HEADER HYDROLASE/HYDROLASE INHIBITOR 15-JUL-10 3NYG TITLE X-RAY STRUCTURE OF ESTER CHEMICAL ANALOGUE [O-GLY51,O-GLY51']HIV-1 TITLE 2 PROTEASE COMPLEXED WITH MVT-101 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.23.16; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICAL PROTEIN SYNTHESIS KEYWDS BETA-BARREL, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR V.Y.TORBEEV,S.B.H.KENT REVDAT 4 27-MAR-24 3NYG 1 LINK ATOM REVDAT 3 15-NOV-23 3NYG 1 REMARK LINK ATOM REVDAT 2 11-JAN-12 3NYG 1 JRNL REVDAT 1 02-NOV-11 3NYG 0 JRNL AUTH V.Y.TORBEEV,H.RAGHURAMAN,D.HAMELBERG,M.TONELLI,W.M.WESTLER, JRNL AUTH 2 E.PEROZO,S.B.KENT JRNL TITL PROTEIN CONFORMATIONAL DYNAMICS IN THE MECHANISM OF HIV-1 JRNL TITL 2 PROTEASE CATALYSIS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 20982 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22158985 JRNL DOI 10.1073/PNAS.1111202108 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 31395 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1670 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) : 1.48 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2041 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.2570 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 : 69 REMARK 3 SOLVENT ATOMS : 154 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.15000 REMARK 3 B22 (A**2) : -0.55000 REMARK 3 B33 (A**2) : -0.59000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.407 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1617 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1087 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2180 ; 1.682 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2676 ; 0.905 ; 2.997 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 192 ; 6.363 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 58 ;37.359 ;24.828 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 282 ;12.318 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;20.935 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 256 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1705 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 269 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 236 ; 0.262 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1089 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 755 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 866 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 72 ; 0.113 ; 0.200 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): 3 ; 0.095 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 29 ; 0.179 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.097 ; 0.200 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): 1030 ; 1.176 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 416 ; 0.316 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1634 ; 1.752 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 650 ; 2.640 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 546 ; 4.028 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 98 REMARK 3 ORIGIN FOR THE GROUP (A): 15.7636 0.5956 19.1530 REMARK 3 T TENSOR REMARK 3 T11: -0.0272 T22: 0.0056 REMARK 3 T33: -0.0143 T12: 0.0320 REMARK 3 T13: -0.0140 T23: -0.0140 REMARK 3 L TENSOR REMARK 3 L11: 0.4843 L22: 1.0781 REMARK 3 L33: 0.5484 L12: 0.0603 REMARK 3 L13: 0.4114 L23: 0.3730 REMARK 3 S TENSOR REMARK 3 S11: 0.0145 S12: 0.1052 S13: 0.0194 REMARK 3 S21: 0.1225 S22: 0.0752 S23: -0.2001 REMARK 3 S31: 0.0655 S32: 0.1443 S33: -0.0897 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 98 REMARK 3 ORIGIN FOR THE GROUP (A): -5.6373 1.6848 17.3667 REMARK 3 T TENSOR REMARK 3 T11: -0.0195 T22: -0.0252 REMARK 3 T33: -0.0223 T12: 0.0034 REMARK 3 T13: 0.0065 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.8033 L22: 1.1376 REMARK 3 L33: 0.7984 L12: 0.1035 REMARK 3 L13: 0.0248 L23: 0.2953 REMARK 3 S TENSOR REMARK 3 S11: 0.0507 S12: 0.0375 S13: 0.0017 REMARK 3 S21: 0.0715 S22: -0.0581 S23: 0.1411 REMARK 3 S31: 0.1495 S32: -0.0715 S33: 0.0074 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 100 A 100 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3046 -1.0443 13.6090 REMARK 3 T TENSOR REMARK 3 T11: -0.0439 T22: -0.0036 REMARK 3 T33: -0.0539 T12: 0.0135 REMARK 3 T13: 0.0219 T23: -0.0067 REMARK 3 L TENSOR REMARK 3 L11: 3.8968 L22: 13.0193 REMARK 3 L33: 5.0059 L12: -4.0545 REMARK 3 L13: 2.4508 L23: -4.5354 REMARK 3 S TENSOR REMARK 3 S11: 0.0371 S12: 0.2146 S13: 0.2452 REMARK 3 S21: -0.1066 S22: -0.2714 S23: -0.1862 REMARK 3 S31: -0.0428 S32: 0.2191 S33: 0.2342 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3NYG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000060436. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL CRYO-COOLED REMARK 200 SI(111) REMARK 200 OPTICS : SI(111) DOUBLE CRYSTAL REMARK 200 MONOCHROMETER. ADJUSTABLE REMARK 200 FOCUSING MIRRORS IN K-B GEOMET RY 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 : 33147 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 24.900 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.5000 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 (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.65400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP V. 9.2 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CITRATE, 0.2 M SODIUM PHOSPHATE, REMARK 280 30% (W/V) AMMONIUM SULFATE, 10% (V/V) DMSO, PH 6.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 25.65150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.87250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.84100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 30.87250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.65150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.84100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 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 GLU A 34 O GLU A 35 1.53 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 PRO A 39 C - N - CA ANGL. DEV. = 12.1 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 35 -156.04 9.22 REMARK 500 NLE A 36 110.25 129.98 REMARK 500 LEU A 38 158.98 39.05 REMARK 500 PRO A 39 -129.68 -21.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: N-{(2S)-2-[(N-ACETYL-L-THREONYL-L-ISOLEUCYL)AMINO] REMARK 630 HEXYL}-L-NORLEUCYL-L-GLUTAMINYL-N~5~-[AMINO(IMINIO)METHYL]-L- REMARK 630 ORNITHINAMIDE 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 2NC A 100 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: ACE THR ILE 2A0 GLN ARG NH2 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 2NC A 100 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NXE RELATED DB: PDB REMARK 900 RELATED ID: 3NWQ RELATED DB: PDB REMARK 900 RELATED ID: 3NXN RELATED DB: PDB REMARK 900 RELATED ID: 3NWX RELATED DB: PDB REMARK 900 RELATED ID: 3HAW RELATED DB: PDB REMARK 900 RELATED ID: 3HBO RELATED DB: PDB REMARK 900 RELATED ID: 3IAW RELATED DB: PDB REMARK 900 RELATED ID: 3HDK RELATED DB: PDB REMARK 900 RELATED ID: 3HAU RELATED DB: PDB REMARK 900 RELATED ID: 3FSM RELATED DB: PDB REMARK 900 RELATED ID: 3HLO RELATED DB: PDB REMARK 900 RELATED ID: 3KA2 RELATED DB: PDB DBREF 3NYG A 1 99 PDB 3NYG 3NYG 1 99 DBREF 3NYG B 1 99 PDB 3NYG 3NYG 1 99 SEQRES 1 A 99 PRO GLN ILE THR LEU TRP LYS ARG PRO LEU VAL THR ILE SEQRES 2 A 99 ARG ILE GLY GLY GLN LEU LYS GLU ALA LEU LEU ASP THR SEQRES 3 A 99 GLY ALA ASP ASP THR VAL ILE GLU GLU NLE ASN LEU PRO SEQRES 4 A 99 GLY YCM TRP LYS PRO LYS NLE ILE GLY GLY ILE GOA GLY SEQRES 5 A 99 PHE ILE LYS VAL ARG GLN TYR ASP GLN ILE PRO VAL GLU SEQRES 6 A 99 ILE ABA GLY HIS LYS ALA ILE GLY THR VAL LEU VAL GLY SEQRES 7 A 99 PRO THR PRO VAL ASN ILE ILE GLY ARG ASN LEU LEU THR SEQRES 8 A 99 GLN ILE GLY ABA THR LEU ASN PHE SEQRES 1 B 99 PRO GLN ILE THR LEU TRP LYS ARG PRO LEU VAL THR ILE SEQRES 2 B 99 ARG ILE GLY GLY GLN LEU LYS GLU ALA LEU LEU ASP THR SEQRES 3 B 99 GLY ALA ASP ASP THR VAL ILE GLU GLU NLE ASN LEU PRO SEQRES 4 B 99 GLY YCM TRP LYS PRO LYS NLE ILE GLY GLY ILE GOA GLY SEQRES 5 B 99 PHE ILE LYS VAL ARG GLN TYR ASP GLN ILE PRO VAL GLU SEQRES 6 B 99 ILE ABA GLY HIS LYS ALA ILE GLY THR VAL LEU VAL GLY SEQRES 7 B 99 PRO THR PRO VAL ASN ILE ILE GLY ARG ASN LEU LEU THR SEQRES 8 B 99 GLN ILE GLY ABA THR LEU ASN PHE MODRES 3NYG NLE A 36 LEU NORLEUCINE MODRES 3NYG YCM A 41 CYS S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE MODRES 3NYG NLE A 46 LEU NORLEUCINE MODRES 3NYG ABA A 67 ALA ALPHA-AMINOBUTYRIC ACID MODRES 3NYG ABA A 95 ALA ALPHA-AMINOBUTYRIC ACID MODRES 3NYG NLE B 36 LEU NORLEUCINE MODRES 3NYG YCM B 41 CYS S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE MODRES 3NYG NLE B 46 LEU NORLEUCINE MODRES 3NYG ABA B 67 ALA ALPHA-AMINOBUTYRIC ACID MODRES 3NYG ABA B 95 ALA ALPHA-AMINOBUTYRIC ACID HET NLE A 36 8 HET YCM A 41 10 HET NLE A 46 8 HET GOA A 51 4 HET ABA A 67 6 HET ABA A 95 6 HET NLE B 36 8 HET YCM B 41 10 HET NLE B 46 8 HET GOA B 51 4 HET ABA B 67 6 HET ABA B 95 6 HET 2NC A 100 54 HET SO4 A 501 5 HET SO4 B 502 5 HET SO4 B 503 5 HETNAM NLE NORLEUCINE HETNAM YCM S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE HETNAM GOA GLYCOLIC ACID HETNAM ABA ALPHA-AMINOBUTYRIC ACID HETNAM 2NC N-{(2S)-2-[(N-ACETYL-L-THREONYL-L-ISOLEUCYL) HETNAM 2 2NC AMINO]HEXYL}-L-NORLEUCYL-L-GLUTAMINYL-N~5~- HETNAM 3 2NC [AMINO(IMINIO)METHYL]-L-ORNITHINAMIDE HETNAM SO4 SULFATE ION HETSYN YCM CYSTEINE-S-ACETAMIDE HETSYN GOA HYDROXYACETIC ACID; HYDROXYETHANOIC ACID HETSYN 2NC P2/NC FORMUL 1 NLE 4(C6 H13 N O2) FORMUL 1 YCM 2(C5 H10 N2 O3 S) FORMUL 1 GOA 2(C2 H4 O3) FORMUL 1 ABA 4(C4 H9 N O2) FORMUL 3 2NC C35 H68 N11 O8 1+ FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 HOH *154(H2 O) HELIX 1 1 GLY A 86 THR A 91 1 6 HELIX 2 2 GLY B 86 THR B 91 1 6 SHEET 1 A 4 GLN A 2 ILE A 3 0 SHEET 2 A 4 THR B 96 ASN B 98 -1 O LEU B 97 N ILE A 3 SHEET 3 A 4 THR A 96 ASN A 98 -1 N THR A 96 O ASN B 98 SHEET 4 A 4 GLN B 2 ILE B 3 -1 O ILE B 3 N LEU A 97 SHEET 1 B 8 LYS A 43 GLY A 48 0 SHEET 2 B 8 PHE A 53 ILE A 66 -1 O GLN A 58 N LYS A 43 SHEET 3 B 8 HIS A 69 VAL A 77 -1 O HIS A 69 N ILE A 66 SHEET 4 B 8 VAL A 32 ILE A 33 1 N ILE A 33 O LEU A 76 SHEET 5 B 8 ILE A 84 ILE A 85 -1 O ILE A 84 N VAL A 32 SHEET 6 B 8 GLN A 18 LEU A 24 1 N LEU A 23 O ILE A 85 SHEET 7 B 8 LEU A 10 ILE A 15 -1 N ILE A 13 O LYS A 20 SHEET 8 B 8 PHE A 53 ILE A 66 -1 O GLU A 65 N ARG A 14 SHEET 1 C 8 LYS B 43 GLY B 48 0 SHEET 2 C 8 PHE B 53 ILE B 66 -1 O GLN B 58 N LYS B 43 SHEET 3 C 8 HIS B 69 VAL B 77 -1 O HIS B 69 N ILE B 66 SHEET 4 C 8 VAL B 32 ILE B 33 1 N ILE B 33 O LEU B 76 SHEET 5 C 8 ILE B 84 ILE B 85 -1 O ILE B 84 N VAL B 32 SHEET 6 C 8 GLN B 18 LEU B 24 1 N LEU B 23 O ILE B 85 SHEET 7 C 8 LEU B 10 ILE B 15 -1 N ILE B 13 O LYS B 20 SHEET 8 C 8 PHE B 53 ILE B 66 -1 O GLU B 65 N ARG B 14 LINK C GLU A 35 N NLE A 36 1555 1555 1.33 LINK C NLE A 36 N ASN A 37 1555 1555 1.33 LINK C GLY A 40 N YCM A 41 1555 1555 1.33 LINK C YCM A 41 N TRP A 42 1555 1555 1.33 LINK C LYS A 45 N NLE A 46 1555 1555 1.31 LINK C NLE A 46 N ILE A 47 1555 1555 1.33 LINK C ILE A 50 O2 GOA A 51 1555 1555 1.35 LINK C GOA A 51 N GLY A 52 1555 1555 1.33 LINK C ILE A 66 N ABA A 67 1555 1555 1.33 LINK C ABA A 67 N GLY A 68 1555 1555 1.32 LINK C GLY A 94 N ABA A 95 1555 1555 1.32 LINK C ABA A 95 N THR A 96 1555 1555 1.32 LINK C GLU B 35 N NLE B 36 1555 1555 1.33 LINK C NLE B 36 N ASN B 37 1555 1555 1.34 LINK C GLY B 40 N YCM B 41 1555 1555 1.33 LINK C YCM B 41 N TRP B 42 1555 1555 1.33 LINK C LYS B 45 N NLE B 46 1555 1555 1.33 LINK C NLE B 46 N ILE B 47 1555 1555 1.33 LINK C ILE B 50 O2 GOA B 51 1555 1555 1.35 LINK C GOA B 51 N GLY B 52 1555 1555 1.33 LINK C ILE B 66 N ABA B 67 1555 1555 1.33 LINK C ABA B 67 N GLY B 68 1555 1555 1.33 LINK C GLY B 94 N ABA B 95 1555 1555 1.33 LINK C ABA B 95 N THR B 96 1555 1555 1.32 SITE 1 AC1 25 ARG A 8 LEU A 23 ASP A 25 GLY A 27 SITE 2 AC1 25 ALA A 28 ASP A 29 ASP A 30 GLY A 48 SITE 3 AC1 25 VAL A 82 HOH A 301 HOH A 313 HOH A 321 SITE 4 AC1 25 HOH A 339 ARG B 8 ASP B 25 GLY B 27 SITE 5 AC1 25 ALA B 28 ASP B 29 ASP B 30 ILE B 47 SITE 6 AC1 25 GLY B 48 GLY B 49 VAL B 82 HOH B 103 SITE 7 AC1 25 HOH B 127 SITE 1 AC2 3 LYS A 45 NLE A 46 HOH B 108 SITE 1 AC3 8 ARG A 14 GLY A 16 GLY A 17 HOH A 323 SITE 2 AC3 8 HOH A 331 ARG B 14 HOH B 173 HOH B 348 SITE 1 AC4 6 GLY A 52 PHE A 53 HIS A 69 HOH A 324 SITE 2 AC4 6 GLN B 92 HOH B 121 CRYST1 51.303 57.682 61.745 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.019492 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017336 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016196 0.00000