARG GLU ARG SEQRES 19 B 256 LEU PRO LYS LEU ARG TYR ASP LYS GLN LEU VAL GLY VAL SEQRES 20 B 256 THR GLU ARG GLU SER TYR VAL LYS ALA HET 0FP A 260 51 HETNAM 0FP N-(6-AMINOHEXANOYL)-3-METHYL-L-VALYL-3-METHYL-L-VALYL- HETNAM 2 0FP N~1~-[(2S,3S)-3-HYDROXY-4-OXO-4-{[(1R)-1- HETNAM 3 0FP PHENYLPROPYL]AMINO}BUTAN-2-YL]-N~4~,N~4~-DIMETHYL-L- HETNAM 4 0FP ASPARTAMIDE HETSYN 0FP BILC 408 FORMUL 3 0FP C37 H63 N7 O7 HELIX 1 1 GLU A 5 VAL A 11 1 7 HELIX 2 2 GLU A 29 LEU A 33 5 5 HELIX 3 3 PRO A 35 ALA A 45 1 11 HELIX 4 4 SER A 90 GLU A 102 1 13 HELIX 5 5 SER A 104 ARG A 109 1 6 HELIX 6 6 ASP A 118 TYR A 128 1 11 HELIX 7 7 ASP A 176 GLN A 182 1 7 HELIX 8 8 THR A 188 GLN A 200 1 13 HELIX 9 9 ASP A 217 LEU A 229 1 13 HELIX 10 10 GLU A 233 GLY A 246 1 14 HELIX 11 11 GLU B 305 VAL B 311 1 7 HELIX 12 12 GLU B 329 LEU B 333 5 5 HELIX 13 13 PRO B 335 HIS B 344 1 10 HELIX 14 14 SER B 390 GLU B 402 1 13 HELIX 15 15 SER B 404 ARG B 409 1 6 HELIX 16 16 ASP B 418 TYR B 428 1 11 HELIX 17 17 ASP B 476 GLN B 482 1 7 HELIX 18 18 THR B 488 GLN B 500 1 13 HELIX 19 19 ASP B 517 TYR B 530 1 14 HELIX 20 20 GLU B 533 VAL B 545 1 13 SHEET 1 A 7 GLY A 130 SER A 134 0 SHEET 2 A 7 HIS A 157 CYS A 161 -1 O ALA A 159 N SER A 132 SHEET 3 A 7 PRO A 58 ILE A 61 1 N ASN A 60 O LEU A 160 SHEET 4 A 7 ASP A 64 SER A 77 -1 O ASP A 64 N ILE A 61 SHEET 5 A 7 LEU A 82 VAL A 88 -1 O PHE A 83 N GLN A 76 SHEET 6 A 7 VAL A 14 ALA A 21 -1 N VAL A 14 O VAL A 88 SHEET 7 A 7 VAL A 172 GLY A 174 -1 O GLY A 174 N TYR A 15 SHEET 1 B 7 GLY B 430 SER B 434 0 SHEET 2 B 7 HIS B 457 CYS B 461 -1 O ALA B 459 N SER B 432 SHEET 3 B 7 PRO B 358 ILE B 361 1 N ASN B 360 O LEU B 460 SHEET 4 B 7 VAL B 368 SER B 377 -1 O VAL B 369 N LEU B 359 SHEET 5 B 7 GLY B 381 VAL B 388 -1 O CYS B 387 N HIS B 371 SHEET 6 B 7 VAL B 314 ARG B 322 -1 N VAL B 314 O VAL B 388 SHEET 7 B 7 VAL B 472 GLY B 474 -1 O GLY B 474 N TYR B 315 LINK OG SER A 132 C4 0FP A 260 1555 1555 1.44 SITE 1 AC1 13 ASN A 62 HIS A 63 SER A 132 LEU A 133 SITE 2 AC1 13 SER A 134 SER A 135 ARG A 136 LYS A 156 SITE 3 AC1 13 CYS A 161 VAL A 163 GLY A 164 ARG A 165 SITE 4 AC1 13 ILE A 231 CRYST1 73.880 73.880 216.430 90.00 90.00 90.00 P 41 21 2 16 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 0.013535 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013535 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004620 0.00000