HEADER HYDROLASE 16-OCT-06 2J7Q TITLE CRYSTAL STRUCTURE OF THE UBIQUITIN-SPECIFIC PROTEASE ENCODED BY MURINE TITLE 2 CYTOMEGALOVIRUS TEGUMENT PROTEIN M48 IN COMPLEX WITH A UBQUITIN-BASED TITLE 3 SUICIDE SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MCMV TEGUMENT PROTEIN M48 ENCODED UBIQUITIN- SPECIFIC COMPND 3 PROTEASE, M48USP; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: DEUBIQUITINATING MODULE OF MURINE CYTOMEGALOVIRUS COMPND 7 TEGUMENT PROTEIN M48. ACTIVE SITE CYSTEINE 23 IS COVALENTLY LINKED TO COMPND 8 THE FORMER VINYLMETHYLESTER MOIETY OF THE SUICIDE SUBSTATE UBVME; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UBIQUITIN; COMPND 11 CHAIN: B, D; COMPND 12 FRAGMENT: UBIQUITIN FUSED TO VINYLMETHYLESTER, UBVME, RESIDUES 1-75; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: THE C-TERMINAL GLY 76 IS REPLACED BY THE COMPND 15 VINYLMETHYLESTER MOIETY; COMPND 16 MOL_ID: 3; COMPND 17 MOLECULE: MCMV TEGUMENT PROTEIN M48 ENCODED UBIQUITIN- SPECIFIC COMPND 18 PROTEASE, M48USP; COMPND 19 CHAIN: C; COMPND 20 ENGINEERED: YES; COMPND 21 OTHER_DETAILS: DEUBIQUITINATING MODULE OF MURINE CYTOMEGALOVIRUS COMPND 22 TEGUMENT PROTEIN M48. ACTIVE SITE CYSTEINE 23 IS COVALENTLY LINKED TO COMPND 23 THE FORMER VINYLMETHYLESTER MOIETY OF THE SUICIDE SUBSTATE UBVME SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MURINE CYTOMEGALOVIRUS; SOURCE 3 ORGANISM_TAXID: 10366; SOURCE 4 STRAIN: MCMV STRAIN SMITH; SOURCE 5 ATCC: VR-1399; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 (NOVAGEN); SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_PLASMID: PTYB (NEW ENGLAND BIOLABS); SOURCE 18 MOL_ID: 3; SOURCE 19 ORGANISM_SCIENTIFIC: MURINE CYTOMEGALOVIRUS; SOURCE 20 ORGANISM_TAXID: 10366; SOURCE 21 STRAIN: MCMV STRAIN SMITH; SOURCE 22 ATCC: VR-1399; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 25 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 26 EXPRESSION_SYSTEM_PLASMID: PET28 (NOVAGEN) KEYWDS HERPESVIRIDAE, NUCLEAR PROTEIN, COVALENT ENZYME-LIGAND COMPLEX, KEYWDS 2 DEUBIQUITINATING ENZYME, HYDROLASE, PAPAIN-LIKE FOLD, CYSTEINE KEYWDS 3 PROTEASE EXPDTA X-RAY DIFFRACTION AUTHOR C.SCHLIEKER,W.A.WEIHOFEN,E.FRIJNS,L.M.KATTENHORN,R.GAUDET,H.L.PLOEGH REVDAT 5 15-NOV-23 2J7Q 1 REMARK LINK ATOM REVDAT 4 13-JUL-11 2J7Q 1 VERSN REVDAT 3 24-FEB-09 2J7Q 1 VERSN REVDAT 2 03-APR-07 2J7Q 1 REMARK REVDAT 1 20-MAR-07 2J7Q 0 JRNL AUTH C.SCHLIEKER,W.A.WEIHOFEN,E.FRIJNS,L.M.KATTENHORN,R.GAUDET, JRNL AUTH 2 H.L.PLOEGH JRNL TITL STRUCTURE OF A HERPESVIRUS-ENCODED CYSTEINE PROTEASE REVEALS JRNL TITL 2 A UNIQUE CLASS OF DEUBIQUITINATING ENZYMES JRNL REF MOL.CELL V. 25 677 2007 JRNL REFN ISSN 1097-2765 JRNL PMID 17349955 JRNL DOI 10.1016/J.MOLCEL.2007.01.033 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 51609 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1076 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3690 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1940 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4755 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 707 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.62000 REMARK 3 B22 (A**2) : -0.50000 REMARK 3 B33 (A**2) : -0.27000 REMARK 3 B12 (A**2) : -0.10000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.26000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.123 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.128 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.840 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4893 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3280 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6628 ; 1.442 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8003 ; 0.939 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 612 ; 6.355 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 205 ;32.307 ;23.805 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 821 ;12.781 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;12.445 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 779 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5378 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 966 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 949 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3438 ; 0.199 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2395 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2501 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 514 ; 0.168 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 27 ; 0.160 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 97 ; 0.245 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 53 ; 0.189 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3763 ; 1.257 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4981 ; 1.379 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2026 ; 2.488 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1647 ; 3.462 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 16 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 44 REMARK 3 ORIGIN FOR THE GROUP (A): -6.5564 16.3499 -16.3688 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: -0.0222 REMARK 3 T33: -0.0222 T12: 0.0228 REMARK 3 T13: 0.0269 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.6089 L22: 1.1867 REMARK 3 L33: 1.6740 L12: 0.1106 REMARK 3 L13: 0.3895 L23: -0.6659 REMARK 3 S TENSOR REMARK 3 S11: 0.0052 S12: -0.0016 S13: 0.1088 REMARK 3 S21: 0.1748 S22: 0.0593 S23: 0.1065 REMARK 3 S31: -0.2354 S32: -0.0803 S33: -0.0645 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 45 A 69 REMARK 3 ORIGIN FOR THE GROUP (A): -14.4750 8.7138 -13.5910 REMARK 3 T TENSOR REMARK 3 T11: -0.0306 T22: 0.0142 REMARK 3 T33: -0.0292 T12: 0.0133 REMARK 3 T13: 0.0347 T23: 0.0103 REMARK 3 L TENSOR REMARK 3 L11: 2.5415 L22: 12.9931 REMARK 3 L33: 3.1041 L12: 4.0853 REMARK 3 L13: -1.5819 L23: -5.8717 REMARK 3 S TENSOR REMARK 3 S11: -0.0106 S12: 0.0588 S13: 0.0354 REMARK 3 S21: 0.0266 S22: 0.2717 S23: 0.3502 REMARK 3 S31: -0.1080 S32: -0.3509 S33: -0.2611 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 70 A 142 REMARK 3 ORIGIN FOR THE GROUP (A): 1.1357 1.8444 -19.9135 REMARK 3 T TENSOR REMARK 3 T11: -0.0405 T22: -0.0287 REMARK 3 T33: -0.0407 T12: -0.0018 REMARK 3 T13: -0.0010 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.9877 L22: 0.7130 REMARK 3 L33: 0.6936 L12: 0.1381 REMARK 3 L13: 0.0756 L23: -0.2583 REMARK 3 S TENSOR REMARK 3 S11: 0.0378 S12: 0.0152 S13: -0.0528 REMARK 3 S21: 0.0015 S22: -0.0372 S23: -0.0407 REMARK 3 S31: 0.0277 S32: 0.0340 S33: -0.0006 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 143 A 183 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3034 16.0723 -18.1917 REMARK 3 T TENSOR REMARK 3 T11: -0.0123 T22: -0.0262 REMARK 3 T33: -0.0199 T12: -0.0208 REMARK 3 T13: 0.0004 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.6930 L22: 1.5166 REMARK 3 L33: 1.7167 L12: 0.1339 REMARK 3 L13: -0.0883 L23: -0.1957 REMARK 3 S TENSOR REMARK 3 S11: 0.0062 S12: 0.0106 S13: 0.1318 REMARK 3 S21: 0.0468 S22: -0.0047 S23: -0.1381 REMARK 3 S31: -0.1479 S32: 0.0733 S33: -0.0015 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 184 A 190 REMARK 3 ORIGIN FOR THE GROUP (A): 14.8939 11.2969 -9.2347 REMARK 3 T TENSOR REMARK 3 T11: -0.0283 T22: 0.0767 REMARK 3 T33: 0.1168 T12: -0.0418 REMARK 3 T13: -0.0387 T23: -0.0394 REMARK 3 L TENSOR REMARK 3 L11: 5.4230 L22: 51.4100 REMARK 3 L33: 3.4062 L12: -15.5488 REMARK 3 L13: 2.9724 L23: -10.3382 REMARK 3 S TENSOR REMARK 3 S11: -0.0002 S12: -0.3385 S13: 0.7202 REMARK 3 S21: 0.5234 S22: -0.2056 S23: -2.5624 REMARK 3 S31: 0.0024 S32: 0.2433 S33: 0.2058 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 191 A 231 REMARK 3 ORIGIN FOR THE GROUP (A): -7.0331 -0.8720 -27.8101 REMARK 3 T TENSOR REMARK 3 T11: -0.0331 T22: -0.0091 REMARK 3 T33: -0.0215 T12: -0.0003 REMARK 3 T13: -0.0005 T23: -0.0143 REMARK 3 L TENSOR REMARK 3 L11: 0.8368 L22: 0.7148 REMARK 3 L33: 1.0612 L12: 0.0385 REMARK 3 L13: 0.3266 L23: -0.0785 REMARK 3 S TENSOR REMARK 3 S11: 0.0287 S12: 0.1499 S13: -0.0839 REMARK 3 S21: -0.0495 S22: 0.0335 S23: 0.0672 REMARK 3 S31: 0.0455 S32: -0.0431 S33: -0.0623 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 37 REMARK 3 ORIGIN FOR THE GROUP (A): 7.6994 -16.8115 -4.1404 REMARK 3 T TENSOR REMARK 3 T11: -0.0061 T22: -0.0407 REMARK 3 T33: -0.0628 T12: 0.0085 REMARK 3 T13: -0.0012 T23: 0.0083 REMARK 3 L TENSOR REMARK 3 L11: 1.0621 L22: 4.4957 REMARK 3 L33: 3.6978 L12: -0.1140 REMARK 3 L13: -0.4672 L23: -1.2689 REMARK 3 S TENSOR REMARK 3 S11: -0.0124 S12: -0.1613 S13: -0.0260 REMARK 3 S21: 0.0158 S22: -0.0971 S23: -0.2534 REMARK 3 S31: 0.3000 S32: 0.1964 S33: 0.1095 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 38 B 75 REMARK 3 ORIGIN FOR THE GROUP (A): 5.7283 -16.1304 -12.6627 REMARK 3 T TENSOR REMARK 3 T11: 0.0763 T22: -0.0550 REMARK 3 T33: -0.0827 T12: -0.0062 REMARK 3 T13: 0.0110 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.0369 L22: 6.5192 REMARK 3 L33: 2.5788 L12: -0.7064 REMARK 3 L13: -0.2738 L23: -1.7443 REMARK 3 S TENSOR REMARK 3 S11: 0.0278 S12: -0.0296 S13: -0.0531 REMARK 3 S21: -0.7825 S22: -0.0890 S23: -0.0961 REMARK 3 S31: 0.4466 S32: 0.0745 S33: 0.0612 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 53 REMARK 3 ORIGIN FOR THE GROUP (A): -7.9868 -16.5924 16.1592 REMARK 3 T TENSOR REMARK 3 T11: -0.0239 T22: -0.0221 REMARK 3 T33: -0.0205 T12: -0.0111 REMARK 3 T13: -0.0174 T23: -0.0045 REMARK 3 L TENSOR REMARK 3 L11: 0.6756 L22: 1.0367 REMARK 3 L33: 1.2231 L12: 0.1677 REMARK 3 L13: -0.1155 L23: -0.3475 REMARK 3 S TENSOR REMARK 3 S11: 0.0199 S12: 0.0032 S13: -0.1068 REMARK 3 S21: -0.0856 S22: 0.0449 S23: 0.0575 REMARK 3 S31: 0.1648 S32: -0.0688 S33: -0.0648 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 54 C 76 REMARK 3 ORIGIN FOR THE GROUP (A): -14.3669 -0.9386 8.8831 REMARK 3 T TENSOR REMARK 3 T11: -0.0527 T22: 0.0219 REMARK 3 T33: -0.0034 T12: 0.0092 REMARK 3 T13: -0.0189 T23: 0.0130 REMARK 3 L TENSOR REMARK 3 L11: 1.8458 L22: 3.2847 REMARK 3 L33: 1.2209 L12: 0.2589 REMARK 3 L13: -0.3732 L23: -1.1225 REMARK 3 S TENSOR REMARK 3 S11: 0.0210 S12: 0.1088 S13: 0.2464 REMARK 3 S21: 0.0023 S22: 0.1361 S23: 0.2495 REMARK 3 S31: 0.0126 S32: -0.2442 S33: -0.1570 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 77 C 142 REMARK 3 ORIGIN FOR THE GROUP (A): 2.1698 -2.2589 20.8187 REMARK 3 T TENSOR REMARK 3 T11: -0.0447 T22: -0.0309 REMARK 3 T33: -0.0366 T12: 0.0050 REMARK 3 T13: -0.0036 T23: -0.0141 REMARK 3 L TENSOR REMARK 3 L11: 0.8868 L22: 0.8156 REMARK 3 L33: 0.5463 L12: 0.0083 REMARK 3 L13: -0.1174 L23: -0.2641 REMARK 3 S TENSOR REMARK 3 S11: 0.0110 S12: -0.0539 S13: 0.0635 REMARK 3 S21: 0.0267 S22: -0.0169 S23: -0.0549 REMARK 3 S31: -0.0165 S32: 0.0174 S33: 0.0059 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 143 C 182 REMARK 3 ORIGIN FOR THE GROUP (A): 4.4878 -16.4281 17.8167 REMARK 3 T TENSOR REMARK 3 T11: -0.0121 T22: -0.0427 REMARK 3 T33: -0.0122 T12: 0.0160 REMARK 3 T13: -0.0023 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.2064 L22: 0.7558 REMARK 3 L33: 1.4436 L12: 0.0968 REMARK 3 L13: -0.0060 L23: 0.2525 REMARK 3 S TENSOR REMARK 3 S11: -0.0093 S12: -0.0298 S13: -0.1331 REMARK 3 S21: -0.0421 S22: 0.0206 S23: -0.1086 REMARK 3 S31: 0.1304 S32: 0.0671 S33: -0.0112 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 183 C 196 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5942 -7.5729 10.8259 REMARK 3 T TENSOR REMARK 3 T11: -0.0399 T22: 0.0079 REMARK 3 T33: 0.0054 T12: 0.0155 REMARK 3 T13: 0.0102 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 0.9605 L22: 3.2872 REMARK 3 L33: 0.2894 L12: -0.1847 REMARK 3 L13: 0.1793 L23: 0.1045 REMARK 3 S TENSOR REMARK 3 S11: 0.0555 S12: 0.1530 S13: -0.0156 REMARK 3 S21: -0.2110 S22: 0.0263 S23: -0.3664 REMARK 3 S31: 0.0262 S32: 0.1267 S33: -0.0818 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 197 C 231 REMARK 3 ORIGIN FOR THE GROUP (A): -9.2912 1.9786 30.4134 REMARK 3 T TENSOR REMARK 3 T11: -0.0374 T22: 0.0008 REMARK 3 T33: 0.0081 T12: 0.0047 REMARK 3 T13: 0.0131 T23: -0.0393 REMARK 3 L TENSOR REMARK 3 L11: 2.4386 L22: 1.7359 REMARK 3 L33: 1.4818 L12: 1.2805 REMARK 3 L13: 0.2569 L23: 0.4279 REMARK 3 S TENSOR REMARK 3 S11: 0.0976 S12: -0.2999 S13: 0.2928 REMARK 3 S21: 0.1536 S22: -0.1371 S23: 0.1877 REMARK 3 S31: -0.0199 S32: -0.1112 S33: 0.0394 REMARK 3 REMARK 3 TLS GROUP : 15 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 40 REMARK 3 ORIGIN FOR THE GROUP (A): 7.5666 15.8486 3.7185 REMARK 3 T TENSOR REMARK 3 T11: -0.0070 T22: -0.0374 REMARK 3 T33: -0.0478 T12: -0.0168 REMARK 3 T13: 0.0227 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 1.1129 L22: 4.5252 REMARK 3 L33: 1.4727 L12: -0.3040 REMARK 3 L13: 0.2746 L23: -0.0712 REMARK 3 S TENSOR REMARK 3 S11: 0.0186 S12: 0.1016 S13: 0.0598 REMARK 3 S21: -0.2639 S22: 0.0081 S23: -0.2718 REMARK 3 S31: -0.2021 S32: 0.0703 S33: -0.0268 REMARK 3 REMARK 3 TLS GROUP : 16 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 41 D 75 REMARK 3 ORIGIN FOR THE GROUP (A): 6.8389 16.3845 12.4469 REMARK 3 T TENSOR REMARK 3 T11: 0.0155 T22: -0.0422 REMARK 3 T33: -0.0404 T12: -0.0190 REMARK 3 T13: -0.0167 T23: -0.0061 REMARK 3 L TENSOR REMARK 3 L11: 0.2607 L22: 6.1082 REMARK 3 L33: 1.3041 L12: 0.2892 REMARK 3 L13: 0.1172 L23: -0.8626 REMARK 3 S TENSOR REMARK 3 S11: 0.0354 S12: -0.0229 S13: 0.0553 REMARK 3 S21: 0.4771 S22: -0.1342 S23: -0.2773 REMARK 3 S31: -0.2714 S32: 0.0492 S33: 0.0988 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2J7Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-OCT-06. REMARK 100 THE DEPOSITION ID IS D_1290030235. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 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) : 0.9797 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52323 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.27000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL2MAP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM MAGNESIUM FORMATE, 14% PEG REMARK 280 3350, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MSE A 37 CG - SE - CE ANGL. DEV. = -14.5 DEGREES 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 THR A 72 160.61 158.14 REMARK 500 THR A 104 -151.89 -107.91 REMARK 500 MSE A 187 35.78 -142.58 REMARK 500 THR C 104 -145.05 -108.70 REMARK 500 THR C 185 -147.21 -128.15 REMARK 500 MSE C 187 49.24 -145.93 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 A2023 DISTANCE = 5.85 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1234 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 41 O REMARK 620 2 ASP A 44 OD1 91.9 REMARK 620 3 ASP A 44 OD2 85.3 50.2 REMARK 620 4 SER A 47 OG 77.7 71.6 118.5 REMARK 620 5 HOH A2045 O 171.3 81.1 94.2 95.0 REMARK 620 6 HOH A2047 O 90.4 135.5 85.7 151.4 98.3 REMARK 620 7 HOH A2053 O 91.7 150.7 159.1 80.8 91.8 73.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1076 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 18 OE1 REMARK 620 2 HOH B2015 O 84.6 REMARK 620 3 HOH B2016 O 88.3 168.6 REMARK 620 4 HOH D2038 O 87.9 95.3 93.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1076 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2019 O REMARK 620 2 HOH B2025 O 87.7 REMARK 620 3 GLU D 18 OE1 99.1 170.9 REMARK 620 4 HOH D2026 O 90.5 94.9 91.1 REMARK 620 5 HOH D2027 O 95.5 87.8 85.6 173.5 REMARK 620 N 1 2 3 4 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1076 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1076 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GVE A1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B1077 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GVE C1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C1234 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C3T RELATED DB: PDB REMARK 900 ROTAMER STRAIN AS A DETERMINANT OF PROTEIN STRUCTURALSPECIFICITY REMARK 900 RELATED ID: 1D3Z RELATED DB: PDB REMARK 900 UBIQUITIN NMR STRUCTURE REMARK 900 RELATED ID: 1F9J RELATED DB: PDB REMARK 900 STRUCTURE OF A NEW CRYSTAL FORM OF TETRAUBIQUITIN REMARK 900 RELATED ID: 1FXT RELATED DB: PDB REMARK 900 STRUCTURE OF A CONJUGATING ENZYME-UBIQUITIN THIOLESTERCOMPLEX REMARK 900 RELATED ID: 1G6J RELATED DB: PDB REMARK 900 STRUCTURE OF RECOMBINANT HUMAN UBIQUITIN IN AOT REVERSEMICELLES REMARK 900 RELATED ID: 1GJZ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A DIMERIC N-TERMINAL FRAGMENT OF HUMAN REMARK 900 UBIQUITIN REMARK 900 RELATED ID: 1NBF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A UBP-FAMILY DEUBIQUITINATING ENZYMEIN REMARK 900 ISOLATION AND IN COMPLEX WITH UBIQUITIN ALDEHYDE REMARK 900 RELATED ID: 1OGW RELATED DB: PDB REMARK 900 SYNTHETIC UBIQUITIN WITH FLUORO-LEU AT 50 AND 67 REMARK 900 RELATED ID: 1Q5W RELATED DB: PDB REMARK 900 UBIQUITIN RECOGNITION BY NPL4 ZINC-FINGERS REMARK 900 RELATED ID: 1S1Q RELATED DB: PDB REMARK 900 TSG101(UEV) DOMAIN IN COMPLEX WITH UBIQUITIN REMARK 900 RELATED ID: 1SIF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A MULTIPLE HYDROPHOBIC CORE MUTANT OFUBIQUITIN REMARK 900 RELATED ID: 1TBE RELATED DB: PDB REMARK 900 TETRAUBIQUITIN REMARK 900 RELATED ID: 1UBI RELATED DB: PDB REMARK 900 UBIQUITIN REMARK 900 RELATED ID: 1UBQ RELATED DB: PDB REMARK 900 UBIQUITIN REMARK 900 RELATED ID: 1XD3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF UCHL3-UBVME COMPLEX REMARK 900 RELATED ID: 1XQQ RELATED DB: PDB REMARK 900 SIMULTANEOUS DETERMINATION OF PROTEIN STRUCTURE AND DYNAMICS REMARK 900 RELATED ID: 1YX5 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF S5A UIM-1/UBIQUITIN COMPLEX REMARK 900 RELATED ID: 1YX6 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF S5A UIM-2/UBIQUITIN COMPLEX REMARK 900 RELATED ID: 1ZGU RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE HUMAN MMS2- UBIQUITIN COMPLEX REMARK 900 RELATED ID: 2AYO RELATED DB: PDB REMARK 900 STRUCTURE OF USP14 BOUND TO UBQUITIN ALDEHYDE REMARK 900 RELATED ID: 2BGF RELATED DB: PDB REMARK 900 NMR STRUCTURE OF LYS48-LINKED DI-UBIQUITIN USING CHEMICAL SHIFT REMARK 900 PERTURBATION DATA TOGETHER WITH RDCS AND 15N-RELAXATION DATA REMARK 900 RELATED ID: 2FCM RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF A CHEMICALLY SYNTHESIZED [D-GLN35] REMARK 900 UBIQUITIN WITH A CUBIC SPACE GROUP REMARK 900 RELATED ID: 2FCN RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF A CHEMICALLY SYNTHESIZED [D-VAL35] REMARK 900 UBIQUITIN WITH A CUBIC SPACE GROUP REMARK 900 RELATED ID: 2FCQ RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF A CHEMICALLY SYNTHESIZEDUBIQUITIN WITH A REMARK 900 CUBIC SPACE GROUP REMARK 900 RELATED ID: 2FCS RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF A CHEMICALLY SYNTHESIZED [L-GLN35] REMARK 900 UBIQUITIN WITH A CUBIC SPACE GROUP REMARK 900 RELATED ID: 2FUH RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE UBCH5C/UB NON- COVALENT COMPLEX REMARK 900 RELATED ID: 2G45 RELATED DB: PDB REMARK 900 CO-CRYSTAL STRUCTURE OF ZNF UBP DOMAIN FROM THEDEUBIQUITINATING REMARK 900 ENZYME ISOPEPTIDASE T (ISOT) IN COMPLEXWITH UBIQUITIN REMARK 900 RELATED ID: 2GBK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE 9-10 MOAD INSERTION MUTANT OFUBIQUITIN REMARK 900 RELATED ID: 2GBM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE 35-36 8 GLYCINE INSERTION MUTANTOF REMARK 900 UBIQUITIN REMARK 900 RELATED ID: 2GBN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE 35-36 8 GLYCINE INSERTION MUTANTOF REMARK 900 UBIQUITIN DBREF 2J7Q A 1 232 PDB 2J7Q 2J7Q 1 232 DBREF 2J7Q C 1 232 PDB 2J7Q 2J7Q 1 232 DBREF 2J7Q B 1 75 UNP P62988 UBIQ_HUMAN 1 75 DBREF 2J7Q D 1 75 UNP P62988 UBIQ_HUMAN 1 75 SEQRES 1 A 232 MSE LYS ILE VAL ARG ALA SER ARG ASP GLN SER ALA PRO SEQRES 2 A 232 VAL TYR GLY PRO ARG ALA GLY SER GLN CYS MSE SER ASN SEQRES 3 A 232 CYS PHE THR PHE LEU HIS THR CYS TYR LEU MSE GLY ILE SEQRES 4 A 232 ASP PRO VAL LEU ASP THR THR SER LEU ASP ALA VAL LEU SEQRES 5 A 232 ASP SER GLY ALA ARG LEU ASP ALA ILE ALA ASP GLU LYS SEQRES 6 A 232 VAL LYS ARG GLN ALA LEU THR ASP HIS PRO TYR ARG LEU SEQRES 7 A 232 GLY THR GLU ILE PRO THR VAL ILE GLU THR PRO ALA GLY SEQRES 8 A 232 ILE THR GLY HIS ALA LEU SER ARG PRO PHE ASN GLY THR SEQRES 9 A 232 ALA GLU THR GLN ASP LEU GLY GLY TYR LYS CYS LEU GLY SEQRES 10 A 232 ILE LEU ASP PHE LEU THR TYR ALA ARG GLY LYS PRO LEU SEQRES 11 A 232 PRO VAL TYR ILE ILE VAL THR VAL GLY VAL HIS THR ARG SEQRES 12 A 232 GLY VAL ILE VAL ALA ARG GLY ALA THR TYR VAL PHE ASP SEQRES 13 A 232 PRO HIS THR THR ASP LEU SER ALA GLU ALA ALA VAL TYR SEQRES 14 A 232 VAL CYS ASP ASP PHE THR GLU ALA ILE SER ALA LEU SER SEQRES 15 A 232 PHE PHE THR GLU MSE ILE GLY ASP PHE TYR TYR ASP ALA SEQRES 16 A 232 VAL LEU VAL TYR PHE THR ARG CYS ARG THR THR LEU ILE SEQRES 17 A 232 SER PRO SER GLU LEU LEU VAL GLN ILE MSE ASP GLN TYR SEQRES 18 A 232 LYS ASP PRO ASP ILE ASP ALA SER VAL MSE SER SEQRES 1 B 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY SEQRES 1 C 232 MSE LYS ILE VAL ARG ALA SER ARG ASP GLN SER ALA PRO SEQRES 2 C 232 VAL TYR GLY PRO ARG ALA GLY SER GLN CYS MSE SER ASN SEQRES 3 C 232 CYS PHE THR PHE LEU HIS THR CYS TYR LEU MSE GLY ILE SEQRES 4 C 232 ASP PRO VAL LEU ASP THR THR SER LEU ASP ALA VAL LEU SEQRES 5 C 232 ASP SER GLY ALA ARG LEU ASP ALA ILE ALA ASP GLU LYS SEQRES 6 C 232 VAL LYS ARG GLN ALA LEU THR ASP HIS PRO TYR ARG LEU SEQRES 7 C 232 GLY THR GLU ILE PRO THR VAL ILE GLU THR PRO ALA GLY SEQRES 8 C 232 ILE THR GLY HIS ALA LEU SER ARG PRO PHE ASN GLY THR SEQRES 9 C 232 ALA GLU THR GLN ASP LEU GLY GLY TYR LYS CYS LEU GLY SEQRES 10 C 232 ILE LEU ASP PHE LEU THR TYR ALA ARG GLY LYS PRO LEU SEQRES 11 C 232 PRO VAL TYR ILE ILE VAL THR VAL GLY VAL PHE THR ARG SEQRES 12 C 232 GLY VAL ILE VAL ALA ARG GLY ALA THR TYR VAL PHE ASP SEQRES 13 C 232 PRO HIS THR THR ASP LEU SER ALA GLU ALA ALA VAL TYR SEQRES 14 C 232 VAL CYS ASP ASP PHE THR GLU ALA ILE SER ALA LEU SER SEQRES 15 C 232 PHE PHE THR GLU MSE ILE GLY ASP PHE TYR TYR ASP ALA SEQRES 16 C 232 VAL LEU VAL TYR PHE THR ARG CYS ARG THR THR LEU ILE SEQRES 17 C 232 SER PRO SER GLU LEU LEU VAL GLN ILE MSE ASP GLN TYR SEQRES 18 C 232 LYS ASP PRO ASP ILE ASP ALA SER VAL MSE SER SEQRES 1 D 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY MODRES 2J7Q MSE A 1 MET SELENOMETHIONINE MODRES 2J7Q MSE A 24 MET SELENOMETHIONINE MODRES 2J7Q MSE A 37 MET SELENOMETHIONINE MODRES 2J7Q MSE A 187 MET SELENOMETHIONINE MODRES 2J7Q MSE A 218 MET SELENOMETHIONINE MODRES 2J7Q MSE A 231 MET SELENOMETHIONINE MODRES 2J7Q MSE C 1 MET SELENOMETHIONINE MODRES 2J7Q MSE C 24 MET SELENOMETHIONINE MODRES 2J7Q MSE C 37 MET SELENOMETHIONINE MODRES 2J7Q MSE C 187 MET SELENOMETHIONINE MODRES 2J7Q MSE C 218 MET SELENOMETHIONINE MODRES 2J7Q MSE C 231 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 24 8 HET MSE A 37 8 HET MSE A 187 8 HET MSE A 218 8 HET MSE A 231 8 HET MSE C 1 8 HET MSE C 24 8 HET MSE C 37 8 HET MSE C 187 8 HET MSE C 218 8 HET MSE C 231 8 HET MG A1234 1 HET GVE A1235 8 HET MG B1076 1 HET PG4 B1077 13 HET GOL C1234 6 HET GVE C1235 8 HET MG D1076 1 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM GVE METHYL 4-AMINOBUTANOATE HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 5 MG 3(MG 2+) FORMUL 6 GVE 2(C5 H11 N O2) FORMUL 8 PG4 C8 H18 O5 FORMUL 9 GOL C3 H8 O3 FORMUL 12 HOH *707(H2 O) HELIX 1 1 ALA A 12 GLY A 16 5 5 HELIX 2 2 GLN A 22 GLY A 38 1 17 HELIX 3 3 ILE A 39 LEU A 43 5 5 HELIX 4 4 ASP A 44 ALA A 70 1 27 HELIX 5 5 LEU A 78 ILE A 82 5 5 HELIX 6 6 GLY A 117 GLY A 127 1 11 HELIX 7 7 ASP A 173 SER A 182 1 10 HELIX 8 8 MSE A 187 PHE A 191 5 5 HELIX 9 9 SER A 209 LYS A 222 1 14 HELIX 10 10 ASP A 227 MSE A 231 5 5 HELIX 11 11 THR B 22 GLY B 35 1 14 HELIX 12 12 PRO B 37 ASP B 39 5 3 HELIX 13 13 LEU B 56 ASN B 60 5 5 HELIX 14 14 ALA C 12 GLY C 16 5 5 HELIX 15 15 GLN C 22 GLY C 38 1 17 HELIX 16 16 ILE C 39 LEU C 43 5 5 HELIX 17 17 ASP C 44 ALA C 70 1 27 HELIX 18 18 LEU C 78 ILE C 82 5 5 HELIX 19 19 GLY C 117 GLY C 127 1 11 HELIX 20 20 ASP C 173 SER C 182 1 10 HELIX 21 21 MSE C 187 PHE C 191 5 5 HELIX 22 22 SER C 209 LYS C 222 1 14 HELIX 23 23 ALA C 228 SER C 232 5 5 HELIX 24 24 THR D 22 GLY D 35 1 14 HELIX 25 25 PRO D 37 ASP D 39 5 3 HELIX 26 26 LEU D 56 ASN D 60 5 5 SHEET 1 AA 8 LYS A 2 ARG A 5 0 SHEET 2 AA 8 ALA A 167 CYS A 171 -1 O VAL A 168 N VAL A 4 SHEET 3 AA 8 THR A 152 ASP A 156 -1 O THR A 152 N CYS A 171 SHEET 4 AA 8 HIS A 141 VAL A 147 -1 O GLY A 144 N PHE A 155 SHEET 5 AA 8 VAL A 132 VAL A 138 -1 O VAL A 132 N VAL A 147 SHEET 6 AA 8 TYR A 193 CYS A 203 -1 O ASP A 194 N THR A 137 SHEET 7 AA 8 GLY A 91 LEU A 97 -1 O ILE A 92 N CYS A 203 SHEET 8 AA 8 VAL A 85 THR A 88 -1 O ILE A 86 N THR A 93 SHEET 1 AB 7 LYS A 2 ARG A 5 0 SHEET 2 AB 7 ALA A 167 CYS A 171 -1 O VAL A 168 N VAL A 4 SHEET 3 AB 7 THR A 152 ASP A 156 -1 O THR A 152 N CYS A 171 SHEET 4 AB 7 HIS A 141 VAL A 147 -1 O GLY A 144 N PHE A 155 SHEET 5 AB 7 VAL A 132 VAL A 138 -1 O VAL A 132 N VAL A 147 SHEET 6 AB 7 TYR A 193 CYS A 203 -1 O ASP A 194 N THR A 137 SHEET 7 AB 7 PHE A 101 GLY A 103 -1 O PHE A 101 N ALA A 195 SHEET 1 AC 2 GLN A 108 LEU A 110 0 SHEET 2 AC 2 TYR A 113 CYS A 115 -1 O TYR A 113 N LEU A 110 SHEET 1 BA 5 THR B 12 GLU B 16 0 SHEET 2 BA 5 GLN B 2 THR B 7 -1 O ILE B 3 N LEU B 15 SHEET 3 BA 5 THR B 66 LEU B 71 1 O LEU B 67 N LYS B 6 SHEET 4 BA 5 GLN B 41 PHE B 45 -1 O ARG B 42 N VAL B 70 SHEET 5 BA 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 SHEET 1 CA 8 LYS C 2 ARG C 5 0 SHEET 2 CA 8 ALA C 167 CYS C 171 -1 O VAL C 168 N VAL C 4 SHEET 3 CA 8 THR C 152 ASP C 156 -1 O THR C 152 N CYS C 171 SHEET 4 CA 8 PHE C 141 VAL C 147 -1 O GLY C 144 N PHE C 155 SHEET 5 CA 8 VAL C 132 VAL C 138 -1 O VAL C 132 N VAL C 147 SHEET 6 CA 8 TYR C 193 ARG C 202 -1 O ASP C 194 N THR C 137 SHEET 7 CA 8 GLY C 91 LEU C 97 -1 O GLY C 94 N THR C 201 SHEET 8 CA 8 VAL C 85 THR C 88 -1 O ILE C 86 N THR C 93 SHEET 1 CB 7 LYS C 2 ARG C 5 0 SHEET 2 CB 7 ALA C 167 CYS C 171 -1 O VAL C 168 N VAL C 4 SHEET 3 CB 7 THR C 152 ASP C 156 -1 O THR C 152 N CYS C 171 SHEET 4 CB 7 PHE C 141 VAL C 147 -1 O GLY C 144 N PHE C 155 SHEET 5 CB 7 VAL C 132 VAL C 138 -1 O VAL C 132 N VAL C 147 SHEET 6 CB 7 TYR C 193 ARG C 202 -1 O ASP C 194 N THR C 137 SHEET 7 CB 7 PHE C 101 GLY C 103 -1 O PHE C 101 N ALA C 195 SHEET 1 CC 2 GLN C 108 LEU C 110 0 SHEET 2 CC 2 TYR C 113 CYS C 115 -1 O TYR C 113 N LEU C 110 SHEET 1 DA 5 THR D 12 GLU D 16 0 SHEET 2 DA 5 GLN D 2 THR D 7 -1 O ILE D 3 N LEU D 15 SHEET 3 DA 5 THR D 66 LEU D 71 1 O LEU D 67 N LYS D 6 SHEET 4 DA 5 GLN D 41 PHE D 45 -1 O ARG D 42 N VAL D 70 SHEET 5 DA 5 LYS D 48 GLN D 49 -1 O LYS D 48 N PHE D 45 LINK C MSE A 1 N LYS A 2 1555 1555 1.33 LINK C CYS A 23 N MSE A 24 1555 1555 1.32 LINK SG CYS A 23 CB GVE A1235 1555 1555 1.66 LINK C MSE A 24 N SER A 25 1555 1555 1.33 LINK C LEU A 36 N MSE A 37 1555 1555 1.33 LINK C MSE A 37 N GLY A 38 1555 1555 1.33 LINK C GLU A 186 N MSE A 187 1555 1555 1.33 LINK C MSE A 187 N ILE A 188 1555 1555 1.33 LINK C ILE A 217 N MSE A 218 1555 1555 1.33 LINK C MSE A 218 N ASP A 219 1555 1555 1.32 LINK C VAL A 230 N MSE A 231 1555 1555 1.33 LINK C MSE A 231 N SER A 232 1555 1555 1.33 LINK N GVE A1235 C GLY B 75 1555 1555 1.30 LINK C MSE C 1 N LYS C 2 1555 1555 1.32 LINK C CYS C 23 N MSE C 24 1555 1555 1.33 LINK SG CYS C 23 CB GVE C1235 1555 1555 1.67 LINK C MSE C 24 N SER C 25 1555 1555 1.34 LINK C LEU C 36 N MSE C 37 1555 1555 1.33 LINK C MSE C 37 N GLY C 38 1555 1555 1.33 LINK C GLU C 186 N MSE C 187 1555 1555 1.32 LINK C MSE C 187 N ILE C 188 1555 1555 1.33 LINK C ILE C 217 N MSE C 218 1555 1555 1.33 LINK C MSE C 218 N ASP C 219 1555 1555 1.33 LINK C VAL C 230 N MSE C 231 1555 1555 1.33 LINK C MSE C 231 N SER C 232 1555 1555 1.33 LINK N GVE C1235 C GLY D 75 1555 1555 1.27 LINK O PRO A 41 MG MG A1234 1555 1555 2.30 LINK OD1 ASP A 44 MG MG A1234 1555 1555 2.67 LINK OD2 ASP A 44 MG MG A1234 1555 1555 2.38 LINK OG SER A 47 MG MG A1234 1555 1555 2.37 LINK MG MG A1234 O HOH A2045 1555 1555 2.36 LINK MG MG A1234 O HOH A2047 1555 1555 2.27 LINK MG MG A1234 O HOH A2053 1555 1555 2.31 LINK OE1 GLU B 18 MG MG B1076 1555 1555 2.17 LINK MG MG B1076 O HOH B2015 1555 1555 1.86 LINK MG MG B1076 O HOH B2016 1555 1555 2.22 LINK MG MG B1076 O HOH D2038 1555 1545 2.15 LINK O HOH B2019 MG MG D1076 1565 1555 2.15 LINK O HOH B2025 MG MG D1076 1565 1555 2.07 LINK OE1 GLU D 18 MG MG D1076 1555 1555 2.18 LINK MG MG D1076 O HOH D2026 1555 1555 2.17 LINK MG MG D1076 O HOH D2027 1555 1555 2.06 CISPEP 1 LEU A 130 PRO A 131 0 -2.79 CISPEP 2 LEU C 130 PRO C 131 0 -3.22 SITE 1 AC1 6 PRO A 41 ASP A 44 SER A 47 HOH A2045 SITE 2 AC1 6 HOH A2047 HOH A2053 SITE 1 AC2 5 GLU B 18 HOH B2015 HOH B2016 LYS D 29 SITE 2 AC2 5 HOH D2038 SITE 1 AC3 6 LYS B 29 HOH B2019 HOH B2025 GLU D 18 SITE 2 AC3 6 HOH D2026 HOH D2027 SITE 1 AC4 9 GLY A 20 SER A 21 CYS A 23 TYR A 76 SITE 2 AC4 9 VAL A 140 HIS A 141 HOH A2246 GLY B 75 SITE 3 AC4 9 GLN D 31 SITE 1 AC5 14 GLU A 87 LEU A 119 ARG A 126 ALA A 151 SITE 2 AC5 14 THR A 152 CYS A 171 ASP A 172 ASP A 173 SITE 3 AC5 14 PHE A 174 THR A 175 HOH A2110 HOH A2163 SITE 4 AC5 14 HOH B2082 HOH B2083 SITE 1 AC6 6 GLY C 20 CYS C 23 TYR C 76 VAL C 140 SITE 2 AC6 6 PHE C 141 GLY D 75 SITE 1 AC7 7 PRO C 129 PRO C 131 VAL C 132 TYR C 133 SITE 2 AC7 7 VAL C 198 TYR C 221 HOH C2277 CRYST1 40.907 57.298 67.279 73.37 85.37 88.54 P 1 2 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 0.024446 -0.000623 -0.001880 0.00000 SCALE2 0.000000 0.017458 -0.005194 0.00000 SCALE3 0.000000 0.000000 0.015558 0.00000 MTRIX1 1 0.998300 -0.055530 -0.017600 -0.22632 1 MTRIX2 1 -0.055420 -0.998440 0.007120 0.20380 1 MTRIX3 1 -0.017970 -0.006140 -0.999820 -0.53680 1 MTRIX1 2 0.998910 -0.043690 0.016500 -0.01119 1 MTRIX2 2 -0.043640 -0.999040 -0.003440 -0.05838 1 MTRIX3 2 0.016630 0.002720 -0.999860 -0.73378 1 HETATM 1 N MSE A 1 11.457 23.673 -21.424 1.00 27.34 N HETATM 2 CA MSE A 1 10.155 23.129 -20.928 1.00 28.11 C HETATM 3 C MSE A 1 9.161 24.250 -20.562 1.00 26.28 C HETATM 4 O MSE A 1 9.530 25.222 -19.909 1.00 26.89 O HETATM 5 CB MSE A 1 10.391 22.228 -19.703 1.00 28.39 C HETATM 6 CG MSE A 1 9.423 21.070 -19.579 1.00 29.91 C HETATM 7 SE MSE A 1 9.341 20.336 -17.748 1.00 36.91 SE HETATM 8 CE MSE A 1 11.267 20.274 -17.281 1.00 36.98 C