HEADER HYDROLASE 21-JUL-16 5KYD TITLE CRYSTAL STRUCTURE OF USP7 CATALYTIC DOMAIN [V302K] MUTANT IN COMPLEX TITLE 2 WITH UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYUBIQUITIN-B; COMPND 3 CHAIN: D; COMPND 4 FRAGMENT: UNP RESIDUES 1-76; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7; COMPND 8 CHAIN: A; COMPND 9 FRAGMENT: UNP RESIDUES 192-538; COMPND 10 SYNONYM: DEUBIQUITINATING ENZYME 7,HERPESVIRUS-ASSOCIATED UBIQUITIN- COMPND 11 SPECIFIC PROTEASE,UBIQUITIN THIOESTERASE 7,UBIQUITIN-SPECIFIC- COMPND 12 PROCESSING PROTEASE 7; COMPND 13 EC: 3.4.19.12; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UBB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: USP7, HAUSP; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS USP7 CATALYTIC DOMAIN, DEUBIQUITINASE, V302K MUTANT, UBIQUITIN, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.ROUGE,A.OZEN REVDAT 3 04-OCT-23 5KYD 1 REMARK REVDAT 2 20-FEB-19 5KYD 1 JRNL REVDAT 1 09-AUG-17 5KYD 0 JRNL AUTH A.OZEN,L.ROUGE,C.BASHORE,B.R.HEARN,N.J.SKELTON,E.C.DUEBER JRNL TITL SELECTIVELY MODULATING CONFORMATIONAL STATES OF USP7 JRNL TITL 2 CATALYTIC DOMAIN FOR ACTIVATION. JRNL REF STRUCTURE V. 26 72 2018 JRNL REFN ISSN 1878-4186 JRNL PMID 29249604 JRNL DOI 10.1016/J.STR.2017.11.010 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 55790 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.610 REMARK 3 FREE R VALUE TEST SET COUNT : 2013 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 27.1640 - 3.8916 0.99 4069 155 0.1491 0.2001 REMARK 3 2 3.8916 - 3.0903 1.00 3932 142 0.1539 0.1850 REMARK 3 3 3.0903 - 2.7001 1.00 3886 147 0.1748 0.1977 REMARK 3 4 2.7001 - 2.4534 1.00 3875 145 0.1781 0.2332 REMARK 3 5 2.4534 - 2.2776 1.00 3845 135 0.1772 0.2235 REMARK 3 6 2.2776 - 2.1434 1.00 3831 147 0.1714 0.2011 REMARK 3 7 2.1434 - 2.0361 0.99 3826 149 0.1807 0.2386 REMARK 3 8 2.0361 - 1.9475 1.00 3801 150 0.1880 0.2091 REMARK 3 9 1.9475 - 1.8725 1.00 3836 126 0.1962 0.2278 REMARK 3 10 1.8725 - 1.8079 0.99 3821 145 0.2131 0.2555 REMARK 3 11 1.8079 - 1.7514 1.00 3784 143 0.2219 0.2467 REMARK 3 12 1.7514 - 1.7014 1.00 3850 141 0.2414 0.2724 REMARK 3 13 1.7014 - 1.6566 1.00 3819 147 0.2571 0.2840 REMARK 3 14 1.6566 - 1.6162 0.95 3602 141 0.2853 0.3225 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.220 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.90 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 : 0.006 3483 REMARK 3 ANGLE : 0.866 4705 REMARK 3 CHIRALITY : 0.059 511 REMARK 3 PLANARITY : 0.006 618 REMARK 3 DIHEDRAL : 16.256 2130 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.2296 -12.4879 18.2987 REMARK 3 T TENSOR REMARK 3 T11: 0.2768 T22: 0.3121 REMARK 3 T33: 0.1833 T12: -0.0628 REMARK 3 T13: -0.0010 T23: -0.0506 REMARK 3 L TENSOR REMARK 3 L11: 4.3255 L22: 3.8586 REMARK 3 L33: 3.9061 L12: 1.6374 REMARK 3 L13: 2.0558 L23: 1.6539 REMARK 3 S TENSOR REMARK 3 S11: 0.2024 S12: -0.5906 S13: 0.2935 REMARK 3 S21: 0.4728 S22: -0.3294 S23: 0.1100 REMARK 3 S31: -0.0294 S32: 0.2880 S33: 0.1487 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 12 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0435 -10.6120 9.0174 REMARK 3 T TENSOR REMARK 3 T11: 0.2321 T22: 0.3107 REMARK 3 T33: 0.2555 T12: -0.0024 REMARK 3 T13: -0.0341 T23: -0.0430 REMARK 3 L TENSOR REMARK 3 L11: 2.8214 L22: 3.7790 REMARK 3 L33: 6.1820 L12: 1.3039 REMARK 3 L13: -1.8549 L23: -1.7612 REMARK 3 S TENSOR REMARK 3 S11: 0.1843 S12: 0.3926 S13: 0.2871 REMARK 3 S21: -0.3129 S22: -0.0783 S23: 0.5914 REMARK 3 S31: -0.0372 S32: 0.3990 S33: -0.1214 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 23 THROUGH 34 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8615 -3.2101 11.9885 REMARK 3 T TENSOR REMARK 3 T11: 0.2006 T22: 0.1805 REMARK 3 T33: 0.2713 T12: -0.0045 REMARK 3 T13: -0.0101 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 6.2959 L22: 5.3125 REMARK 3 L33: 3.0765 L12: 0.0420 REMARK 3 L13: -0.0353 L23: 0.8863 REMARK 3 S TENSOR REMARK 3 S11: 0.0829 S12: 0.2926 S13: 0.5416 REMARK 3 S21: -0.0172 S22: -0.1099 S23: 0.4756 REMARK 3 S31: -0.1395 S32: 0.1072 S33: 0.0269 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 35 THROUGH 44 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.4589 -1.4510 15.4027 REMARK 3 T TENSOR REMARK 3 T11: 0.2327 T22: 0.2115 REMARK 3 T33: 0.3299 T12: -0.0147 REMARK 3 T13: -0.0096 T23: -0.0353 REMARK 3 L TENSOR REMARK 3 L11: 1.4744 L22: 5.3155 REMARK 3 L33: 1.9051 L12: -1.5909 REMARK 3 L13: -1.1339 L23: 2.0876 REMARK 3 S TENSOR REMARK 3 S11: -0.0662 S12: -0.1406 S13: 0.6999 REMARK 3 S21: 0.2543 S22: 0.2071 S23: -0.4822 REMARK 3 S31: -0.2055 S32: 0.2137 S33: -0.1246 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 45 THROUGH 55 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.3142 -9.1525 6.4357 REMARK 3 T TENSOR REMARK 3 T11: 0.3322 T22: 0.2727 REMARK 3 T33: 0.2373 T12: -0.0362 REMARK 3 T13: 0.0466 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 2.2574 L22: 3.5740 REMARK 3 L33: 3.2484 L12: -0.1324 REMARK 3 L13: 1.4384 L23: -1.5912 REMARK 3 S TENSOR REMARK 3 S11: -0.0704 S12: 0.7344 S13: 0.3489 REMARK 3 S21: -0.4203 S22: 0.1123 S23: -0.4133 REMARK 3 S31: -0.3698 S32: 0.3653 S33: -0.0825 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 56 THROUGH 65 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.7224 -16.3050 5.7885 REMARK 3 T TENSOR REMARK 3 T11: 0.2806 T22: 0.2964 REMARK 3 T33: 0.1637 T12: -0.0687 REMARK 3 T13: 0.0433 T23: -0.0593 REMARK 3 L TENSOR REMARK 3 L11: 5.2180 L22: 4.1674 REMARK 3 L33: 4.3420 L12: 3.1563 REMARK 3 L13: -4.2163 L23: -3.9826 REMARK 3 S TENSOR REMARK 3 S11: -0.3063 S12: 0.7256 S13: -0.2683 REMARK 3 S21: -0.5994 S22: 0.3064 S23: -0.2180 REMARK 3 S31: 0.1827 S32: 0.1315 S33: 0.0394 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 66 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.7018 -4.0483 18.0933 REMARK 3 T TENSOR REMARK 3 T11: 0.3075 T22: 0.2395 REMARK 3 T33: 0.2394 T12: -0.0555 REMARK 3 T13: -0.0386 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 3.7308 L22: 4.6647 REMARK 3 L33: 0.7561 L12: 4.1856 REMARK 3 L13: 1.6896 L23: 1.8684 REMARK 3 S TENSOR REMARK 3 S11: -0.0554 S12: -0.1141 S13: 0.3903 REMARK 3 S21: 0.1060 S22: -0.0526 S23: 0.1750 REMARK 3 S31: -0.3384 S32: 0.1738 S33: 0.0797 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 210 THROUGH 309 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.2225 -5.7911 11.0709 REMARK 3 T TENSOR REMARK 3 T11: 0.1974 T22: 0.2132 REMARK 3 T33: 0.1678 T12: -0.0030 REMARK 3 T13: 0.0256 T23: -0.0095 REMARK 3 L TENSOR REMARK 3 L11: 1.5397 L22: 2.4034 REMARK 3 L33: 1.8827 L12: -0.1507 REMARK 3 L13: -0.2485 L23: 0.8700 REMARK 3 S TENSOR REMARK 3 S11: -0.0186 S12: 0.2399 S13: 0.0442 REMARK 3 S21: -0.2501 S22: 0.0445 S23: -0.1737 REMARK 3 S31: -0.2093 S32: 0.0216 S33: -0.0172 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 310 THROUGH 348 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.2398 -23.5765 12.6605 REMARK 3 T TENSOR REMARK 3 T11: 0.1764 T22: 0.1802 REMARK 3 T33: 0.1758 T12: 0.0068 REMARK 3 T13: 0.0118 T23: -0.0437 REMARK 3 L TENSOR REMARK 3 L11: 2.7614 L22: 0.4735 REMARK 3 L33: 0.1008 L12: 1.0642 REMARK 3 L13: -0.5816 L23: -0.4514 REMARK 3 S TENSOR REMARK 3 S11: -0.1072 S12: 0.0574 S13: -0.2472 REMARK 3 S21: -0.0928 S22: 0.0560 S23: -0.0349 REMARK 3 S31: 0.1018 S32: 0.0521 S33: 0.0553 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 349 THROUGH 400 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6711 -19.8769 24.5084 REMARK 3 T TENSOR REMARK 3 T11: 0.2006 T22: 0.2005 REMARK 3 T33: 0.1945 T12: 0.0219 REMARK 3 T13: 0.0220 T23: -0.0236 REMARK 3 L TENSOR REMARK 3 L11: 1.6912 L22: 0.2343 REMARK 3 L33: 0.2081 L12: 0.3907 REMARK 3 L13: 0.3683 L23: -0.1298 REMARK 3 S TENSOR REMARK 3 S11: -0.0304 S12: -0.2523 S13: -0.0011 REMARK 3 S21: 0.0502 S22: -0.0358 S23: 0.0608 REMARK 3 S31: -0.0087 S32: -0.0510 S33: 0.0536 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 401 THROUGH 527 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.3784 -12.5858 29.5761 REMARK 3 T TENSOR REMARK 3 T11: 0.1703 T22: 0.1710 REMARK 3 T33: 0.0887 T12: 0.0439 REMARK 3 T13: -0.0131 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 1.9339 L22: 1.6992 REMARK 3 L33: 1.1075 L12: 0.8373 REMARK 3 L13: 0.3903 L23: 0.2750 REMARK 3 S TENSOR REMARK 3 S11: -0.0021 S12: -0.3398 S13: 0.0341 REMARK 3 S21: 0.2325 S22: -0.0284 S23: -0.0299 REMARK 3 S31: -0.0630 S32: -0.1304 S33: 0.0015 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 528 THROUGH 550 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.0290 -11.2892 3.0520 REMARK 3 T TENSOR REMARK 3 T11: 0.2655 T22: 0.5203 REMARK 3 T33: 0.3562 T12: -0.0622 REMARK 3 T13: 0.1651 T23: -0.0458 REMARK 3 L TENSOR REMARK 3 L11: 1.9307 L22: 1.6436 REMARK 3 L33: 2.7590 L12: 0.0969 REMARK 3 L13: -0.5008 L23: -0.9736 REMARK 3 S TENSOR REMARK 3 S11: 0.0207 S12: 0.7212 S13: -0.1212 REMARK 3 S21: -0.3357 S22: 0.0159 S23: -0.6261 REMARK 3 S31: -0.0619 S32: 0.5073 S33: 0.1162 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 5KYD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000222915. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.1.1 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55856 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 27.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.63 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.99700 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 1.10.1 REMARK 200 STARTING MODEL: 1NB8, 1UBQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM FLUORIDE, 20% PEG3350, REMARK 280 PH 8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 31.02500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.28000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.28000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.02500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.23500 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 204 REMARK 465 SER A 205 REMARK 465 HIS A 206 REMARK 465 MET A 207 REMARK 465 LYS A 208 REMARK 465 LYS A 209 REMARK 465 GLU A 551 REMARK 465 ALA A 552 REMARK 465 GLN A 553 REMARK 465 LYS A 554 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 OD2 ASP A 366 O HOH A 601 2.08 REMARK 500 NH1 ARG A 424 OE2 GLU A 426 2.10 REMARK 500 O HOH D 147 O HOH A 601 2.14 REMARK 500 O HOH A 642 O HOH A 671 2.14 REMARK 500 O HOH A 756 O HOH A 849 2.15 REMARK 500 NZ LYS D 11 O HOH D 101 2.16 REMARK 500 OE2 GLU A 542 O HOH A 602 2.16 REMARK 500 O HOH A 718 O HOH A 799 2.17 REMARK 500 NH1 ARG A 487 O HOH A 603 2.17 REMARK 500 O HOH A 801 O HOH A 871 2.18 REMARK 500 O HOH D 156 O HOH A 911 2.18 REMARK 500 OH TYR A 411 OD1 ASP A 416 2.19 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 NH2 ARG A 344 O ASP A 416 3545 1.75 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 ASN A 218 79.87 -111.97 REMARK 500 CYS A 223 -119.94 56.09 REMARK 500 TRP A 285 72.03 -117.46 REMARK 500 CYS A 315 1.58 -64.64 REMARK 500 ALA A 381 44.10 -98.62 REMARK 500 GLN A 414 -70.82 -58.69 REMARK 500 ASP A 444 74.57 -153.40 REMARK 500 ASP A 459 -151.82 -132.45 REMARK 500 ASP A 482 -115.61 54.38 REMARK 500 ILE A 494 -82.51 -108.22 REMARK 500 LYS A 548 21.73 -72.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KYB RELATED DB: PDB REMARK 900 RELATED ID: 5KYC RELATED DB: PDB REMARK 900 RELATED ID: 5KYE RELATED DB: PDB REMARK 900 RELATED ID: 5KYF RELATED DB: PDB DBREF 5KYD D 1 76 UNP P0CG47 UBB_HUMAN 1 76 DBREF 5KYD A 208 554 UNP Q93009 UBP7_HUMAN 192 538 SEQADV 5KYD GLY A 204 UNP Q93009 EXPRESSION TAG SEQADV 5KYD SER A 205 UNP Q93009 EXPRESSION TAG SEQADV 5KYD HIS A 206 UNP Q93009 EXPRESSION TAG SEQADV 5KYD MET A 207 UNP Q93009 EXPRESSION TAG SEQADV 5KYD LYS A 302 UNP Q93009 VAL 286 ENGINEERED MUTATION SEQRES 1 D 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 A 351 GLY SER HIS MET LYS LYS HIS THR GLY TYR VAL GLY LEU SEQRES 2 A 351 LYS ASN GLN GLY ALA THR CYS TYR MET ASN SER LEU LEU SEQRES 3 A 351 GLN THR LEU PHE PHE THR ASN GLN LEU ARG LYS ALA VAL SEQRES 4 A 351 TYR MET MET PRO THR GLU GLY ASP ASP SER SER LYS SER SEQRES 5 A 351 VAL PRO LEU ALA LEU GLN ARG VAL PHE TYR GLU LEU GLN SEQRES 6 A 351 HIS SER ASP LYS PRO VAL GLY THR LYS LYS LEU THR LYS SEQRES 7 A 351 SER PHE GLY TRP GLU THR LEU ASP SER PHE MET GLN HIS SEQRES 8 A 351 ASP VAL GLN GLU LEU CYS ARG LYS LEU LEU ASP ASN VAL SEQRES 9 A 351 GLU ASN LYS MET LYS GLY THR CYS VAL GLU GLY THR ILE SEQRES 10 A 351 PRO LYS LEU PHE ARG GLY LYS MET VAL SER TYR ILE GLN SEQRES 11 A 351 CYS LYS GLU VAL ASP TYR ARG SER ASP ARG ARG GLU ASP SEQRES 12 A 351 TYR TYR ASP ILE GLN LEU SER ILE LYS GLY LYS LYS ASN SEQRES 13 A 351 ILE PHE GLU SER PHE VAL ASP TYR VAL ALA VAL GLU GLN SEQRES 14 A 351 LEU ASP GLY ASP ASN LYS TYR ASP ALA GLY GLU HIS GLY SEQRES 15 A 351 LEU GLN GLU ALA GLU LYS GLY VAL LYS PHE LEU THR LEU SEQRES 16 A 351 PRO PRO VAL LEU HIS LEU GLN LEU MET ARG PHE MET TYR SEQRES 17 A 351 ASP PRO GLN THR ASP GLN ASN ILE LYS ILE ASN ASP ARG SEQRES 18 A 351 PHE GLU PHE PRO GLU GLN LEU PRO LEU ASP GLU PHE LEU SEQRES 19 A 351 GLN LYS THR ASP PRO LYS ASP PRO ALA ASN TYR ILE LEU SEQRES 20 A 351 HIS ALA VAL LEU VAL HIS SER GLY ASP ASN HIS GLY GLY SEQRES 21 A 351 HIS TYR VAL VAL TYR LEU ASN PRO LYS GLY ASP GLY LYS SEQRES 22 A 351 TRP CYS LYS PHE ASP ASP ASP VAL VAL SER ARG CYS THR SEQRES 23 A 351 LYS GLU GLU ALA ILE GLU HIS ASN TYR GLY GLY HIS ASP SEQRES 24 A 351 ASP ASP LEU SER VAL ARG HIS CYS THR ASN ALA TYR MET SEQRES 25 A 351 LEU VAL TYR ILE ARG GLU SER LYS LEU SER GLU VAL LEU SEQRES 26 A 351 GLN ALA VAL THR ASP HIS ASP ILE PRO GLN GLN LEU VAL SEQRES 27 A 351 GLU ARG LEU GLN GLU GLU LYS ARG ILE GLU ALA GLN LYS FORMUL 3 HOH *381(H2 O) HELIX 1 AA1 THR D 22 GLY D 35 1 14 HELIX 2 AA2 PRO D 37 ASP D 39 5 3 HELIX 3 AA3 THR D 55 ASN D 60 5 6 HELIX 4 AA4 TYR A 224 PHE A 234 1 11 HELIX 5 AA5 THR A 235 MET A 244 1 10 HELIX 6 AA6 SER A 255 SER A 270 1 16 HELIX 7 AA7 THR A 276 GLY A 284 1 9 HELIX 8 AA8 THR A 287 GLN A 293 1 7 HELIX 9 AA9 ASP A 295 LYS A 312 1 18 HELIX 10 AB1 GLY A 318 ARG A 325 1 8 HELIX 11 AB2 ASN A 359 VAL A 368 1 10 HELIX 12 AB3 ASP A 374 LYS A 378 5 5 HELIX 13 AB4 GLY A 382 HIS A 384 5 3 HELIX 14 AB5 ASP A 434 LEU A 437 5 4 HELIX 15 AB6 THR A 489 ILE A 494 1 6 HELIX 16 AB7 GLU A 495 TYR A 498 5 4 HELIX 17 AB8 LYS A 523 LEU A 528 1 6 HELIX 18 AB9 THR A 532 ILE A 536 5 5 HELIX 19 AC1 PRO A 537 LYS A 548 1 12 SHEET 1 AA1 5 THR D 12 GLU D 16 0 SHEET 2 AA1 5 GLN D 2 LYS D 6 -1 N ILE D 3 O LEU D 15 SHEET 3 AA1 5 THR D 66 LEU D 71 1 O LEU D 67 N PHE D 4 SHEET 4 AA1 5 GLN D 41 PHE D 45 -1 N ILE D 44 O HIS D 68 SHEET 5 AA1 5 LYS D 48 GLN D 49 -1 O LYS D 48 N PHE D 45 SHEET 1 AA2 4 ARG A 340 TYR A 347 0 SHEET 2 AA2 4 GLY A 326 CYS A 334 -1 N ILE A 332 O SER A 341 SHEET 3 AA2 4 ALA A 389 THR A 397 -1 O LEU A 396 N LYS A 327 SHEET 4 AA2 4 GLU A 371 LEU A 373 -1 N LEU A 373 O ALA A 389 SHEET 1 AA3 5 ILE A 350 LEU A 352 0 SHEET 2 AA3 5 VAL A 401 LEU A 406 1 O GLN A 405 N LEU A 352 SHEET 3 AA3 5 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 AA3 5 ASN A 447 GLY A 458 -1 N HIS A 451 O VAL A 517 SHEET 5 AA3 5 GLN A 430 PRO A 432 -1 N LEU A 431 O TYR A 448 SHEET 1 AA4 7 ILE A 350 LEU A 352 0 SHEET 2 AA4 7 VAL A 401 LEU A 406 1 O GLN A 405 N LEU A 352 SHEET 3 AA4 7 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 AA4 7 ASN A 447 GLY A 458 -1 N HIS A 451 O VAL A 517 SHEET 5 AA4 7 GLY A 463 LEU A 469 -1 O VAL A 466 N VAL A 455 SHEET 6 AA4 7 TRP A 477 ASP A 481 -1 O PHE A 480 N VAL A 467 SHEET 7 AA4 7 VAL A 484 CYS A 488 -1 O SER A 486 N LYS A 479 SHEET 1 AA5 2 TYR A 379 ASP A 380 0 SHEET 2 AA5 2 LEU A 386 GLN A 387 -1 O GLN A 387 N TYR A 379 SHEET 1 AA6 2 PHE A 409 ASP A 412 0 SHEET 2 AA6 2 GLN A 417 LYS A 420 -1 O GLN A 417 N ASP A 412 LINK C GLY D 76 SG CYS A 223 1555 1555 1.85 CRYST1 62.050 80.470 86.560 90.00 90.00 90.00 P 21 21 21 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 0.016116 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012427 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011553 0.00000