HEADER HYDROLASE 29-MAY-24 9FIO TITLE STRUCTURE-GUIDED DISCOVERY OF SELECTIVE USP7 INHIBITORS WITH IN VIVO TITLE 2 ACTIVITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DEUBIQUITINATING ENZYME 7,HERPESVIRUS-ASSOCIATED UBIQUITIN- COMPND 5 SPECIFIC PROTEASE,UBIQUITIN THIOESTERASE 7,UBIQUITIN-SPECIFIC- COMPND 6 PROCESSING PROTEASE 7; COMPND 7 EC: 3.4.19.12; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: USP7, HAUSP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI O111:NM STR. 01-3076; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 1446512; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS HAUSP, USP7, SBDD, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.M.BAKER,J.MURRAY,R.E.HUBBARD,N.WHITEHEAD REVDAT 1 06-NOV-24 9FIO 0 JRNL AUTH A.VASAS,L.IVANSCHITZ,B.MOLNAR,A.KISS,L.BAKER,A.FIUMANA, JRNL AUTH 2 A.MACIAS,J.B.MURRAY,E.SANDERS,N.WHITEHEAD,R.E.HUBBARD, JRNL AUTH 3 C.SAUNIER,E.MONCEAU,A.M.GIRARD,M.ROUSSEAU,M.CHANRION, JRNL AUTH 4 D.DEMARLES,O.GENESTE,C.WEBER,E.LEWKOWICZ,A.KOTSCHY JRNL TITL STRUCTURE-GUIDED DISCOVERY OF SELECTIVE USP7 INHIBITORS WITH JRNL TITL 2 IN VIVO ACTIVITY. JRNL REF J.MED.CHEM. 2024 JRNL REFN ISSN 0022-2623 JRNL PMID 39441669 JRNL DOI 10.1021/ACS.JMEDCHEM.4C01472 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 24986 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : 0.321 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.075 REMARK 3 FREE R VALUE TEST SET COUNT : 1268 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1732 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.5070 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.4940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5387 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 35 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 89.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.37100 REMARK 3 B22 (A**2) : 1.84400 REMARK 3 B33 (A**2) : -0.70800 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.22400 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.410 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.348 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.138 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5567 ; 0.015 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 5236 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7503 ; 2.522 ; 1.856 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12104 ; 0.814 ; 1.789 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 658 ; 8.083 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 30 ;16.225 ; 7.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1018 ;20.975 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 800 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6441 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1257 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1141 ; 0.234 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 36 ; 0.245 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2567 ; 0.195 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 160 ; 0.181 ; 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): 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): 2650 ;14.978 ; 8.622 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2650 ;14.978 ; 8.623 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3299 ;18.116 ;15.488 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3300 ;18.117 ;15.489 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2917 ;16.233 ; 9.317 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2918 ;16.230 ; 9.317 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4203 ;19.787 ;16.713 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4204 ;19.785 ;16.712 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 209 A 554 NULL REMARK 3 1 A 209 A 554 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9FIO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-MAY-24. REMARK 100 THE DEPOSITION ID IS D_1292138956. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99294 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.460 REMARK 200 RESOLUTION RANGE LOW (A) : 29.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 1.810 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.10600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.830 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 3350, 0.6 M SODIUM FORMATE, 10 REMARK 280 MM DTT, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.95500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLY A 206 REMARK 465 SER A 207 REMARK 465 LYS A 208 REMARK 465 ASP A 412 REMARK 465 PRO A 413 REMARK 465 GLN A 414 REMARK 465 THR A 415 REMARK 465 ASN A 460 REMARK 465 HIS A 461 REMARK 465 ASP A 502 REMARK 465 ASP A 503 REMARK 465 ASP A 504 REMARK 465 LEU A 505 REMARK 465 SER A 506 REMARK 465 VAL A 507 REMARK 465 ARG A 508 REMARK 465 HIS A 509 REMARK 465 ARG A 555 REMARK 465 LYS A 556 REMARK 465 GLU A 557 REMARK 465 ARG A 558 REMARK 465 GLN A 559 REMARK 465 GLU A 560 REMARK 465 GLY B 206 REMARK 465 SER B 207 REMARK 465 LYS B 208 REMARK 465 TYR B 411 REMARK 465 ASP B 412 REMARK 465 PRO B 413 REMARK 465 GLN B 414 REMARK 465 ASN B 460 REMARK 465 HIS B 461 REMARK 465 ASP B 502 REMARK 465 ASP B 503 REMARK 465 ASP B 504 REMARK 465 LEU B 505 REMARK 465 SER B 506 REMARK 465 VAL B 507 REMARK 465 ARG B 508 REMARK 465 HIS B 509 REMARK 465 ARG B 555 REMARK 465 LYS B 556 REMARK 465 GLU B 557 REMARK 465 ARG B 558 REMARK 465 GLN B 559 REMARK 465 GLU B 560 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 HIS A 384 HE22 GLN A 387 1.48 REMARK 500 OG SER B 252 HH21 ARG B 543 1.52 REMARK 500 O HIS B 384 HE22 GLN B 387 1.54 REMARK 500 O HIS B 384 NE2 GLN B 387 2.18 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 GLU A 492 CD GLU A 492 OE2 0.070 REMARK 500 GLU B 426 CD GLU B 426 OE1 0.070 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 272 N - CA - CB ANGL. DEV. = -11.6 DEGREES REMARK 500 MET A 292 CG - SD - CE ANGL. DEV. = 12.1 DEGREES REMARK 500 LEU A 398 CB - CG - CD1 ANGL. DEV. = -11.0 DEGREES REMARK 500 LEU A 398 CB - CG - CD2 ANGL. DEV. = 12.3 DEGREES REMARK 500 MET A 407 CG - SD - CE ANGL. DEV. = 13.1 DEGREES REMARK 500 ARG A 408 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 408 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 MET A 410 CG - SD - CE ANGL. DEV. = 9.8 DEGREES REMARK 500 GLU A 426 OE1 - CD - OE2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 487 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 GLU A 492 OE1 - CD - OE2 ANGL. DEV. = 10.5 DEGREES REMARK 500 ARG A 520 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 543 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 THR B 231 OG1 - CB - CG2 ANGL. DEV. = -18.6 DEGREES REMARK 500 MET B 292 CG - SD - CE ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG B 301 CB - CA - C ANGL. DEV. = 13.6 DEGREES REMARK 500 ARG B 301 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG B 344 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 GLU B 362 CG - CD - OE2 ANGL. DEV. = -13.1 DEGREES REMARK 500 LEU B 398 CB - CG - CD1 ANGL. DEV. = -10.2 DEGREES REMARK 500 LEU B 398 CB - CG - CD2 ANGL. DEV. = 11.9 DEGREES REMARK 500 MET B 407 CG - SD - CE ANGL. DEV. = 11.7 DEGREES REMARK 500 ARG B 424 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 GLU B 426 OE1 - CD - OE2 ANGL. DEV. = 9.5 DEGREES REMARK 500 VAL B 467 N - CA - CB ANGL. DEV. = 13.7 DEGREES REMARK 500 GLU B 492 OE1 - CD - OE2 ANGL. DEV. = 8.8 DEGREES REMARK 500 MET B 515 CG - SD - CE ANGL. DEV. = 13.4 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 CYS A 223 -110.76 60.61 REMARK 500 THR A 235 69.56 -100.00 REMARK 500 PRO A 246 74.57 -65.52 REMARK 500 THR A 247 42.75 -100.45 REMARK 500 SER A 252 1.66 -68.06 REMARK 500 PRO A 273 129.33 -37.57 REMARK 500 GLU A 336 -85.29 -73.90 REMARK 500 ARG A 343 142.39 179.57 REMARK 500 GLU A 345 112.26 -161.84 REMARK 500 ASN A 422 20.29 -149.82 REMARK 500 PRO A 471 -37.07 -39.83 REMARK 500 ASP A 481 62.94 -108.17 REMARK 500 ASP A 482 -92.21 74.01 REMARK 500 ILE A 494 -86.30 -94.60 REMARK 500 CYS B 223 -118.05 64.28 REMARK 500 PRO B 246 76.09 -67.91 REMARK 500 THR B 247 44.88 -105.88 REMARK 500 GLU B 336 -78.86 -85.23 REMARK 500 GLU B 345 113.55 -160.96 REMARK 500 ASN B 422 21.13 -144.61 REMARK 500 ASP B 441 98.94 -160.33 REMARK 500 ASP B 481 72.69 -106.27 REMARK 500 ASP B 482 -94.49 67.59 REMARK 500 ILE B 494 -88.65 -98.62 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 ARG A 325 0.08 SIDE CHAIN REMARK 500 ARG A 340 0.09 SIDE CHAIN REMARK 500 ARG A 424 0.12 SIDE CHAIN REMARK 500 ARG B 262 0.09 SIDE CHAIN REMARK 500 ARG B 424 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9FIO A 208 560 UNP Q93009 UBP7_HUMAN 208 560 DBREF 9FIO B 208 560 UNP Q93009 UBP7_HUMAN 208 560 SEQADV 9FIO GLY A 206 UNP Q93009 EXPRESSION TAG SEQADV 9FIO SER A 207 UNP Q93009 EXPRESSION TAG SEQADV 9FIO GLY B 206 UNP Q93009 EXPRESSION TAG SEQADV 9FIO SER B 207 UNP Q93009 EXPRESSION TAG SEQRES 1 A 355 GLY SER LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN SEQRES 2 A 355 GLN GLY ALA THR CYS TYR MET ASN SER LEU LEU GLN THR SEQRES 3 A 355 LEU PHE PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET SEQRES 4 A 355 MET PRO THR GLU GLY ASP ASP SER SER LYS SER VAL PRO SEQRES 5 A 355 LEU ALA LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER SEQRES 6 A 355 ASP LYS PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE SEQRES 7 A 355 GLY TRP GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL SEQRES 8 A 355 GLN GLU LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN SEQRES 9 A 355 LYS MET LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS SEQRES 10 A 355 LEU PHE ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS SEQRES 11 A 355 GLU VAL ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR SEQRES 12 A 355 ASP ILE GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE SEQRES 13 A 355 GLU SER PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP SEQRES 14 A 355 GLY ASP ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN SEQRES 15 A 355 GLU ALA GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO SEQRES 16 A 355 VAL LEU HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO SEQRES 17 A 355 GLN THR ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU SEQRES 18 A 355 PHE PRO GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS SEQRES 19 A 355 THR ASP PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA SEQRES 20 A 355 VAL LEU VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR SEQRES 21 A 355 VAL VAL TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS SEQRES 22 A 355 LYS PHE ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU SEQRES 23 A 355 GLU ALA ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP SEQRES 24 A 355 LEU SER VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL SEQRES 25 A 355 TYR ILE ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA SEQRES 26 A 355 VAL THR ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG SEQRES 27 A 355 LEU GLN GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS SEQRES 28 A 355 GLU ARG GLN GLU SEQRES 1 B 355 GLY SER LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN SEQRES 2 B 355 GLN GLY ALA THR CYS TYR MET ASN SER LEU LEU GLN THR SEQRES 3 B 355 LEU PHE PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET SEQRES 4 B 355 MET PRO THR GLU GLY ASP ASP SER SER LYS SER VAL PRO SEQRES 5 B 355 LEU ALA LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER SEQRES 6 B 355 ASP LYS PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE SEQRES 7 B 355 GLY TRP GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL SEQRES 8 B 355 GLN GLU LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN SEQRES 9 B 355 LYS MET LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS SEQRES 10 B 355 LEU PHE ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS SEQRES 11 B 355 GLU VAL ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR SEQRES 12 B 355 ASP ILE GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE SEQRES 13 B 355 GLU SER PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP SEQRES 14 B 355 GLY ASP ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN SEQRES 15 B 355 GLU ALA GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO SEQRES 16 B 355 VAL LEU HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO SEQRES 17 B 355 GLN THR ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU SEQRES 18 B 355 PHE PRO GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS SEQRES 19 B 355 THR ASP PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA SEQRES 20 B 355 VAL LEU VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR SEQRES 21 B 355 VAL VAL TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS SEQRES 22 B 355 LYS PHE ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU SEQRES 23 B 355 GLU ALA ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP SEQRES 24 B 355 LEU SER VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL SEQRES 25 B 355 TYR ILE ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA SEQRES 26 B 355 VAL THR ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG SEQRES 27 B 355 LEU GLN GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS SEQRES 28 B 355 GLU ARG GLN GLU HET R4D A 601 57 HET R4D B 601 57 HETNAM R4D 3-({4-HYDROXY-1-[(2R)-2-METHYL-3- HETNAM 2 R4D PHENYLPROPANOYL]PIPERIDIN-4-YL}METHYL)QUINAZOLIN- HETNAM 3 R4D 4(3H)-ONE FORMUL 3 R4D 2(C24 H27 N3 O3) FORMUL 5 HOH *35(H2 O) HELIX 1 AA1 TYR A 224 PHE A 234 1 11 HELIX 2 AA2 THR A 235 MET A 244 1 10 HELIX 3 AA3 SER A 255 SER A 270 1 16 HELIX 4 AA4 THR A 276 GLY A 284 1 9 HELIX 5 AA5 ASP A 295 MET A 311 1 17 HELIX 6 AA6 GLY A 318 ARG A 325 1 8 HELIX 7 AA7 ASN A 359 ALA A 369 1 11 HELIX 8 AA8 ASP A 374 LYS A 378 5 5 HELIX 9 AA9 GLY A 382 HIS A 384 5 3 HELIX 10 AB1 ASP A 434 LEU A 437 5 4 HELIX 11 AB2 THR A 489 ILE A 494 1 6 HELIX 12 AB3 GLU A 495 TYR A 498 5 4 HELIX 13 AB4 LYS A 523 LEU A 528 1 6 HELIX 14 AB5 THR A 532 ILE A 536 5 5 HELIX 15 AB6 PRO A 537 LYS A 554 1 18 HELIX 16 AB7 TYR B 224 PHE B 234 1 11 HELIX 17 AB8 THR B 235 MET B 244 1 10 HELIX 18 AB9 SER B 255 SER B 270 1 16 HELIX 19 AC1 THR B 276 GLY B 284 1 9 HELIX 20 AC2 SER B 290 HIS B 294 5 5 HELIX 21 AC3 ASP B 295 MET B 311 1 17 HELIX 22 AC4 GLY B 318 ARG B 325 1 8 HELIX 23 AC5 ASN B 359 ALA B 369 1 11 HELIX 24 AC6 ASP B 374 LYS B 378 5 5 HELIX 25 AC7 GLY B 382 HIS B 384 5 3 HELIX 26 AC8 ASP B 434 LEU B 437 5 4 HELIX 27 AC9 THR B 489 ILE B 494 1 6 HELIX 28 AD1 GLU B 495 TYR B 498 5 4 HELIX 29 AD2 LYS B 523 LEU B 528 1 6 HELIX 30 AD3 THR B 532 ILE B 536 5 5 HELIX 31 AD4 PRO B 537 LYS B 554 1 18 SHEET 1 AA1 3 ARG A 340 SER A 341 0 SHEET 2 AA1 3 GLY A 326 CYS A 334 -1 N ILE A 332 O SER A 341 SHEET 3 AA1 3 ARG A 344 TYR A 347 -1 O TYR A 347 N GLY A 326 SHEET 1 AA2 4 ARG A 340 SER A 341 0 SHEET 2 AA2 4 GLY A 326 CYS A 334 -1 N ILE A 332 O SER A 341 SHEET 3 AA2 4 ALA A 389 THR A 397 -1 O GLU A 390 N GLN A 333 SHEET 4 AA2 4 GLU A 371 LEU A 373 -1 N GLU A 371 O LYS A 391 SHEET 1 AA3 5 ILE A 350 LEU A 352 0 SHEET 2 AA3 5 VAL A 401 LEU A 406 1 O GLN A 405 N ILE A 350 SHEET 3 AA3 5 THR A 511 ARG A 520 -1 O TYR A 514 N LEU A 406 SHEET 4 AA3 5 ASN A 447 SER A 457 -1 N ILE A 449 O ILE A 519 SHEET 5 AA3 5 GLN A 430 PRO A 432 -1 N LEU A 431 O TYR A 448 SHEET 1 AA4 7 ILE A 350 LEU A 352 0 SHEET 2 AA4 7 VAL A 401 LEU A 406 1 O GLN A 405 N ILE A 350 SHEET 3 AA4 7 THR A 511 ARG A 520 -1 O TYR A 514 N LEU A 406 SHEET 4 AA4 7 ASN A 447 SER A 457 -1 N ILE A 449 O ILE A 519 SHEET 5 AA4 7 TYR A 465 LEU A 469 -1 O TYR A 468 N VAL A 453 SHEET 6 AA4 7 TRP A 477 ASP A 481 -1 O CYS A 478 N LEU A 469 SHEET 7 AA4 7 VAL A 484 CYS A 488 -1 O VAL A 484 N ASP A 481 SHEET 1 AA5 2 TYR A 379 ASP A 380 0 SHEET 2 AA5 2 LEU A 386 GLN A 387 -1 O GLN A 387 N TYR A 379 SHEET 1 AA6 2 PHE A 409 MET A 410 0 SHEET 2 AA6 2 ILE A 419 LYS A 420 -1 O ILE A 419 N MET A 410 SHEET 1 AA7 3 ARG B 340 SER B 341 0 SHEET 2 AA7 3 GLY B 326 CYS B 334 -1 N ILE B 332 O SER B 341 SHEET 3 AA7 3 ARG B 344 TYR B 347 -1 O TYR B 347 N GLY B 326 SHEET 1 AA8 4 ARG B 340 SER B 341 0 SHEET 2 AA8 4 GLY B 326 CYS B 334 -1 N ILE B 332 O SER B 341 SHEET 3 AA8 4 ALA B 389 THR B 397 -1 O GLU B 390 N GLN B 333 SHEET 4 AA8 4 GLU B 371 LEU B 373 -1 N GLU B 371 O LYS B 391 SHEET 1 AA9 5 ILE B 350 LEU B 352 0 SHEET 2 AA9 5 VAL B 401 LEU B 406 1 O GLN B 405 N ILE B 350 SHEET 3 AA9 5 THR B 511 ARG B 520 -1 O TYR B 514 N LEU B 406 SHEET 4 AA9 5 ASN B 447 SER B 457 -1 N ILE B 449 O ILE B 519 SHEET 5 AA9 5 GLN B 430 PRO B 432 -1 N LEU B 431 O TYR B 448 SHEET 1 AB1 7 ILE B 350 LEU B 352 0 SHEET 2 AB1 7 VAL B 401 LEU B 406 1 O GLN B 405 N ILE B 350 SHEET 3 AB1 7 THR B 511 ARG B 520 -1 O TYR B 514 N LEU B 406 SHEET 4 AB1 7 ASN B 447 SER B 457 -1 N ILE B 449 O ILE B 519 SHEET 5 AB1 7 TYR B 465 LEU B 469 -1 O VAL B 466 N VAL B 455 SHEET 6 AB1 7 TRP B 477 ASP B 481 -1 O CYS B 478 N LEU B 469 SHEET 7 AB1 7 VAL B 484 CYS B 488 -1 O VAL B 484 N ASP B 481 SHEET 1 AB2 2 TYR B 379 ASP B 380 0 SHEET 2 AB2 2 LEU B 386 GLN B 387 -1 O GLN B 387 N TYR B 379 SHEET 1 AB3 2 PHE B 409 MET B 410 0 SHEET 2 AB3 2 ILE B 419 LYS B 420 -1 O ILE B 419 N MET B 410 SSBOND 1 CYS A 315 CYS B 315 1555 1454 2.91 CRYST1 106.260 69.910 75.550 90.00 132.31 90.00 P 1 21 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 0.009411 0.000000 0.008566 0.00000 SCALE2 0.000000 0.014304 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017898 0.00000