HEADER HYDROLASE/INHIBITOR 11-MAY-17 5VSB TITLE STRUCTURE OF DUB COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 192-544; 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: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS DEUBIQUITINASE, INHIBITOR, PROTEIN-INHIBITOR COMPLEX, HYDROLASE- KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.-S.SEO,S.DHE-PAGANON REVDAT 3 13-MAR-24 5VSB 1 REMARK REVDAT 2 03-JAN-18 5VSB 1 JRNL REVDAT 1 20-DEC-17 5VSB 0 JRNL AUTH I.LAMBERTO,X.LIU,H.S.SEO,N.J.SCHAUER,R.E.IACOB,W.HU,D.DAS, JRNL AUTH 2 T.MIKHAILOVA,E.L.WEISBERG,J.R.ENGEN,K.C.ANDERSON,D.CHAUHAN, JRNL AUTH 3 S.DHE-PAGANON,S.J.BUHRLAGE JRNL TITL STRUCTURE-GUIDED DEVELOPMENT OF A POTENT AND SELECTIVE JRNL TITL 2 NON-COVALENT ACTIVE-SITE INHIBITOR OF USP7. JRNL REF CELL CHEM BIOL V. 24 1490 2017 JRNL REFN ESSN 2451-9456 JRNL PMID 29056421 JRNL DOI 10.1016/J.CHEMBIOL.2017.09.003 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2155 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.95 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 64976 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 3226 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.3334 - 5.0152 0.94 3155 168 0.1997 0.2331 REMARK 3 2 5.0152 - 3.9839 0.93 3078 195 0.1648 0.1996 REMARK 3 3 3.9839 - 3.4812 0.95 3094 162 0.1843 0.2143 REMARK 3 4 3.4812 - 3.1633 0.94 3073 183 0.2110 0.2336 REMARK 3 5 3.1633 - 2.9368 0.95 3079 158 0.2312 0.2442 REMARK 3 6 2.9368 - 2.7638 0.95 3131 142 0.2574 0.2583 REMARK 3 7 2.7638 - 2.6255 0.95 3077 163 0.2561 0.2639 REMARK 3 8 2.6255 - 2.5113 0.95 3118 156 0.2742 0.2867 REMARK 3 9 2.5113 - 2.4146 0.95 3062 155 0.2804 0.2936 REMARK 3 10 2.4146 - 2.3314 0.95 3133 146 0.2852 0.3044 REMARK 3 11 2.3314 - 2.2585 0.95 3067 161 0.2818 0.2632 REMARK 3 12 2.2585 - 2.1940 0.96 3096 142 0.2751 0.2857 REMARK 3 13 2.1940 - 2.1362 0.95 3093 142 0.2917 0.2821 REMARK 3 14 2.1362 - 2.0841 0.95 3060 167 0.2887 0.2820 REMARK 3 15 2.0841 - 2.0367 0.94 3058 198 0.2983 0.3141 REMARK 3 16 2.0367 - 1.9934 0.95 3080 139 0.3128 0.3565 REMARK 3 17 1.9934 - 1.9535 0.95 3092 155 0.3183 0.3253 REMARK 3 18 1.9535 - 1.9167 0.96 3119 128 0.3438 0.3662 REMARK 3 19 1.9167 - 1.8825 0.94 3022 161 0.3638 0.3668 REMARK 3 20 1.8825 - 1.8506 0.94 3053 152 0.3890 0.3633 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: 0.1500 REMARK 3 OPERATOR: H,-K,-L REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.001 5470 REMARK 3 ANGLE : 0.462 7400 REMARK 3 CHIRALITY : 0.038 798 REMARK 3 PLANARITY : 0.002 956 REMARK 3 DIHEDRAL : 16.109 3266 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 124.3662 -3.9607 106.4640 REMARK 3 T TENSOR REMARK 3 T11: 0.1814 T22: 0.1247 REMARK 3 T33: 0.1506 T12: 0.0258 REMARK 3 T13: -0.0002 T23: -0.0145 REMARK 3 L TENSOR REMARK 3 L11: 0.3492 L22: 0.3050 REMARK 3 L33: 0.2681 L12: 0.0389 REMARK 3 L13: 0.0148 L23: -0.0410 REMARK 3 S TENSOR REMARK 3 S11: -0.0053 S12: 0.0409 S13: 0.0245 REMARK 3 S21: -0.0196 S22: -0.0106 S23: -0.0096 REMARK 3 S31: 0.0404 S32: 0.0161 S33: -0.0001 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5VSB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227930. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-15 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 : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64979 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 61.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 1.22500 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, NAFORMATE, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K 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 36.87000 REMARK 290 SMTRY3 2 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 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 LYS A 208 REMARK 465 LYS A 209 REMARK 465 HIS A 210 REMARK 465 HIS A 501 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 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 ARG B 549 REMARK 465 ILE B 550 REMARK 465 GLU B 551 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 240 CG CD CE NZ REMARK 470 GLU A 336 CG CD OE1 OE2 REMARK 470 VAL A 337 CG1 CG2 REMARK 470 ASP A 338 CG OD1 OD2 REMARK 470 ARG A 344 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 376 CG OD1 OD2 REMARK 470 ASN A 377 CG OD1 ND2 REMARK 470 LYS A 378 CG CD CE NZ REMARK 470 ASP A 380 CG OD1 OD2 REMARK 470 HIS A 384 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 386 CG CD1 CD2 REMARK 470 GLN A 387 CG CD OE1 NE2 REMARK 470 GLN A 414 CG CD OE1 NE2 REMARK 470 GLN A 417 CG CD OE1 NE2 REMARK 470 ASP A 441 CG OD1 OD2 REMARK 470 LYS A 443 CG CD CE NZ REMARK 470 ASP A 459 CG OD1 OD2 REMARK 470 LYS B 208 CG CD CE NZ REMARK 470 LYS B 209 CG CD CE NZ REMARK 470 LYS B 217 CG CD CE NZ REMARK 470 GLN B 219 CG CD OE1 NE2 REMARK 470 GLU B 286 CG CD OE1 OE2 REMARK 470 LYS B 335 CG CD CE NZ REMARK 470 GLU B 336 CG CD OE1 OE2 REMARK 470 ASP B 338 CG OD1 OD2 REMARK 470 ASP B 374 CG OD1 OD2 REMARK 470 ASP B 376 CG OD1 OD2 REMARK 470 ASN B 377 CG OD1 ND2 REMARK 470 GLU B 388 CG CD OE1 OE2 REMARK 470 GLU B 390 CG CD OE1 OE2 REMARK 470 LYS B 391 CG CD CE NZ REMARK 470 ASP B 412 CG OD1 OD2 REMARK 470 GLN B 414 CG CD OE1 NE2 REMARK 470 THR B 415 OG1 CG2 REMARK 470 ASP B 416 CG OD1 OD2 REMARK 470 GLN B 417 CG CD OE1 NE2 REMARK 470 ILE B 419 CG1 CG2 CD1 REMARK 470 ASP B 459 CG OD1 OD2 REMARK 470 ASN B 460 CG OD1 ND2 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 4148 O HOH B 4230 1.82 REMARK 500 O HOH B 4103 O HOH B 4121 1.84 REMARK 500 O HOH A 4152 O HOH A 4254 1.90 REMARK 500 OG SER A 227 O HOH A 4101 1.90 REMARK 500 N ASP B 459 O HOH B 4101 1.97 REMARK 500 OE1 GLN A 539 O HOH A 4102 1.99 REMARK 500 O LEU A 450 O HOH A 4103 1.99 REMARK 500 O HOH A 4204 O HOH A 4227 2.00 REMARK 500 O HOH A 4217 O HOH A 4227 2.00 REMARK 500 O CYS A 510 O HOH A 4104 2.00 REMARK 500 N THR A 211 O HOH A 4105 2.00 REMARK 500 OD2 ASP A 349 O HOH A 4106 2.00 REMARK 500 OG1 THR B 231 O HOH B 4102 2.01 REMARK 500 O HOH B 4112 O HOH B 4196 2.01 REMARK 500 OG1 THR B 511 O HOH B 4103 2.01 REMARK 500 O HOH A 4105 O HOH A 4245 2.02 REMARK 500 ND2 ASN A 447 O HOH A 4107 2.02 REMARK 500 O HOH A 4251 O HOH A 4255 2.02 REMARK 500 O HOH B 4249 O HOH B 4252 2.02 REMARK 500 O HOH B 4194 O HOH B 4262 2.03 REMARK 500 O HOH A 4119 O HOH A 4220 2.03 REMARK 500 O HOH B 4112 O HOH B 4206 2.04 REMARK 500 O HOH B 4144 O HOH B 4273 2.04 REMARK 500 O HOH B 4170 O HOH B 4183 2.05 REMARK 500 O HOH A 4212 O HOH B 4107 2.05 REMARK 500 O HOH B 4193 O HOH B 4246 2.06 REMARK 500 NE ARG A 301 O HOH A 4106 2.06 REMARK 500 O HOH B 4246 O HOH B 4265 2.07 REMARK 500 O HOH A 4171 O HOH A 4187 2.07 REMARK 500 O HOH A 4231 O HOH A 4249 2.08 REMARK 500 OD2 ASP B 250 NZ LYS B 310 2.08 REMARK 500 O HOH B 4117 O HOH B 4241 2.09 REMARK 500 O HOH A 4102 O HOH A 4163 2.09 REMARK 500 O HOH B 4106 O HOH B 4233 2.11 REMARK 500 O TRP B 285 O HOH B 4104 2.12 REMARK 500 NZ LYS A 322 O HOH A 4108 2.12 REMARK 500 O HOH B 4137 O HOH B 4165 2.13 REMARK 500 O PRO A 445 O HOH A 4109 2.13 REMARK 500 OD1 ASN A 470 O HOH A 4103 2.13 REMARK 500 NE2 HIS B 269 OD1 ASP B 533 2.14 REMARK 500 OE1 GLN B 351 O HOH B 4105 2.14 REMARK 500 O HOH B 4196 O HOH B 4247 2.14 REMARK 500 O HOH B 4164 O HOH B 4266 2.15 REMARK 500 ND2 ASN A 460 O HOH A 4110 2.15 REMARK 500 O HOH B 4171 O HOH B 4264 2.15 REMARK 500 O HOH B 4233 O HOH B 4255 2.16 REMARK 500 O GLY B 462 O HOH B 4101 2.16 REMARK 500 ND1 HIS B 294 OE2 GLU B 298 2.17 REMARK 500 OE1 GLU B 521 O HOH B 4106 2.17 REMARK 500 O HOH A 4185 O HOH B 4272 2.18 REMARK 500 REMARK 500 THIS ENTRY HAS 57 CLOSE CONTACTS 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 4248 O HOH B 4248 1455 2.05 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 -116.37 62.26 REMARK 500 ASP A 374 -20.16 -148.35 REMARK 500 ALA A 381 20.61 -75.43 REMARK 500 ASP A 412 60.51 96.52 REMARK 500 LYS A 443 -15.55 83.01 REMARK 500 ASP A 482 -121.52 62.28 REMARK 500 ILE A 494 -72.98 -113.82 REMARK 500 ALA B 221 52.75 -95.65 REMARK 500 CYS B 223 -117.23 58.55 REMARK 500 LEU B 373 79.49 -101.80 REMARK 500 ASP B 376 74.38 -174.61 REMARK 500 ASN B 377 -48.59 71.42 REMARK 500 GLN B 414 73.74 46.26 REMARK 500 THR B 415 -129.55 48.12 REMARK 500 ASP B 416 -63.31 178.78 REMARK 500 PRO B 442 -170.15 -59.32 REMARK 500 LYS B 443 -5.49 48.93 REMARK 500 ASP B 444 57.88 -155.00 REMARK 500 ASN B 460 -137.72 60.44 REMARK 500 ASP B 481 68.18 -119.18 REMARK 500 ASP B 482 -118.35 64.09 REMARK 500 ILE B 494 -76.77 -109.17 REMARK 500 LEU B 528 33.10 -96.97 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 A4267 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A4268 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH A4269 DISTANCE = 7.43 ANGSTROMS REMARK 525 HOH A4270 DISTANCE = 8.59 ANGSTROMS REMARK 525 HOH B4282 DISTANCE = 8.18 ANGSTROMS REMARK 525 HOH B4283 DISTANCE = 9.75 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9QA A 4000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9QA B 4000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5VS6 RELATED DB: PDB DBREF 5VSB A 208 560 UNP Q93009 UBP7_HUMAN 192 544 DBREF 5VSB B 208 560 UNP Q93009 UBP7_HUMAN 192 544 SEQRES 1 A 353 LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN GLY SEQRES 2 A 353 ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU PHE SEQRES 3 A 353 PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET PRO SEQRES 4 A 353 THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU ALA SEQRES 5 A 353 LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP LYS SEQRES 6 A 353 PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY TRP SEQRES 7 A 353 GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN GLU SEQRES 8 A 353 LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS MET SEQRES 9 A 353 LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU PHE SEQRES 10 A 353 ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU VAL SEQRES 11 A 353 ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP ILE SEQRES 12 A 353 GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SER SEQRES 13 A 353 PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY ASP SEQRES 14 A 353 ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU ALA SEQRES 15 A 353 GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL LEU SEQRES 16 A 353 HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN THR SEQRES 17 A 353 ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE PRO SEQRES 18 A 353 GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR ASP SEQRES 19 A 353 PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL LEU SEQRES 20 A 353 VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL VAL SEQRES 21 A 353 TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS PHE SEQRES 22 A 353 ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU ALA SEQRES 23 A 353 ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SER SEQRES 24 A 353 VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR ILE SEQRES 25 A 353 ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL THR SEQRES 26 A 353 ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU GLN SEQRES 27 A 353 GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU ARG SEQRES 28 A 353 GLN GLU SEQRES 1 B 353 LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN GLY SEQRES 2 B 353 ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU PHE SEQRES 3 B 353 PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET PRO SEQRES 4 B 353 THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU ALA SEQRES 5 B 353 LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP LYS SEQRES 6 B 353 PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY TRP SEQRES 7 B 353 GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN GLU SEQRES 8 B 353 LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS MET SEQRES 9 B 353 LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU PHE SEQRES 10 B 353 ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU VAL SEQRES 11 B 353 ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP ILE SEQRES 12 B 353 GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SER SEQRES 13 B 353 PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY ASP SEQRES 14 B 353 ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU ALA SEQRES 15 B 353 GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL LEU SEQRES 16 B 353 HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN THR SEQRES 17 B 353 ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE PRO SEQRES 18 B 353 GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR ASP SEQRES 19 B 353 PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL LEU SEQRES 20 B 353 VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL VAL SEQRES 21 B 353 TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS PHE SEQRES 22 B 353 ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU ALA SEQRES 23 B 353 ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SER SEQRES 24 B 353 VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR ILE SEQRES 25 B 353 ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL THR SEQRES 26 B 353 ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU GLN SEQRES 27 B 353 GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU ARG SEQRES 28 B 353 GLN GLU HET 9QA A4000 54 HET 9QA B4000 54 HETNAM 9QA 7-CHLORO-3-{[4-HYDROXY-1-(3-PHENYLPROPANOYL)PIPERIDIN- HETNAM 2 9QA 4-YL]METHYL}QUINAZOLIN-4(3H)-ONE FORMUL 3 9QA 2(C23 H24 CL N3 O3) FORMUL 5 HOH *353(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 HIS A 294 1 8 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 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 ALA A 552 1 16 HELIX 16 AB7 TYR B 224 PHE B 234 1 11 HELIX 17 AB8 THR B 235 MET B 245 1 11 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 THR B 287 GLN B 293 1 7 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 THR B 489 ILE B 494 1 6 HELIX 25 AC7 GLU B 495 TYR B 498 5 4 HELIX 26 AC8 LYS B 523 LEU B 528 1 6 HELIX 27 AC9 THR B 532 ILE B 536 5 5 HELIX 28 AD1 PRO B 537 LYS B 548 1 12 SHEET 1 AA1 8 ARG A 340 TYR A 347 0 SHEET 2 AA1 8 GLY A 326 CYS A 334 -1 N GLY A 326 O TYR A 347 SHEET 3 AA1 8 ALA A 389 PHE A 395 -1 O GLU A 390 N GLN A 333 SHEET 4 AA1 8 VAL A 370 LEU A 373 -1 N GLU A 371 O LYS A 391 SHEET 5 AA1 8 ARG B 340 TYR B 347 -1 O ASP B 342 N GLN A 372 SHEET 6 AA1 8 GLY B 326 CYS B 334 -1 N GLY B 326 O TYR B 347 SHEET 7 AA1 8 ALA B 389 PHE B 395 -1 O GLY B 392 N TYR B 331 SHEET 8 AA1 8 GLU B 371 LEU B 373 -1 N LEU B 373 O ALA B 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 CYS A 478 N LEU A 469 SHEET 7 AA3 7 VAL A 484 CYS A 488 -1 O SER A 486 N LYS A 479 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 MET A 410 0 SHEET 2 AA5 2 ILE A 419 LYS A 420 -1 O ILE A 419 N MET A 410 SHEET 1 AA6 5 ILE B 350 LEU B 352 0 SHEET 2 AA6 5 VAL B 401 LEU B 406 1 O GLN B 405 N LEU B 352 SHEET 3 AA6 5 ASN B 512 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 AA6 5 ASN B 447 GLY B 458 -1 N HIS B 451 O VAL B 517 SHEET 5 AA6 5 GLN B 430 PRO B 432 -1 N LEU B 431 O TYR B 448 SHEET 1 AA7 7 ILE B 350 LEU B 352 0 SHEET 2 AA7 7 VAL B 401 LEU B 406 1 O GLN B 405 N LEU B 352 SHEET 3 AA7 7 ASN B 512 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 AA7 7 ASN B 447 GLY B 458 -1 N HIS B 451 O VAL B 517 SHEET 5 AA7 7 GLY B 463 LEU B 469 -1 O VAL B 466 N VAL B 455 SHEET 6 AA7 7 CYS B 478 ASP B 481 -1 O PHE B 480 N VAL B 467 SHEET 7 AA7 7 VAL B 484 ARG B 487 -1 O SER B 486 N LYS B 479 SHEET 1 AA8 2 PHE B 409 TYR B 411 0 SHEET 2 AA8 2 ASN B 418 LYS B 420 -1 O ILE B 419 N MET B 410 CISPEP 1 TYR A 411 ASP A 412 0 4.46 CISPEP 2 ASP B 376 ASN B 377 0 -12.76 CISPEP 3 GLY B 385 LEU B 386 0 3.69 CISPEP 4 GLN B 414 THR B 415 0 -5.65 SITE 1 AC1 13 TYR A 224 ASP A 295 VAL A 296 GLN A 297 SITE 2 AC1 13 LEU A 406 MET A 407 ARG A 408 PHE A 409 SITE 3 AC1 13 LYS A 420 HIS A 456 HIS A 461 TYR A 465 SITE 4 AC1 13 TYR A 514 SITE 1 AC2 13 TYR B 224 MET B 292 ASP B 295 VAL B 296 SITE 2 AC2 13 GLN B 297 LEU B 406 MET B 407 ARG B 408 SITE 3 AC2 13 PHE B 409 MET B 410 HIS B 456 TYR B 465 SITE 4 AC2 13 TYR B 514 CRYST1 61.970 73.740 84.770 90.00 91.43 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 0.016137 0.000000 0.000403 0.00000 SCALE2 0.000000 0.013561 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011800 0.00000