HEADER HYDROLASE 27-FEB-17 5N9T TITLE CRYSTAL STRUCTURE OF USP7 IN COMPLEX WITH A POTENT, SELECTIVE AND TITLE 2 REVERSIBLE SMALL-MOLECULE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 207-560; COMPND 5 SYNONYM: DEUBIQUITINATING ENZYME 7,HERPESVIRUS-ASSOCIATED UBIQUITIN- COMPND 6 SPECIFIC PROTEASE,UBIQUITIN THIOESTERASE 7,UBIQUITIN-SPECIFIC- COMPND 7 PROCESSING PROTEASE 7; COMPND 8 EC: 3.4.19.12; COMPND 9 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS USP7, REVERSIBLE, INHIBITOR, SELECTIVE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.HARRISON,G.GAVORY,C.O'DOWD,M.HELM,J.FLASZ,E.ARKOUDIS,A.DOSSANG, AUTHOR 2 C.HUGHES,E.CASSIDY,K.MCCLELLAND,E.ODRZYWOL,N.PAGE,O.BARKER,H.MIEL REVDAT 4 17-JAN-24 5N9T 1 REMARK REVDAT 3 24-JAN-18 5N9T 1 JRNL REVDAT 2 13-DEC-17 5N9T 1 JRNL REVDAT 1 06-DEC-17 5N9T 0 JRNL AUTH G.GAVORY,C.R.O'DOWD,M.D.HELM,J.FLASZ,E.ARKOUDIS,A.DOSSANG, JRNL AUTH 2 C.HUGHES,E.CASSIDY,K.MCCLELLAND,E.ODRZYWOL,N.PAGE,O.BARKER, JRNL AUTH 3 H.MIEL,T.HARRISON JRNL TITL DISCOVERY AND CHARACTERIZATION OF HIGHLY POTENT AND JRNL TITL 2 SELECTIVE ALLOSTERIC USP7 INHIBITORS. JRNL REF NAT. CHEM. BIOL. V. 14 118 2018 JRNL REFN ESSN 1552-4469 JRNL PMID 29200206 JRNL DOI 10.1038/NCHEMBIO.2528 REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 73492 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3826 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) : 1.73 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5395 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3120 REMARK 3 BIN FREE R VALUE SET COUNT : 248 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5717 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 115 REMARK 3 SOLVENT ATOMS : 880 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.86000 REMARK 3 B22 (A**2) : -0.78000 REMARK 3 B33 (A**2) : -0.73000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.35000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.123 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.528 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6071 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5488 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8223 ; 1.475 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12840 ; 0.995 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 736 ; 6.201 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 317 ;39.501 ;25.047 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1110 ;15.538 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;14.438 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 870 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6725 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1194 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 4 REMARK 4 5N9T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1200003741. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-FEB-15 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.965 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77752 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 29.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5N9R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, LI2 SULFATE, TRIS, PH 8.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 33.81150 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 ALA B 552 REMARK 465 GLN B 553 REMARK 465 LYS B 554 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 465 HIS B 561 REMARK 465 HIS B 562 REMARK 465 HIS B 563 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 1108 O HOH B 1189 1.62 REMARK 500 O HOH B 1388 O HOH B 1391 1.63 REMARK 500 ND2 ASN B 422 O HOH B 1101 1.87 REMARK 500 O HOH A 1443 O HOH A 1483 2.01 REMARK 500 O HOH A 1119 O HOH A 1365 2.06 REMARK 500 O HOH A 1417 O HOH A 1421 2.08 REMARK 500 O1 SO4 A 1001 O HOH A 1104 2.11 REMARK 500 O HOH A 1124 O HOH A 1232 2.11 REMARK 500 O HOH A 1347 O HOH A 1440 2.11 REMARK 500 O HOH A 1468 O HOH B 1388 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1242 O HOH A 1436 1655 2.12 REMARK 500 O HOH B 1182 O HOH B 1454 2546 2.16 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 -115.83 54.83 REMARK 500 GLN A 417 176.45 170.40 REMARK 500 GLN A 417 174.00 172.08 REMARK 500 ASP A 482 -114.71 49.24 REMARK 500 ILE A 494 -91.09 -101.44 REMARK 500 ASN B 218 134.73 -32.66 REMARK 500 CYS B 223 -117.41 60.45 REMARK 500 SER B 252 -29.66 -39.08 REMARK 500 SER B 252 -31.36 -37.26 REMARK 500 SER B 253 23.61 -153.29 REMARK 500 TRP B 285 76.62 -107.22 REMARK 500 PHE B 409 79.63 -118.06 REMARK 500 ASP B 482 -110.55 45.86 REMARK 500 ILE B 494 -86.22 -108.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1565 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1566 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A1567 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH B1511 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH B1512 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH B1513 DISTANCE = 6.19 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8QQ A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8QQ B 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5N9R RELATED DB: PDB REMARK 900 5N9R CONTAINS THE SAME PROTEIN COMPLEXED WITH A DIFFERENT LIGAND DBREF 5N9T A 207 560 UNP Q93009 UBP7_HUMAN 207 560 DBREF 5N9T B 207 560 UNP Q93009 UBP7_HUMAN 207 560 SEQADV 5N9T HIS A 561 UNP Q93009 EXPRESSION TAG SEQADV 5N9T HIS A 562 UNP Q93009 EXPRESSION TAG SEQADV 5N9T HIS A 563 UNP Q93009 EXPRESSION TAG SEQADV 5N9T HIS B 561 UNP Q93009 EXPRESSION TAG SEQADV 5N9T HIS B 562 UNP Q93009 EXPRESSION TAG SEQADV 5N9T HIS B 563 UNP Q93009 EXPRESSION TAG SEQRES 1 A 357 SER LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN SEQRES 2 A 357 GLY ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU SEQRES 3 A 357 PHE PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET SEQRES 4 A 357 PRO THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU SEQRES 5 A 357 ALA LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP SEQRES 6 A 357 LYS PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY SEQRES 7 A 357 TRP GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN SEQRES 8 A 357 GLU LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS SEQRES 9 A 357 MET LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU SEQRES 10 A 357 PHE ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU SEQRES 11 A 357 VAL ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP SEQRES 12 A 357 ILE GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SEQRES 13 A 357 SER PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY SEQRES 14 A 357 ASP ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU SEQRES 15 A 357 ALA GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL SEQRES 16 A 357 LEU HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN SEQRES 17 A 357 THR ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE SEQRES 18 A 357 PRO GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR SEQRES 19 A 357 ASP PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL SEQRES 20 A 357 LEU VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL SEQRES 21 A 357 VAL TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS SEQRES 22 A 357 PHE ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU SEQRES 23 A 357 ALA ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SEQRES 24 A 357 SER VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR SEQRES 25 A 357 ILE ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL SEQRES 26 A 357 THR ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU SEQRES 27 A 357 GLN GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU SEQRES 28 A 357 ARG GLN GLU HIS HIS HIS SEQRES 1 B 357 SER LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN SEQRES 2 B 357 GLY ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU SEQRES 3 B 357 PHE PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET SEQRES 4 B 357 PRO THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU SEQRES 5 B 357 ALA LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP SEQRES 6 B 357 LYS PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY SEQRES 7 B 357 TRP GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN SEQRES 8 B 357 GLU LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS SEQRES 9 B 357 MET LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU SEQRES 10 B 357 PHE ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU SEQRES 11 B 357 VAL ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP SEQRES 12 B 357 ILE GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SEQRES 13 B 357 SER PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY SEQRES 14 B 357 ASP ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU SEQRES 15 B 357 ALA GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL SEQRES 16 B 357 LEU HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN SEQRES 17 B 357 THR ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE SEQRES 18 B 357 PRO GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR SEQRES 19 B 357 ASP PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL SEQRES 20 B 357 LEU VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL SEQRES 21 B 357 VAL TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS SEQRES 22 B 357 PHE ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU SEQRES 23 B 357 ALA ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SEQRES 24 B 357 SER VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR SEQRES 25 B 357 ILE ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL SEQRES 26 B 357 THR ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU SEQRES 27 B 357 GLN GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU SEQRES 28 B 357 ARG GLN GLU HIS HIS HIS HET SO4 A1001 5 HET GOL A1002 6 HET GOL A1003 6 HET GOL A1004 6 HET 8QQ A1005 41 HET SO4 B1001 5 HET SO4 B1002 5 HET 8QQ B1003 41 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM 8QQ 3-[4-(AMINOMETHYL)PHENYL]-2-METHYL-6-[[4-OXIDANYL-1- HETNAM 2 8QQ [(3~{R})-4,4,4-TRIS(FLUORANYL)-3-PHENYL- HETNAM 3 8QQ BUTANOYL]PIPERIDIN-4-YL]METHYL]PYRAZOLO[4,3- HETNAM 4 8QQ D]PYRIMIDIN-7-ONE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 SO4 3(O4 S 2-) FORMUL 4 GOL 3(C3 H8 O3) FORMUL 7 8QQ 2(C29 H31 F3 N6 O3) FORMUL 11 HOH *880(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 THR A 287 GLN A 293 1 7 HELIX 6 AA6 ASP A 295 MET A 311 1 17 HELIX 7 AA7 GLY A 318 ARG A 325 1 8 HELIX 8 AA8 ASN A 359 VAL A 368 1 10 HELIX 9 AA9 ASP A 374 LYS A 378 5 5 HELIX 10 AB1 GLY A 382 HIS A 384 5 3 HELIX 11 AB2 ASP A 434 LEU A 437 5 4 HELIX 12 AB3 THR A 489 ILE A 494 1 6 HELIX 13 AB4 GLU A 495 TYR A 498 5 4 HELIX 14 AB5 LYS A 523 LEU A 528 1 6 HELIX 15 AB6 THR A 532 ILE A 536 5 5 HELIX 16 AB7 PRO A 537 HIS A 563 1 27 HELIX 17 AB8 TYR B 224 PHE B 234 1 11 HELIX 18 AB9 THR B 235 MET B 245 1 11 HELIX 19 AC1 SER B 255 SER B 270 1 16 HELIX 20 AC2 THR B 276 GLY B 284 1 9 HELIX 21 AC3 THR B 287 GLN B 293 1 7 HELIX 22 AC4 ASP B 295 LYS B 312 1 18 HELIX 23 AC5 GLY B 318 ARG B 325 1 8 HELIX 24 AC6 ASN B 359 VAL B 368 1 10 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 GLU B 551 1 15 SHEET 1 AA1 4 ARG A 340 TYR A 347 0 SHEET 2 AA1 4 GLY A 326 CYS A 334 -1 N SER A 330 O ARG A 343 SHEET 3 AA1 4 ALA A 389 PHE A 395 -1 O GLU A 390 N GLN A 333 SHEET 4 AA1 4 GLU A 371 LEU A 373 -1 N LEU A 373 O ALA A 389 SHEET 1 AA2 5 ILE A 350 LEU A 352 0 SHEET 2 AA2 5 VAL A 401 LEU A 406 1 O GLN A 405 N LEU A 352 SHEET 3 AA2 5 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 AA2 5 ASN A 447 SER A 457 -1 N HIS A 451 O VAL A 517 SHEET 5 AA2 5 GLN A 430 PRO A 432 -1 N LEU A 431 O TYR A 448 SHEET 1 AA3 7 ILE A 350 LEU A 352 0 SHEET 2 AA3 7 VAL A 401 LEU A 406 1 O GLN A 405 N LEU A 352 SHEET 3 AA3 7 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 AA3 7 ASN A 447 SER A 457 -1 N HIS A 451 O VAL A 517 SHEET 5 AA3 7 HIS A 464 LEU A 469 -1 O VAL A 466 N VAL A 455 SHEET 6 AA3 7 TRP A 477 ASP A 481 -1 O PHE A 480 N VAL A 467 SHEET 7 AA3 7 VAL A 484 CYS A 488 -1 O VAL A 484 N ASP A 481 SHEET 1 AA4 2 TYR A 379 ASP A 380 0 SHEET 2 AA4 2 LEU A 386 GLN A 387 -1 O GLN A 387 N TYR A 379 SHEET 1 AA5 2 PHE A 409 ASP A 412 0 SHEET 2 AA5 2 GLN A 417 LYS A 420 -1 O ILE A 419 N MET A 410 SHEET 1 AA6 4 ARG B 340 TYR B 347 0 SHEET 2 AA6 4 GLY B 326 CYS B 334 -1 N SER B 330 O ARG B 343 SHEET 3 AA6 4 ALA B 389 THR B 397 -1 O GLU B 390 N GLN B 333 SHEET 4 AA6 4 GLU B 371 LEU B 373 -1 N LEU B 373 O ALA B 389 SHEET 1 AA7 5 ILE B 350 LEU B 352 0 SHEET 2 AA7 5 VAL B 401 LEU B 406 1 O GLN B 405 N LEU B 352 SHEET 3 AA7 5 THR B 511 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 AA7 5 ASN B 447 SER B 457 -1 N HIS B 451 O VAL B 517 SHEET 5 AA7 5 GLN B 430 PRO B 432 -1 N LEU B 431 O TYR B 448 SHEET 1 AA8 7 ILE B 350 LEU B 352 0 SHEET 2 AA8 7 VAL B 401 LEU B 406 1 O GLN B 405 N LEU B 352 SHEET 3 AA8 7 THR B 511 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 AA8 7 ASN B 447 SER B 457 -1 N HIS B 451 O VAL B 517 SHEET 5 AA8 7 HIS B 464 LEU B 469 -1 O TYR B 468 N VAL B 453 SHEET 6 AA8 7 TRP B 477 ASP B 481 -1 O CYS B 478 N LEU B 469 SHEET 7 AA8 7 VAL B 484 CYS B 488 -1 O SER B 486 N LYS B 479 SHEET 1 AA9 2 TYR B 379 ASP B 380 0 SHEET 2 AA9 2 LEU B 386 GLN B 387 -1 O GLN B 387 N TYR B 379 SHEET 1 AB1 2 PHE B 409 ASP B 412 0 SHEET 2 AB1 2 GLN B 417 LYS B 420 -1 O GLN B 417 N ASP B 412 SITE 1 AC1 9 GLN A 219 ARG A 262 GLY A 275 THR A 276 SITE 2 AC1 9 LYS A 277 LYS A 278 HOH A1104 HOH A1109 SITE 3 AC1 9 HOH A1309 SITE 1 AC2 4 ARG A 340 LYS A 394 GLN A 438 LYS B 439 SITE 1 AC3 7 SER A 330 ILE A 332 SER A 341 ASP A 342 SITE 2 AC3 7 ARG A 343 HOH A1106 HOH A1195 SITE 1 AC4 4 ASP A 295 PHE A 409 HOH A1107 HOH A1112 SITE 1 AC5 17 TYR A 224 ASP A 295 VAL A 296 GLN A 297 SITE 2 AC5 17 GLN A 351 LEU A 406 MET A 407 ARG A 408 SITE 3 AC5 17 PHE A 409 HIS A 456 ASP A 459 ASN A 460 SITE 4 AC5 17 HIS A 461 TYR A 465 TYR A 514 HOH A1276 SITE 5 AC5 17 HOH A1357 SITE 1 AC6 6 GLY B 275 THR B 276 LYS B 277 LYS B 278 SITE 2 AC6 6 HOH B1103 HOH B1168 SITE 1 AC7 5 THR B 489 LYS B 490 HOH B1113 HOH B1121 SITE 2 AC7 5 HOH B1215 SITE 1 AC8 18 TYR B 224 ASP B 295 VAL B 296 GLN B 297 SITE 2 AC8 18 GLN B 351 LEU B 406 MET B 407 ARG B 408 SITE 3 AC8 18 PHE B 409 LYS B 420 HIS B 456 ASP B 459 SITE 4 AC8 18 ASN B 460 HIS B 461 TYR B 465 TYR B 514 SITE 5 AC8 18 HOH B1373 HOH B1374 CRYST1 75.507 67.623 81.046 90.00 105.90 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 0.013244 0.000000 0.003773 0.00000 SCALE2 0.000000 0.014788 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012830 0.00000