HEADER ONCOPROTEIN 12-MAY-23 8P1P TITLE USP28 IN COMPLEX WITH AZ1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 28; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DEUBIQUITINATING ENZYME 28,UBIQUITIN THIOESTERASE 28, COMPND 5 UBIQUITIN-SPECIFIC-PROCESSING PROTEASE 28; COMPND 6 EC: 3.4.19.12; COMPND 7 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: USP28, KIAA1515; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS USP28, UBIQUITIN, INHIBITOR, AZ1, ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR F.SAUER,R.KARAL-NAIR,C.KISKER REVDAT 1 22-MAY-24 8P1P 0 JRNL AUTH F.SAUER,R.KARAL-NAIR,C.KISKER JRNL TITL USP28 IN COMPLEX WITH AZ1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.19.2_4158: ???) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 69.1 REMARK 3 NUMBER OF REFLECTIONS : 34413 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.520 REMARK 3 FREE R VALUE TEST SET COUNT : 1213 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 48.3500 - 5.7300 1.00 5607 204 0.2212 0.2403 REMARK 3 2 5.7300 - 4.5500 1.00 5374 196 0.1760 0.1914 REMARK 3 3 4.5500 - 3.9700 1.00 5360 195 0.1717 0.2066 REMARK 3 4 3.9700 - 3.6100 1.00 5315 193 0.2142 0.2515 REMARK 3 5 3.6100 - 3.3500 0.84 4443 172 0.2516 0.2985 REMARK 3 6 3.3500 - 3.1500 0.62 3257 123 0.2756 0.2978 REMARK 3 7 3.1500 - 3.0000 0.44 2332 76 0.3097 0.3787 REMARK 3 8 3.0000 - 2.8700 0.24 1250 43 0.3427 0.4367 REMARK 3 9 2.8700 - 2.7600 0.05 262 11 0.3459 0.2526 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 60.95 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 7333 REMARK 3 ANGLE : 0.558 9942 REMARK 3 CHIRALITY : 0.039 1053 REMARK 3 PLANARITY : 0.004 1308 REMARK 3 DIHEDRAL : 14.270 2710 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 149:301 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.642 -40.541 -16.075 REMARK 3 T TENSOR REMARK 3 T11: 0.5174 T22: 0.8369 REMARK 3 T33: 0.1795 T12: 0.2086 REMARK 3 T13: -0.0966 T23: -0.1406 REMARK 3 L TENSOR REMARK 3 L11: 2.9776 L22: 1.9335 REMARK 3 L33: 0.9820 L12: -1.0029 REMARK 3 L13: -0.1312 L23: 0.0533 REMARK 3 S TENSOR REMARK 3 S11: -0.4317 S12: -1.7440 S13: -0.3247 REMARK 3 S21: 1.1510 S22: 0.6413 S23: 0.2127 REMARK 3 S31: -0.4890 S32: 0.5471 S33: 0.2217 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 302:649 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.088 -28.918 -47.906 REMARK 3 T TENSOR REMARK 3 T11: 0.7450 T22: 0.1332 REMARK 3 T33: 0.4686 T12: -0.0453 REMARK 3 T13: 0.1464 T23: 0.0825 REMARK 3 L TENSOR REMARK 3 L11: -0.3142 L22: 1.1194 REMARK 3 L33: 0.5049 L12: 1.4116 REMARK 3 L13: -0.7972 L23: -0.9125 REMARK 3 S TENSOR REMARK 3 S11: 0.0341 S12: -0.1593 S13: 0.3765 REMARK 3 S21: -0.6497 S22: -0.0916 S23: -0.0437 REMARK 3 S31: -0.4979 S32: 0.1216 S33: -0.1493 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 650:700 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.811 -41.942 -17.659 REMARK 3 T TENSOR REMARK 3 T11: 0.5777 T22: 0.4215 REMARK 3 T33: 0.6263 T12: -0.0877 REMARK 3 T13: 0.2704 T23: 0.0958 REMARK 3 L TENSOR REMARK 3 L11: 3.0070 L22: 0.9217 REMARK 3 L33: 0.8319 L12: -0.2082 REMARK 3 L13: 0.5691 L23: -0.1503 REMARK 3 S TENSOR REMARK 3 S11: -0.2613 S12: -0.8857 S13: -0.4521 REMARK 3 S21: 0.0928 S22: 0.3758 S23: 0.4290 REMARK 3 S31: 0.0545 S32: -0.4332 S33: 0.1741 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN B AND RESID 151:401 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.771 -39.750 -65.906 REMARK 3 T TENSOR REMARK 3 T11: 0.3630 T22: 0.6612 REMARK 3 T33: 0.2949 T12: -0.1017 REMARK 3 T13: 0.0519 T23: 0.0162 REMARK 3 L TENSOR REMARK 3 L11: 1.6903 L22: 2.2290 REMARK 3 L33: 3.4492 L12: 0.3924 REMARK 3 L13: -1.0158 L23: -0.1264 REMARK 3 S TENSOR REMARK 3 S11: 0.0256 S12: 0.6330 S13: 0.1548 REMARK 3 S21: -0.3482 S22: 0.2343 S23: -0.0145 REMARK 3 S31: -0.7239 S32: 0.1443 S33: -0.1179 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN B AND RESID 402:594 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.489 -16.259 -27.322 REMARK 3 T TENSOR REMARK 3 T11: 0.6128 T22: 0.3255 REMARK 3 T33: 0.5314 T12: 0.1503 REMARK 3 T13: -0.0417 T23: -0.0538 REMARK 3 L TENSOR REMARK 3 L11: -0.3759 L22: 2.0281 REMARK 3 L33: 1.5662 L12: 0.1821 REMARK 3 L13: 0.1053 L23: 1.1143 REMARK 3 S TENSOR REMARK 3 S11: -0.2258 S12: 0.1550 S13: 0.1467 REMARK 3 S21: 0.1685 S22: 0.1377 S23: 0.0446 REMARK 3 S31: -0.5850 S32: 0.0439 S33: 0.2197 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN B AND RESID 595:696 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.303 -34.486 -69.712 REMARK 3 T TENSOR REMARK 3 T11: 0.8683 T22: 1.1653 REMARK 3 T33: 0.6295 T12: -0.3549 REMARK 3 T13: 0.2584 T23: -0.0926 REMARK 3 L TENSOR REMARK 3 L11: 0.9988 L22: 1.2666 REMARK 3 L33: 1.6176 L12: 0.1397 REMARK 3 L13: -0.5352 L23: -0.2054 REMARK 3 S TENSOR REMARK 3 S11: 0.1796 S12: 0.8453 S13: 0.1579 REMARK 3 S21: -0.6151 S22: 0.1973 S23: -0.6445 REMARK 3 S31: -1.2641 S32: 1.2878 S33: 0.0277 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 8P1P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130472. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-20 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 : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34461 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.760 REMARK 200 RESOLUTION RANGE LOW (A) : 48.350 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 13.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.01 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: 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 (%): 69.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5 M SODIUM MALONATE PH 6.0 0.1 M REMARK 280 SODIUM CITRATE PH 5.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,-Y,-Z+1/2 REMARK 290 4555 -X+1/2,-Y,Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 50.22200 REMARK 290 SMTRY2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 89.35400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.22200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 89.35400 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: 2970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 50.22200 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -89.35400 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 148 REMARK 465 ARG A 247 REMARK 465 SER A 248 REMARK 465 SER A 249 REMARK 465 GLU A 250 REMARK 465 GLU A 251 REMARK 465 GLN A 252 REMARK 465 GLN A 253 REMARK 465 GLN A 254 REMARK 465 ASP A 338 REMARK 465 VAL A 339 REMARK 465 GLU A 340 REMARK 465 LEU A 341 REMARK 465 LEU A 342 REMARK 465 PRO A 343 REMARK 465 SER A 344 REMARK 465 ASP A 345 REMARK 465 HIS A 346 REMARK 465 SER A 347 REMARK 465 VAL A 348 REMARK 465 PHE A 372 REMARK 465 ASN A 373 REMARK 465 GLN A 374 REMARK 465 SER A 375 REMARK 465 LEU A 376 REMARK 465 GLY A 377 REMARK 465 GLN A 378 REMARK 465 PRO A 379 REMARK 465 LYS A 521 REMARK 465 PRO A 522 REMARK 465 ALA A 523 REMARK 465 SER A 524 REMARK 465 SER A 525 REMARK 465 GLY A 526 REMARK 465 SER A 527 REMARK 465 GLY A 528 REMARK 465 ALA A 529 REMARK 465 GLU A 658 REMARK 465 ALA A 659 REMARK 465 ALA A 660 REMARK 465 PRO A 661 REMARK 465 THR A 662 REMARK 465 GLU A 663 REMARK 465 CYS A 701 REMARK 465 LYS A 702 REMARK 465 ILE A 703 REMARK 465 PRO A 704 REMARK 465 GLN A 705 REMARK 465 MET A 706 REMARK 465 GLU A 707 REMARK 465 GLY B 148 REMARK 465 PRO B 149 REMARK 465 ASN B 150 REMARK 465 GLN B 197 REMARK 465 ASN B 198 REMARK 465 VAL B 199 REMARK 465 GLY B 244 REMARK 465 ALA B 245 REMARK 465 PHE B 246 REMARK 465 ARG B 247 REMARK 465 SER B 248 REMARK 465 SER B 249 REMARK 465 GLU B 250 REMARK 465 GLU B 251 REMARK 465 GLN B 252 REMARK 465 GLN B 253 REMARK 465 ARG B 281 REMARK 465 ASN B 282 REMARK 465 GLY B 337 REMARK 465 ASP B 338 REMARK 465 VAL B 339 REMARK 465 GLU B 340 REMARK 465 LEU B 341 REMARK 465 LEU B 342 REMARK 465 PRO B 343 REMARK 465 SER B 344 REMARK 465 ASP B 345 REMARK 465 HIS B 346 REMARK 465 SER B 347 REMARK 465 ASN B 373 REMARK 465 GLN B 374 REMARK 465 SER B 375 REMARK 465 LEU B 376 REMARK 465 GLY B 377 REMARK 465 GLN B 378 REMARK 465 PRO B 379 REMARK 465 PRO B 522 REMARK 465 ALA B 523 REMARK 465 SER B 524 REMARK 465 SER B 525 REMARK 465 GLY B 526 REMARK 465 SER B 527 REMARK 465 GLY B 528 REMARK 465 ALA B 529 REMARK 465 PRO B 530 REMARK 465 PHE B 655 REMARK 465 ASN B 656 REMARK 465 ALA B 657 REMARK 465 GLU B 658 REMARK 465 ALA B 659 REMARK 465 ALA B 660 REMARK 465 PRO B 661 REMARK 465 THR B 662 REMARK 465 GLU B 663 REMARK 465 SER B 664 REMARK 465 ASP B 665 REMARK 465 GLN B 666 REMARK 465 MET B 667 REMARK 465 GLU B 697 REMARK 465 GLU B 698 REMARK 465 GLN B 699 REMARK 465 SER B 700 REMARK 465 CYS B 701 REMARK 465 LYS B 702 REMARK 465 ILE B 703 REMARK 465 PRO B 704 REMARK 465 GLN B 705 REMARK 465 MET B 706 REMARK 465 GLU B 707 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 ASN A 169 CG OD1 ND2 REMARK 470 ARG A 204 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 LYS A 243 CG CD CE NZ REMARK 470 PHE A 246 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 255 CG OD1 OD2 REMARK 470 ARG A 281 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 283 CG CD CE NZ REMARK 470 GLU A 303 CG CD OE1 OE2 REMARK 470 ARG A 324 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 349 CG CD CE NZ REMARK 470 GLU A 371 CG CD OE1 OE2 REMARK 470 GLU A 380 CG CD OE1 OE2 REMARK 470 LYS A 381 CG CD CE NZ REMARK 470 GLN A 595 CG CD OE1 NE2 REMARK 470 ARG A 638 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 639 CG OD1 ND2 REMARK 470 ARG B 156 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 165 CG CD CE NZ REMARK 470 ASN B 169 CG OD1 ND2 REMARK 470 LEU B 200 CG CD1 CD2 REMARK 470 GLU B 201 CG CD OE1 OE2 REMARK 470 ASN B 202 CG OD1 ND2 REMARK 470 ARG B 204 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 209 CG CD CE NZ REMARK 470 ARG B 210 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 231 CG CD CE NZ REMARK 470 PHE B 232 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 243 CG CD CE NZ REMARK 470 GLN B 254 CG CD OE1 NE2 REMARK 470 VAL B 256 CG1 CG2 REMARK 470 ASN B 276 CG OD1 ND2 REMARK 470 ASN B 278 CG OD1 ND2 REMARK 470 HIS B 280 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 302 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 303 CG CD OE1 OE2 REMARK 470 LYS B 305 CG CD CE NZ REMARK 470 LYS B 349 CG CD CE NZ REMARK 470 GLU B 371 CG CD OE1 OE2 REMARK 470 PHE B 372 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 380 CG CD OE1 OE2 REMARK 470 LYS B 381 CG CD CE NZ REMARK 470 ARG B 531 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 610 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 651 CG CD CE NZ 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 ASN A 169 67.22 -117.22 REMARK 500 CYS A 203 56.90 -113.84 REMARK 500 LYS A 283 81.01 -157.79 REMARK 500 LEU A 579 31.05 -98.27 REMARK 500 ASP A 618 -114.53 53.59 REMARK 500 SER A 624 -165.74 -123.66 REMARK 500 ASN A 639 -12.17 71.17 REMARK 500 ASN A 656 142.70 -170.95 REMARK 500 ASN B 169 67.74 -117.26 REMARK 500 ASN B 202 -139.69 59.01 REMARK 500 VAL B 256 -30.69 -138.09 REMARK 500 ASN B 276 0.24 -60.63 REMARK 500 GLU B 303 -93.06 58.18 REMARK 500 LYS B 349 -115.45 58.47 REMARK 500 ASP B 618 -113.63 53.95 REMARK 500 SER B 624 -164.90 -125.35 REMARK 500 ASN B 639 -14.73 73.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6H4I RELATED DB: PDB DBREF 8P1P A 149 524 UNP Q96RU2 UBP28_HUMAN 149 458 DBREF 8P1P A 529 707 UNP Q96RU2 UBP28_HUMAN 529 707 DBREF 8P1P B 149 524 UNP Q96RU2 UBP28_HUMAN 149 458 DBREF 8P1P B 529 707 UNP Q96RU2 UBP28_HUMAN 529 707 SEQADV 8P1P GLY A 148 UNP Q96RU2 EXPRESSION TAG SEQADV 8P1P HIS A 280 UNP Q96RU2 PRO 280 CONFLICT SEQADV 8P1P SER A 525 UNP Q96RU2 LINKER SEQADV 8P1P GLY A 526 UNP Q96RU2 LINKER SEQADV 8P1P SER A 527 UNP Q96RU2 LINKER SEQADV 8P1P GLY A 528 UNP Q96RU2 LINKER SEQADV 8P1P GLY B 148 UNP Q96RU2 EXPRESSION TAG SEQADV 8P1P HIS B 280 UNP Q96RU2 PRO 280 CONFLICT SEQADV 8P1P SER B 525 UNP Q96RU2 LINKER SEQADV 8P1P GLY B 526 UNP Q96RU2 LINKER SEQADV 8P1P SER B 527 UNP Q96RU2 LINKER SEQADV 8P1P GLY B 528 UNP Q96RU2 LINKER SEQRES 1 A 494 GLY PRO ASN PRO ASN ASP TRP ARG ARG VAL ASP GLY TRP SEQRES 2 A 494 PRO VAL GLY LEU LYS ASN VAL GLY ASN THR CYS TRP PHE SEQRES 3 A 494 SER ALA VAL ILE GLN SER LEU PHE GLN LEU PRO GLU PHE SEQRES 4 A 494 ARG ARG LEU VAL LEU SER TYR SER LEU PRO GLN ASN VAL SEQRES 5 A 494 LEU GLU ASN CYS ARG SER HIS THR GLU LYS ARG ASN ILE SEQRES 6 A 494 MET PHE MET GLN GLU LEU GLN TYR LEU PHE ALA LEU MET SEQRES 7 A 494 MET GLY SER ASN ARG LYS PHE VAL ASP PRO SER ALA ALA SEQRES 8 A 494 LEU ASP LEU LEU LYS GLY ALA PHE ARG SER SER GLU GLU SEQRES 9 A 494 GLN GLN GLN ASP VAL SER GLU PHE THR HIS LYS LEU LEU SEQRES 10 A 494 ASP TRP LEU GLU ASP ALA PHE GLN LEU ALA VAL ASN VAL SEQRES 11 A 494 ASN SER HIS ARG ASN LYS SER GLU ASN PRO MET VAL GLN SEQRES 12 A 494 LEU PHE TYR GLY THR PHE LEU THR GLU GLY VAL ARG GLU SEQRES 13 A 494 GLY LYS PRO PHE CYS ASN ASN GLU THR PHE GLY GLN TYR SEQRES 14 A 494 PRO LEU GLN VAL ASN GLY TYR ARG ASN LEU ASP GLU CYS SEQRES 15 A 494 LEU GLU GLY ALA MET VAL GLU GLY ASP VAL GLU LEU LEU SEQRES 16 A 494 PRO SER ASP HIS SER VAL LYS TYR GLY GLN GLU ARG TRP SEQRES 17 A 494 PHE THR LYS LEU PRO PRO VAL LEU THR PHE GLU LEU SER SEQRES 18 A 494 ARG PHE GLU PHE ASN GLN SER LEU GLY GLN PRO GLU LYS SEQRES 19 A 494 ILE HIS ASN LYS LEU GLU PHE PRO GLN ILE ILE TYR MET SEQRES 20 A 494 ASP ARG TYR MET TYR ARG SER LYS GLU LEU ILE ARG ASN SEQRES 21 A 494 LYS ARG GLU CYS ILE ARG LYS LEU LYS GLU GLU ILE LYS SEQRES 22 A 494 ILE LEU GLN GLN LYS LEU GLU ARG TYR VAL LYS TYR GLY SEQRES 23 A 494 SER GLY PRO ALA ARG PHE PRO LEU PRO ASP MET LEU LYS SEQRES 24 A 494 TYR VAL ILE GLU PHE ALA SER THR LYS PRO ALA SER SER SEQRES 25 A 494 GLY SER GLY ALA PRO ARG THR VAL THR ASP GLU GLU ILE SEQRES 26 A 494 ASN PHE VAL LYS THR CYS LEU GLN ARG TRP ARG SER GLU SEQRES 27 A 494 ILE GLU GLN ASP ILE GLN ASP LEU LYS THR CYS ILE ALA SEQRES 28 A 494 SER THR THR GLN THR ILE GLU GLN MET TYR CYS ASP PRO SEQRES 29 A 494 LEU LEU ARG GLN VAL PRO TYR ARG LEU HIS ALA VAL LEU SEQRES 30 A 494 VAL HIS GLU GLY GLN ALA ASN ALA GLY HIS TYR TRP ALA SEQRES 31 A 494 TYR ILE TYR ASN GLN PRO ARG GLN SER TRP LEU LYS TYR SEQRES 32 A 494 ASN ASP ILE SER VAL THR GLU SER SER TRP GLU GLU VAL SEQRES 33 A 494 GLU ARG ASP SER TYR GLY GLY LEU ARG ASN VAL SER ALA SEQRES 34 A 494 TYR CYS LEU MET TYR ILE ASN ASP LYS LEU PRO TYR PHE SEQRES 35 A 494 ASN ALA GLU ALA ALA PRO THR GLU SER ASP GLN MET SER SEQRES 36 A 494 GLU VAL GLU ALA LEU SER VAL GLU LEU LYS HIS TYR ILE SEQRES 37 A 494 GLN GLU ASP ASN TRP ARG PHE GLU GLN GLU VAL GLU GLU SEQRES 38 A 494 TRP GLU GLU GLU GLN SER CYS LYS ILE PRO GLN MET GLU SEQRES 1 B 494 GLY PRO ASN PRO ASN ASP TRP ARG ARG VAL ASP GLY TRP SEQRES 2 B 494 PRO VAL GLY LEU LYS ASN VAL GLY ASN THR CYS TRP PHE SEQRES 3 B 494 SER ALA VAL ILE GLN SER LEU PHE GLN LEU PRO GLU PHE SEQRES 4 B 494 ARG ARG LEU VAL LEU SER TYR SER LEU PRO GLN ASN VAL SEQRES 5 B 494 LEU GLU ASN CYS ARG SER HIS THR GLU LYS ARG ASN ILE SEQRES 6 B 494 MET PHE MET GLN GLU LEU GLN TYR LEU PHE ALA LEU MET SEQRES 7 B 494 MET GLY SER ASN ARG LYS PHE VAL ASP PRO SER ALA ALA SEQRES 8 B 494 LEU ASP LEU LEU LYS GLY ALA PHE ARG SER SER GLU GLU SEQRES 9 B 494 GLN GLN GLN ASP VAL SER GLU PHE THR HIS LYS LEU LEU SEQRES 10 B 494 ASP TRP LEU GLU ASP ALA PHE GLN LEU ALA VAL ASN VAL SEQRES 11 B 494 ASN SER HIS ARG ASN LYS SER GLU ASN PRO MET VAL GLN SEQRES 12 B 494 LEU PHE TYR GLY THR PHE LEU THR GLU GLY VAL ARG GLU SEQRES 13 B 494 GLY LYS PRO PHE CYS ASN ASN GLU THR PHE GLY GLN TYR SEQRES 14 B 494 PRO LEU GLN VAL ASN GLY TYR ARG ASN LEU ASP GLU CYS SEQRES 15 B 494 LEU GLU GLY ALA MET VAL GLU GLY ASP VAL GLU LEU LEU SEQRES 16 B 494 PRO SER ASP HIS SER VAL LYS TYR GLY GLN GLU ARG TRP SEQRES 17 B 494 PHE THR LYS LEU PRO PRO VAL LEU THR PHE GLU LEU SER SEQRES 18 B 494 ARG PHE GLU PHE ASN GLN SER LEU GLY GLN PRO GLU LYS SEQRES 19 B 494 ILE HIS ASN LYS LEU GLU PHE PRO GLN ILE ILE TYR MET SEQRES 20 B 494 ASP ARG TYR MET TYR ARG SER LYS GLU LEU ILE ARG ASN SEQRES 21 B 494 LYS ARG GLU CYS ILE ARG LYS LEU LYS GLU GLU ILE LYS SEQRES 22 B 494 ILE LEU GLN GLN LYS LEU GLU ARG TYR VAL LYS TYR GLY SEQRES 23 B 494 SER GLY PRO ALA ARG PHE PRO LEU PRO ASP MET LEU LYS SEQRES 24 B 494 TYR VAL ILE GLU PHE ALA SER THR LYS PRO ALA SER SER SEQRES 25 B 494 GLY SER GLY ALA PRO ARG THR VAL THR ASP GLU GLU ILE SEQRES 26 B 494 ASN PHE VAL LYS THR CYS LEU GLN ARG TRP ARG SER GLU SEQRES 27 B 494 ILE GLU GLN ASP ILE GLN ASP LEU LYS THR CYS ILE ALA SEQRES 28 B 494 SER THR THR GLN THR ILE GLU GLN MET TYR CYS ASP PRO SEQRES 29 B 494 LEU LEU ARG GLN VAL PRO TYR ARG LEU HIS ALA VAL LEU SEQRES 30 B 494 VAL HIS GLU GLY GLN ALA ASN ALA GLY HIS TYR TRP ALA SEQRES 31 B 494 TYR ILE TYR ASN GLN PRO ARG GLN SER TRP LEU LYS TYR SEQRES 32 B 494 ASN ASP ILE SER VAL THR GLU SER SER TRP GLU GLU VAL SEQRES 33 B 494 GLU ARG ASP SER TYR GLY GLY LEU ARG ASN VAL SER ALA SEQRES 34 B 494 TYR CYS LEU MET TYR ILE ASN ASP LYS LEU PRO TYR PHE SEQRES 35 B 494 ASN ALA GLU ALA ALA PRO THR GLU SER ASP GLN MET SER SEQRES 36 B 494 GLU VAL GLU ALA LEU SER VAL GLU LEU LYS HIS TYR ILE SEQRES 37 B 494 GLN GLU ASP ASN TRP ARG PHE GLU GLN GLU VAL GLU GLU SEQRES 38 B 494 TRP GLU GLU GLU GLN SER CYS LYS ILE PRO GLN MET GLU HET CL A 801 1 HET DMS A 802 4 HET WF0 A 803 25 HET WF0 B 801 25 HETNAM CL CHLORIDE ION HETNAM DMS DIMETHYL SULFOXIDE HETNAM WF0 2-[[5-BROMANYL-2-[[4-FLUORANYL-3-(TRIFLUOROMETHYL) HETNAM 2 WF0 PHENYL]METHOXY]PHENYL]METHYLAMINO]ETHANOL FORMUL 3 CL CL 1- FORMUL 4 DMS C2 H6 O S FORMUL 5 WF0 2(C17 H16 BR F4 N O2) FORMUL 7 HOH *47(H2 O) HELIX 1 AA1 ASN A 150 ARG A 155 5 6 HELIX 2 AA2 THR A 170 GLN A 182 1 13 HELIX 3 AA3 LEU A 183 SER A 192 1 10 HELIX 4 AA4 ASN A 198 CYS A 203 1 6 HELIX 5 AA5 SER A 205 SER A 228 1 24 HELIX 6 AA6 PRO A 235 LEU A 241 1 7 HELIX 7 AA7 VAL A 256 HIS A 280 1 25 HELIX 8 AA8 ASN A 286 TYR A 293 1 8 HELIX 9 AA9 ASN A 325 VAL A 335 1 11 HELIX 10 AB1 ASP A 395 MET A 398 5 4 HELIX 11 AB2 SER A 401 LYS A 431 1 31 HELIX 12 AB3 PRO A 440 THR A 454 1 15 HELIX 13 AB4 THR A 534 GLN A 572 1 39 HELIX 14 AB5 ASP A 576 ARG A 580 5 5 HELIX 15 AB6 SER A 625 TYR A 634 1 10 HELIX 16 AB7 SER A 674 GLU A 698 1 25 HELIX 17 AB8 THR B 170 GLN B 182 1 13 HELIX 18 AB9 LEU B 183 SER B 192 1 10 HELIX 19 AC1 SER B 205 SER B 228 1 24 HELIX 20 AC2 PRO B 235 LEU B 241 1 7 HELIX 21 AC3 VAL B 256 ASN B 276 1 21 HELIX 22 AC4 ASN B 286 TYR B 293 1 8 HELIX 23 AC5 ASN B 325 VAL B 335 1 11 HELIX 24 AC6 ASP B 395 MET B 398 5 4 HELIX 25 AC7 SER B 401 LYS B 431 1 31 HELIX 26 AC8 PRO B 440 LYS B 455 1 16 HELIX 27 AC9 THR B 534 GLN B 572 1 39 HELIX 28 AD1 ASP B 576 ARG B 580 5 5 HELIX 29 AD2 SER B 625 TYR B 634 1 10 HELIX 30 AD3 GLU B 669 LEU B 673 5 5 HELIX 31 AD4 SER B 674 TRP B 695 1 22 SHEET 1 AA1 2 GLY A 163 LEU A 164 0 SHEET 2 AA1 2 PHE A 232 VAL A 233 1 O VAL A 233 N GLY A 163 SHEET 1 AA2 3 LYS A 305 PHE A 313 0 SHEET 2 AA2 3 GLY A 294 ARG A 302 -1 N THR A 298 O ASN A 309 SHEET 3 AA2 3 GLY A 351 LYS A 358 -1 O TRP A 355 N LEU A 297 SHEET 1 AA3 5 TYR A 316 GLN A 319 0 SHEET 2 AA3 5 VAL A 362 SER A 368 1 O THR A 364 N TYR A 316 SHEET 3 AA3 5 VAL A 640 ASN A 649 -1 O TYR A 647 N LEU A 363 SHEET 4 AA3 5 PRO A 583 GLN A 595 -1 N HIS A 587 O MET A 646 SHEET 5 AA3 5 ILE A 391 TYR A 393 -1 N ILE A 392 O TYR A 584 SHEET 1 AA4 7 TYR A 316 GLN A 319 0 SHEET 2 AA4 7 VAL A 362 SER A 368 1 O THR A 364 N TYR A 316 SHEET 3 AA4 7 VAL A 640 ASN A 649 -1 O TYR A 647 N LEU A 363 SHEET 4 AA4 7 PRO A 583 GLN A 595 -1 N HIS A 587 O MET A 646 SHEET 5 AA4 7 ALA A 598 ASN A 607 -1 O HIS A 600 N GLU A 593 SHEET 6 AA4 7 SER A 612 ASN A 617 -1 O SER A 612 N ASN A 607 SHEET 7 AA4 7 SER A 620 GLU A 623 -1 O SER A 620 N ASN A 617 SHEET 1 AA5 2 GLY B 163 LEU B 164 0 SHEET 2 AA5 2 PHE B 232 VAL B 233 1 O VAL B 233 N GLY B 163 SHEET 1 AA6 3 LYS B 305 PHE B 313 0 SHEET 2 AA6 3 GLY B 294 GLU B 303 -1 N THR B 298 O ASN B 309 SHEET 3 AA6 3 LYS B 349 TYR B 350 -1 O LYS B 349 N GLU B 303 SHEET 1 AA7 3 LYS B 305 PHE B 313 0 SHEET 2 AA7 3 GLY B 294 GLU B 303 -1 N THR B 298 O ASN B 309 SHEET 3 AA7 3 GLU B 353 LYS B 358 -1 O TRP B 355 N LEU B 297 SHEET 1 AA8 5 TYR B 316 GLN B 319 0 SHEET 2 AA8 5 VAL B 362 SER B 368 1 O THR B 364 N TYR B 316 SHEET 3 AA8 5 VAL B 640 ASN B 649 -1 O TYR B 647 N LEU B 363 SHEET 4 AA8 5 PRO B 583 GLY B 594 -1 N HIS B 587 O MET B 646 SHEET 5 AA8 5 ILE B 391 TYR B 393 -1 N ILE B 392 O TYR B 584 SHEET 1 AA9 7 TYR B 316 GLN B 319 0 SHEET 2 AA9 7 VAL B 362 SER B 368 1 O THR B 364 N TYR B 316 SHEET 3 AA9 7 VAL B 640 ASN B 649 -1 O TYR B 647 N LEU B 363 SHEET 4 AA9 7 PRO B 583 GLY B 594 -1 N HIS B 587 O MET B 646 SHEET 5 AA9 7 GLY B 599 ASN B 607 -1 O TRP B 602 N VAL B 591 SHEET 6 AA9 7 SER B 612 ASN B 617 -1 O SER B 612 N ASN B 607 SHEET 7 AA9 7 SER B 620 GLU B 623 -1 O SER B 620 N ASN B 617 CRYST1 100.444 105.541 178.708 90.00 90.00 90.00 P 21 2 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 0.009956 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009475 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005596 0.00000 MTRIX1 1 -0.937249 -0.063028 -0.342916 12.86772 1 MTRIX2 1 -0.005917 0.986259 -0.165103 -4.62369 1 MTRIX3 1 0.348610 -0.152713 -0.924743 -103.39619 1