HEADER ONCOPROTEIN 11-MAY-23 8P19 TITLE USP28 USP DOMAIN APO COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 28; COMPND 3 CHAIN: A; 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 UBIQUITIN, INHIBITOR, DEUBIQUITYLASE, ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR F.SAUER,R.KARAL NAIR,C.KISKER REVDAT 1 22-MAY-24 8P19 0 JRNL AUTH F.SAUER,R.KARAL NAIR,C.KISKER JRNL TITL USP28 USP DOMAIN APO JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.45 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 26852 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.470 REMARK 3 FREE R VALUE TEST SET COUNT : 1201 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 47.9700 - 5.1000 1.00 3011 143 0.2082 0.2116 REMARK 3 2 5.1000 - 4.0500 1.00 2906 136 0.1485 0.1691 REMARK 3 3 4.0500 - 3.5400 1.00 2869 133 0.1651 0.2167 REMARK 3 4 3.5300 - 3.2100 1.00 2855 134 0.1886 0.2295 REMARK 3 5 3.2100 - 2.9800 1.00 2836 132 0.1968 0.2074 REMARK 3 6 2.9800 - 2.8100 1.00 2822 133 0.2243 0.3153 REMARK 3 7 2.8100 - 2.6700 1.00 2824 132 0.2819 0.3042 REMARK 3 8 2.6700 - 2.5500 1.00 2848 133 0.3006 0.3756 REMARK 3 9 2.5500 - 2.4500 0.95 2680 125 0.3247 0.3688 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.810 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 : 0.002 2874 REMARK 3 ANGLE : 0.477 3905 REMARK 3 CHIRALITY : 0.037 398 REMARK 3 PLANARITY : 0.004 513 REMARK 3 DIHEDRAL : 13.289 1038 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 149 THROUGH 227 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.8372 4.6606 -38.0205 REMARK 3 T TENSOR REMARK 3 T11: 0.8646 T22: 0.5367 REMARK 3 T33: 0.8319 T12: 0.0421 REMARK 3 T13: -0.0797 T23: 0.2191 REMARK 3 L TENSOR REMARK 3 L11: 2.9790 L22: 3.3796 REMARK 3 L33: 2.2512 L12: 0.1534 REMARK 3 L13: 0.1331 L23: -0.2037 REMARK 3 S TENSOR REMARK 3 S11: 0.1153 S12: 0.4383 S13: 0.5086 REMARK 3 S21: -0.0036 S22: 0.0089 S23: -0.2997 REMARK 3 S31: -0.6435 S32: -0.3452 S33: -0.2222 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 228 THROUGH 313 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6148 2.1451 -20.9084 REMARK 3 T TENSOR REMARK 3 T11: 1.0456 T22: 0.5681 REMARK 3 T33: 0.8521 T12: -0.0498 REMARK 3 T13: -0.1615 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 1.1079 L22: 0.7068 REMARK 3 L33: 2.5202 L12: -0.2227 REMARK 3 L13: -0.8445 L23: -0.0180 REMARK 3 S TENSOR REMARK 3 S11: -0.1511 S12: -0.2688 S13: 0.5452 REMARK 3 S21: 0.3220 S22: -0.2758 S23: -0.1589 REMARK 3 S31: -0.9312 S32: 0.5070 S33: 0.3867 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 314 THROUGH 419 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.9316 -15.0597 -15.5479 REMARK 3 T TENSOR REMARK 3 T11: 0.6092 T22: 0.4035 REMARK 3 T33: 0.4368 T12: 0.0268 REMARK 3 T13: -0.0624 T23: -0.0625 REMARK 3 L TENSOR REMARK 3 L11: 3.4634 L22: 4.2841 REMARK 3 L33: 3.0839 L12: -0.3988 REMARK 3 L13: -0.8938 L23: 0.3955 REMARK 3 S TENSOR REMARK 3 S11: -0.2370 S12: -0.4779 S13: 0.3161 REMARK 3 S21: 0.7176 S22: 0.0233 S23: -0.1641 REMARK 3 S31: -0.1366 S32: 0.0738 S33: 0.2133 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 420 THROUGH 521 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.4083 -7.9043 -38.9225 REMARK 3 T TENSOR REMARK 3 T11: 0.6121 T22: 0.5741 REMARK 3 T33: 0.5380 T12: 0.0443 REMARK 3 T13: -0.0573 T23: 0.1556 REMARK 3 L TENSOR REMARK 3 L11: 1.1764 L22: 2.9103 REMARK 3 L33: 3.2422 L12: -0.2323 REMARK 3 L13: 0.3610 L23: -1.5034 REMARK 3 S TENSOR REMARK 3 S11: -0.0092 S12: 0.5516 S13: 0.5973 REMARK 3 S21: -0.2874 S22: 0.0020 S23: 0.1490 REMARK 3 S31: -0.4431 S32: -0.2019 S33: -0.0347 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 8P19 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130437. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-21 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 : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26861 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 47.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 19.30 REMARK 200 R MERGE (I) : 0.17700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.55 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 19.90 REMARK 200 R MERGE FOR SHELL (I) : 4.11300 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: 6H4I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M NACL 0.1M LI2SO4 0.1M MES PH 6.4 REMARK 280 14% PEG4000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 53.31700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 30.78258 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 109.95233 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 53.31700 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 30.78258 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 109.95233 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 53.31700 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 30.78258 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 109.95233 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 53.31700 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 30.78258 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 109.95233 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 53.31700 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 30.78258 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 109.95233 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 53.31700 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 30.78258 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 109.95233 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 61.56517 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 219.90467 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 61.56517 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 219.90467 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 61.56517 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 219.90467 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 61.56517 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 219.90467 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 61.56517 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 219.90467 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 61.56517 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 219.90467 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 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 ALA A 245 REMARK 465 PHE A 246 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 ASN A 276 REMARK 465 VAL A 277 REMARK 465 ASN A 278 REMARK 465 SER A 279 REMARK 465 PRO A 280 REMARK 465 ARG A 281 REMARK 465 ASN A 282 REMARK 465 LYS A 283 REMARK 465 GLY A 337 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 LYS A 349 REMARK 465 ALA A 483 REMARK 465 GLU A 484 REMARK 465 ALA A 485 REMARK 465 ALA A 486 REMARK 465 PRO A 487 REMARK 465 THR A 488 REMARK 465 GLU A 489 REMARK 465 SER A 490 REMARK 465 ASP A 491 REMARK 465 GLN A 492 REMARK 465 GLU A 522 REMARK 465 GLU A 523 REMARK 465 GLU A 524 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 GLU A 201 CG CD OE1 OE2 REMARK 470 ARG A 204 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 GLN A 216 CG CD OE1 NE2 REMARK 470 LYS A 231 CG CD CE NZ REMARK 470 LYS A 243 CG CD CE NZ REMARK 470 GLN A 254 CG CD OE1 NE2 REMARK 470 GLU A 258 CG CD OE1 OE2 REMARK 470 LYS A 262 CG CD CE NZ REMARK 470 VAL A 275 CG1 CG2 REMARK 470 SER A 284 OG REMARK 470 GLU A 285 CG CD OE1 OE2 REMARK 470 ARG A 302 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 350 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LEU A 376 CG CD1 CD2 REMARK 470 GLU A 380 CG CD OE1 OE2 REMARK 470 MET A 493 CG SD CE REMARK 470 GLU A 497 CG CD OE1 OE2 REMARK 470 GLU A 520 CG CD OE1 OE2 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 TRP A 154 32.08 -98.36 REMARK 500 ASN A 169 76.25 -106.73 REMARK 500 ASN A 202 78.14 -105.77 REMARK 500 ALA A 274 35.46 -93.19 REMARK 500 ASN A 321 -141.93 60.69 REMARK 500 LEU A 376 -137.87 -155.69 REMARK 500 ASP A 444 -116.30 52.73 REMARK 500 SER A 450 -159.20 -137.98 REMARK 500 REMARK 500 REMARK: NULL DBREF 8P19 A 149 399 UNP Q96RU2 UBP28_HUMAN 149 399 DBREF 8P19 A 406 524 UNP Q96RU2 UBP28_HUMAN 580 698 SEQADV 8P19 GLY A 148 UNP Q96RU2 EXPRESSION TAG SEQADV 8P19 GLY A 400 UNP Q96RU2 LINKER SEQADV 8P19 SER A 401 UNP Q96RU2 LINKER SEQADV 8P19 GLY A 402 UNP Q96RU2 LINKER SEQADV 8P19 SER A 403 UNP Q96RU2 LINKER SEQADV 8P19 GLY A 404 UNP Q96RU2 LINKER SEQADV 8P19 SER A 405 UNP Q96RU2 LINKER SEQRES 1 A 377 GLY PRO ASN PRO ASN ASP TRP ARG ARG VAL ASP GLY TRP SEQRES 2 A 377 PRO VAL GLY LEU LYS ASN VAL GLY ASN THR CYS TRP PHE SEQRES 3 A 377 SER ALA VAL ILE GLN SER LEU PHE GLN LEU PRO GLU PHE SEQRES 4 A 377 ARG ARG LEU VAL LEU SER TYR SER LEU PRO GLN ASN VAL SEQRES 5 A 377 LEU GLU ASN CYS ARG SER HIS THR GLU LYS ARG ASN ILE SEQRES 6 A 377 MET PHE MET GLN GLU LEU GLN TYR LEU PHE ALA LEU MET SEQRES 7 A 377 MET GLY SER ASN ARG LYS PHE VAL ASP PRO SER ALA ALA SEQRES 8 A 377 LEU ASP LEU LEU LYS GLY ALA PHE ARG SER SER GLU GLU SEQRES 9 A 377 GLN GLN GLN ASP VAL SER GLU PHE THR HIS LYS LEU LEU SEQRES 10 A 377 ASP TRP LEU GLU ASP ALA PHE GLN LEU ALA VAL ASN VAL SEQRES 11 A 377 ASN SER PRO ARG ASN LYS SER GLU ASN PRO MET VAL GLN SEQRES 12 A 377 LEU PHE TYR GLY THR PHE LEU THR GLU GLY VAL ARG GLU SEQRES 13 A 377 GLY LYS PRO PHE CYS ASN ASN GLU THR PHE GLY GLN TYR SEQRES 14 A 377 PRO LEU GLN VAL ASN GLY TYR ARG ASN LEU ASP GLU CYS SEQRES 15 A 377 LEU GLU GLY ALA MET VAL GLU GLY ASP VAL GLU LEU LEU SEQRES 16 A 377 PRO SER ASP HIS SER VAL LYS TYR GLY GLN GLU ARG TRP SEQRES 17 A 377 PHE THR LYS LEU PRO PRO VAL LEU THR PHE GLU LEU SER SEQRES 18 A 377 ARG PHE GLU PHE ASN GLN SER LEU GLY GLN PRO GLU LYS SEQRES 19 A 377 ILE HIS ASN LYS LEU GLU PHE PRO GLN ILE ILE TYR MET SEQRES 20 A 377 ASP ARG TYR MET TYR GLY SER GLY SER GLY SER ARG GLN SEQRES 21 A 377 VAL PRO TYR ARG LEU HIS ALA VAL LEU VAL HIS GLU GLY SEQRES 22 A 377 GLN ALA ASN ALA GLY HIS TYR TRP ALA TYR ILE TYR ASN SEQRES 23 A 377 GLN PRO ARG GLN SER TRP LEU LYS TYR ASN ASP ILE SER SEQRES 24 A 377 VAL THR GLU SER SER TRP GLU GLU VAL GLU ARG ASP SER SEQRES 25 A 377 TYR GLY GLY LEU ARG ASN VAL SER ALA TYR CYS LEU MET SEQRES 26 A 377 TYR ILE ASN ASP LYS LEU PRO TYR PHE ASN ALA GLU ALA SEQRES 27 A 377 ALA PRO THR GLU SER ASP GLN MET SER GLU VAL GLU ALA SEQRES 28 A 377 LEU SER VAL GLU LEU LYS HIS TYR ILE GLN GLU ASP ASN SEQRES 29 A 377 TRP ARG PHE GLU GLN GLU VAL GLU GLU TRP GLU GLU GLU HET EDO A 601 4 HET CL A 602 1 HET CL A 603 1 HET CL A 604 1 HET CL A 605 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO C2 H6 O2 FORMUL 3 CL 4(CL 1-) FORMUL 7 HOH *102(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 PRO A 196 GLU A 201 1 6 HELIX 5 AA5 SER A 205 SER A 228 1 24 HELIX 6 AA6 PRO A 235 GLY A 244 1 10 HELIX 7 AA7 ASP A 255 LEU A 273 1 19 HELIX 8 AA8 ASN A 286 TYR A 293 1 8 HELIX 9 AA9 ASN A 325 GLU A 336 1 12 HELIX 10 AB1 ASP A 395 MET A 398 5 4 HELIX 11 AB2 SER A 451 TYR A 460 1 10 HELIX 12 AB3 LEU A 478 ASN A 482 5 5 HELIX 13 AB4 GLU A 495 LEU A 499 5 5 HELIX 14 AB5 SER A 500 GLU A 520 1 21 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 ARG A 302 O LYS A 305 SHEET 3 AA2 3 GLU A 353 LYS A 358 -1 O TRP A 355 N LEU A 297 SHEET 1 AA3 5 GLN A 315 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 466 ASN A 475 -1 O TYR A 473 N LEU A 363 SHEET 4 AA3 5 PRO A 409 GLU A 419 -1 N HIS A 413 O MET A 472 SHEET 5 AA3 5 ILE A 391 TYR A 393 -1 N ILE A 392 O TYR A 410 SHEET 1 AA4 7 GLN A 315 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 466 ASN A 475 -1 O TYR A 473 N LEU A 363 SHEET 4 AA4 7 PRO A 409 GLU A 419 -1 N HIS A 413 O MET A 472 SHEET 5 AA4 7 HIS A 426 ASN A 433 -1 O TYR A 430 N VAL A 415 SHEET 6 AA4 7 SER A 438 ASN A 443 -1 O TYR A 442 N ALA A 429 SHEET 7 AA4 7 SER A 446 GLU A 449 -1 O THR A 448 N LYS A 441 SHEET 1 AA5 2 PHE A 370 PHE A 372 0 SHEET 2 AA5 2 PRO A 379 LYS A 381 -1 O GLU A 380 N GLU A 371 CRYST1 106.634 106.634 329.857 90.00 90.00 120.00 H 3 2 18 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 0.009378 0.005414 0.000000 0.00000 SCALE2 0.000000 0.010829 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003032 0.00000