HEADER LIGASE 26-OCT-05 2ESQ TITLE HUMAN UBIQUITIN-CONJUGATING ENZYME (E2) UBCH5B MUTANT SER94GLY COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 D2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UBIQUITIN-PROTEIN LIGASE D2, UBIQUITIN CARRIER PROTEIN D2, COMPND 5 UBIQUITIN-CONJUGATING ENZYME E2-17 KDA 2, E217, KB 2; COMPND 6 EC: 6.3.2.19; COMPND 7 ENGINEERED: YES; COMPND 8 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: UBE2D2, UBC4, UBCH5B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PHIS-PARALLEL KEYWDS LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR E.OZKAN,H.YU,J.DEISENHOFER REVDAT 7 23-AUG-23 2ESQ 1 REMARK REVDAT 6 20-OCT-21 2ESQ 1 SEQADV REVDAT 5 18-OCT-17 2ESQ 1 REMARK REVDAT 4 13-JUL-11 2ESQ 1 VERSN REVDAT 3 24-FEB-09 2ESQ 1 VERSN REVDAT 2 10-JAN-06 2ESQ 1 JRNL REVDAT 1 06-DEC-05 2ESQ 0 JRNL AUTH E.OZKAN,H.YU,J.DEISENHOFER JRNL TITL MECHANISTIC INSIGHT INTO THE ALLOSTERIC ACTIVATION OF A JRNL TITL 2 UBIQUITIN-CONJUGATING ENZYME BY RING-TYPE UBIQUITIN LIGASES JRNL REF PROC.NATL.ACAD.SCI.USA V. 102 18890 2005 JRNL REFN ISSN 0027-8424 JRNL PMID 16365295 JRNL DOI 10.1073/PNAS.0509418102 REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.2.0005 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) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 25571 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1369 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) : 1.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.48 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1791 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1185 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 148 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) : 22.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.82000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 1.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.067 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.548 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1263 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1734 ; 2.369 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 163 ;14.058 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 54 ;30.218 ;23.519 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 211 ;13.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;11.898 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 189 ; 0.154 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 980 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 617 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 882 ; 0.324 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 92 ; 0.163 ; 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): 57 ; 0.245 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.180 ; 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): 806 ; 1.568 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1277 ; 2.051 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 536 ; 3.379 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 449 ; 5.039 ; 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 : 20 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 5 REMARK 3 ORIGIN FOR THE GROUP (A): 37.4270 -7.1230 58.9960 REMARK 3 T TENSOR REMARK 3 T11: -0.0142 T22: -0.0436 REMARK 3 T33: 0.0661 T12: 0.0444 REMARK 3 T13: 0.0539 T23: 0.0194 REMARK 3 L TENSOR REMARK 3 L11: 13.7089 L22: 9.2475 REMARK 3 L33: 4.9769 L12: 3.4862 REMARK 3 L13: 0.1530 L23: -0.2201 REMARK 3 S TENSOR REMARK 3 S11: 0.2028 S12: 0.0386 S13: 0.0953 REMARK 3 S21: -0.4005 S22: -0.2002 S23: -0.8135 REMARK 3 S31: 0.1547 S32: 0.1242 S33: -0.0026 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 6 A 10 REMARK 3 ORIGIN FOR THE GROUP (A): 31.0730 -5.3800 55.1700 REMARK 3 T TENSOR REMARK 3 T11: 0.0317 T22: -0.0055 REMARK 3 T33: -0.0049 T12: 0.0415 REMARK 3 T13: 0.0568 T23: 0.0130 REMARK 3 L TENSOR REMARK 3 L11: 5.8848 L22: 6.7320 REMARK 3 L33: 3.9725 L12: 2.2248 REMARK 3 L13: 2.5570 L23: 1.6557 REMARK 3 S TENSOR REMARK 3 S11: 0.1241 S12: 0.3091 S13: 0.1039 REMARK 3 S21: -0.5169 S22: -0.0864 S23: -0.3576 REMARK 3 S31: 0.0596 S32: 0.2155 S33: -0.0377 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 11 A 17 REMARK 3 ORIGIN FOR THE GROUP (A): 23.4010 -6.7480 50.3630 REMARK 3 T TENSOR REMARK 3 T11: 0.1209 T22: -0.0341 REMARK 3 T33: -0.0304 T12: -0.0225 REMARK 3 T13: -0.0589 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 20.5385 L22: 24.8298 REMARK 3 L33: 10.3614 L12: 9.2021 REMARK 3 L13: 4.5609 L23: -2.8093 REMARK 3 S TENSOR REMARK 3 S11: -0.7823 S12: 0.8927 S13: 0.2529 REMARK 3 S21: -1.6796 S22: 0.6609 S23: 1.0610 REMARK 3 S31: 0.4499 S32: 0.1149 S33: 0.1214 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 18 A 23 REMARK 3 ORIGIN FOR THE GROUP (A): 16.0070 -2.7800 55.9960 REMARK 3 T TENSOR REMARK 3 T11: 0.0199 T22: 0.0877 REMARK 3 T33: -0.0203 T12: -0.0249 REMARK 3 T13: 0.0017 T23: -0.0111 REMARK 3 L TENSOR REMARK 3 L11: 17.3046 L22: 13.5292 REMARK 3 L33: 0.2809 L12: 0.5276 REMARK 3 L13: 0.4077 L23: 1.9270 REMARK 3 S TENSOR REMARK 3 S11: -0.6041 S12: 0.5967 S13: -0.7884 REMARK 3 S21: -0.3534 S22: 0.5599 S23: 0.5940 REMARK 3 S31: -0.3664 S32: 0.3500 S33: 0.0442 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 24 A 29 REMARK 3 ORIGIN FOR THE GROUP (A): 30.5940 6.2950 57.2980 REMARK 3 T TENSOR REMARK 3 T11: 0.0355 T22: -0.0157 REMARK 3 T33: 0.0617 T12: -0.0051 REMARK 3 T13: 0.0487 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 6.3294 L22: 10.2581 REMARK 3 L33: 5.2785 L12: 6.8000 REMARK 3 L13: -2.1237 L23: -2.6533 REMARK 3 S TENSOR REMARK 3 S11: -0.1643 S12: 0.1593 S13: 0.0776 REMARK 3 S21: -0.2379 S22: 0.1156 S23: -0.2673 REMARK 3 S31: -0.1430 S32: 0.0793 S33: 0.0487 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 30 A 33 REMARK 3 ORIGIN FOR THE GROUP (A): 30.7190 2.1140 60.7360 REMARK 3 T TENSOR REMARK 3 T11: -0.0058 T22: -0.0144 REMARK 3 T33: 0.0321 T12: 0.0021 REMARK 3 T13: 0.0203 T23: -0.0164 REMARK 3 L TENSOR REMARK 3 L11: 6.5841 L22: 4.4899 REMARK 3 L33: 4.4093 L12: -2.2888 REMARK 3 L13: 0.6386 L23: -2.4117 REMARK 3 S TENSOR REMARK 3 S11: -0.0767 S12: -0.0136 S13: 0.2794 REMARK 3 S21: -0.0911 S22: 0.1164 S23: -0.5449 REMARK 3 S31: 0.1563 S32: 0.1953 S33: -0.0397 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 : A 34 A 43 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3450 -0.4180 60.0150 REMARK 3 T TENSOR REMARK 3 T11: -0.0021 T22: 0.0166 REMARK 3 T33: -0.0314 T12: -0.0078 REMARK 3 T13: -0.0301 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 13.8547 L22: 4.0216 REMARK 3 L33: 1.0430 L12: 4.5553 REMARK 3 L13: 0.6194 L23: 0.3843 REMARK 3 S TENSOR REMARK 3 S11: -0.1033 S12: 0.5810 S13: 0.1740 REMARK 3 S21: -0.1972 S22: 0.1514 S23: 0.1824 REMARK 3 S31: -0.0065 S32: -0.0400 S33: -0.0481 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 : A 44 A 51 REMARK 3 ORIGIN FOR THE GROUP (A): 8.1060 3.0020 62.8110 REMARK 3 T TENSOR REMARK 3 T11: -0.0123 T22: -0.0119 REMARK 3 T33: 0.0096 T12: 0.0124 REMARK 3 T13: -0.0274 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 7.3822 L22: 3.8143 REMARK 3 L33: 2.0009 L12: 1.8453 REMARK 3 L13: -0.0984 L23: -0.6179 REMARK 3 S TENSOR REMARK 3 S11: -0.0527 S12: 0.3387 S13: 0.4285 REMARK 3 S21: -0.1175 S22: 0.1166 S23: 0.3357 REMARK 3 S31: 0.0227 S32: -0.0098 S33: -0.0639 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 : A 52 A 61 REMARK 3 ORIGIN FOR THE GROUP (A): 30.2430 -2.2830 65.6000 REMARK 3 T TENSOR REMARK 3 T11: -0.0192 T22: 0.0277 REMARK 3 T33: 0.0055 T12: 0.0064 REMARK 3 T13: -0.0249 T23: -0.0124 REMARK 3 L TENSOR REMARK 3 L11: 5.6552 L22: 5.7926 REMARK 3 L33: 0.2272 L12: -4.3713 REMARK 3 L13: -0.5819 L23: 0.6724 REMARK 3 S TENSOR REMARK 3 S11: -0.0702 S12: -0.1962 S13: 0.2017 REMARK 3 S21: 0.1269 S22: 0.1794 S23: -0.3880 REMARK 3 S31: 0.0578 S32: 0.0886 S33: -0.1092 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 : A 62 A 68 REMARK 3 ORIGIN FOR THE GROUP (A): 29.0340 -5.3040 69.1800 REMARK 3 T TENSOR REMARK 3 T11: 0.0074 T22: 0.0281 REMARK 3 T33: -0.0132 T12: 0.0278 REMARK 3 T13: -0.0145 T23: -0.0106 REMARK 3 L TENSOR REMARK 3 L11: 24.6554 L22: 24.1783 REMARK 3 L33: 1.3689 L12: -24.0605 REMARK 3 L13: -1.1340 L23: 1.8044 REMARK 3 S TENSOR REMARK 3 S11: -0.5055 S12: -0.2929 S13: 0.4330 REMARK 3 S21: 0.7047 S22: 0.4685 S23: -0.5153 REMARK 3 S31: 0.1498 S32: 0.1190 S33: 0.0370 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 : A 69 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): 13.5360 6.0110 69.2570 REMARK 3 T TENSOR REMARK 3 T11: 0.0119 T22: 0.0080 REMARK 3 T33: 0.0496 T12: 0.0179 REMARK 3 T13: -0.0227 T23: -0.0427 REMARK 3 L TENSOR REMARK 3 L11: 6.8769 L22: 2.9681 REMARK 3 L33: 4.4569 L12: -1.5080 REMARK 3 L13: -1.9862 L23: -2.7647 REMARK 3 S TENSOR REMARK 3 S11: -0.1494 S12: -0.3125 S13: 0.6577 REMARK 3 S21: 0.1621 S22: 0.2041 S23: -0.1382 REMARK 3 S31: -0.1612 S32: -0.0092 S33: -0.0547 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 : A 74 A 79 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3410 -0.3890 74.6920 REMARK 3 T TENSOR REMARK 3 T11: 0.0289 T22: 0.0389 REMARK 3 T33: -0.0488 T12: 0.0105 REMARK 3 T13: 0.0187 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 6.1583 L22: 0.2706 REMARK 3 L33: 3.4447 L12: -1.0464 REMARK 3 L13: -0.2987 L23: 0.6149 REMARK 3 S TENSOR REMARK 3 S11: 0.0560 S12: -0.2931 S13: -0.0512 REMARK 3 S21: 0.2293 S22: -0.0190 S23: 0.1161 REMARK 3 S31: 0.0990 S32: 0.0966 S33: -0.0370 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 : A 80 A 89 REMARK 3 ORIGIN FOR THE GROUP (A): 19.0800 -3.3210 73.3470 REMARK 3 T TENSOR REMARK 3 T11: -0.0240 T22: 0.0420 REMARK 3 T33: -0.0937 T12: 0.0132 REMARK 3 T13: -0.0237 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 7.7830 L22: 15.0881 REMARK 3 L33: 4.4398 L12: -7.0760 REMARK 3 L13: -4.2452 L23: 3.6471 REMARK 3 S TENSOR REMARK 3 S11: -0.1695 S12: -0.3501 S13: -0.1079 REMARK 3 S21: 0.3379 S22: 0.0851 S23: -0.2383 REMARK 3 S31: 0.1564 S32: 0.0915 S33: 0.0844 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 : A 90 A 97 REMARK 3 ORIGIN FOR THE GROUP (A): 26.1180 -12.7100 69.6970 REMARK 3 T TENSOR REMARK 3 T11: 0.0738 T22: 0.0073 REMARK 3 T33: -0.0003 T12: 0.0308 REMARK 3 T13: 0.0088 T23: 0.0389 REMARK 3 L TENSOR REMARK 3 L11: 5.5227 L22: 4.4181 REMARK 3 L33: 9.6462 L12: -2.9939 REMARK 3 L13: 0.2540 L23: 3.4152 REMARK 3 S TENSOR REMARK 3 S11: -0.3191 S12: -0.4583 S13: -0.3826 REMARK 3 S21: 0.6497 S22: 0.2444 S23: 0.0898 REMARK 3 S31: 0.5006 S32: -0.0664 S33: 0.0747 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 : A 98 A 110 REMARK 3 ORIGIN FOR THE GROUP (A): 17.4780 -7.5960 63.4480 REMARK 3 T TENSOR REMARK 3 T11: -0.0007 T22: -0.0215 REMARK 3 T33: 0.0006 T12: -0.0038 REMARK 3 T13: 0.0061 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 8.7774 L22: 1.2349 REMARK 3 L33: 2.0423 L12: -1.6423 REMARK 3 L13: -1.7186 L23: 0.8252 REMARK 3 S TENSOR REMARK 3 S11: -0.0863 S12: 0.0418 S13: -0.0756 REMARK 3 S21: 0.0887 S22: 0.0149 S23: -0.0159 REMARK 3 S31: 0.1070 S32: -0.0434 S33: 0.0714 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 : A 111 A 118 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5700 -8.9290 75.6660 REMARK 3 T TENSOR REMARK 3 T11: 0.0804 T22: -0.0222 REMARK 3 T33: 0.0247 T12: -0.0218 REMARK 3 T13: 0.0131 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 5.8452 L22: 6.3511 REMARK 3 L33: 32.1305 L12: 1.1357 REMARK 3 L13: 5.4192 L23: 1.5928 REMARK 3 S TENSOR REMARK 3 S11: -0.0926 S12: -0.3626 S13: -0.1993 REMARK 3 S21: 0.8765 S22: -0.2639 S23: -0.0568 REMARK 3 S31: 0.4279 S32: 0.2797 S33: 0.3564 REMARK 3 REMARK 3 TLS GROUP : 17 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 119 A 131 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3960 -3.8750 79.4990 REMARK 3 T TENSOR REMARK 3 T11: 0.0745 T22: 0.0569 REMARK 3 T33: -0.0427 T12: -0.0636 REMARK 3 T13: 0.0492 T23: -0.0181 REMARK 3 L TENSOR REMARK 3 L11: 1.9669 L22: 0.7384 REMARK 3 L33: 2.1255 L12: -0.1233 REMARK 3 L13: -1.4202 L23: 0.9856 REMARK 3 S TENSOR REMARK 3 S11: 0.1772 S12: -0.1028 S13: -0.1713 REMARK 3 S21: 0.4783 S22: -0.2639 S23: 0.1999 REMARK 3 S31: 0.3555 S32: 0.0795 S33: 0.0867 REMARK 3 REMARK 3 TLS GROUP : 18 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 132 A 136 REMARK 3 ORIGIN FOR THE GROUP (A): -2.8620 -0.6340 73.2790 REMARK 3 T TENSOR REMARK 3 T11: -0.0214 T22: 0.0580 REMARK 3 T33: 0.0904 T12: -0.0218 REMARK 3 T13: 0.0858 T23: -0.0673 REMARK 3 L TENSOR REMARK 3 L11: 1.0410 L22: 16.7192 REMARK 3 L33: 15.7618 L12: -4.0433 REMARK 3 L13: -0.0638 L23: -3.7526 REMARK 3 S TENSOR REMARK 3 S11: -0.1963 S12: 0.0713 S13: 0.1540 REMARK 3 S21: 0.4008 S22: 0.1167 S23: 1.2606 REMARK 3 S31: 0.1972 S32: -1.2202 S33: 0.0796 REMARK 3 REMARK 3 TLS GROUP : 19 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 137 A 141 REMARK 3 ORIGIN FOR THE GROUP (A): 1.2450 5.2300 70.8320 REMARK 3 T TENSOR REMARK 3 T11: -0.0112 T22: -0.0085 REMARK 3 T33: 0.0690 T12: 0.0350 REMARK 3 T13: 0.0231 T23: -0.0625 REMARK 3 L TENSOR REMARK 3 L11: 13.2591 L22: 12.2780 REMARK 3 L33: 6.4310 L12: 3.2160 REMARK 3 L13: -0.8271 L23: 0.5480 REMARK 3 S TENSOR REMARK 3 S11: 0.0256 S12: -0.4886 S13: 0.8895 REMARK 3 S21: 0.5644 S22: -0.1715 S23: 0.7309 REMARK 3 S31: -0.1854 S32: -0.3420 S33: 0.1459 REMARK 3 REMARK 3 TLS GROUP : 20 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 142 A 147 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2050 9.7120 65.9220 REMARK 3 T TENSOR REMARK 3 T11: -0.0231 T22: -0.0403 REMARK 3 T33: 0.0843 T12: 0.0304 REMARK 3 T13: -0.0362 T23: 0.0037 REMARK 3 L TENSOR REMARK 3 L11: 3.6600 L22: 5.0930 REMARK 3 L33: 2.5988 L12: 1.4046 REMARK 3 L13: 0.4021 L23: 1.3443 REMARK 3 S TENSOR REMARK 3 S11: -0.1718 S12: -0.0657 S13: 0.3540 REMARK 3 S21: -0.0399 S22: 0.0446 S23: 0.1218 REMARK 3 S31: -0.0513 S32: -0.1286 S33: 0.1272 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 2ESQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035046. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97881 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26980 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.440 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 34.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.54400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 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: PDB ENTRY 2ESK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL, PEG 6000, SODIUM ACETATE, REMARK 280 TEMPERATURE 294K, PH 4.5, VAPOR DIFFUSION, HANGING DROP 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 23.75700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.30850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.64750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 31.30850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.75700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.64750 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: MONOMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 5 CG ARG A 5 CD 0.161 REMARK 500 ASP A 12 CB ASP A 12 CG 0.226 REMARK 500 ASP A 12 CG ASP A 12 OD2 0.195 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 5 CG - CD - NE ANGL. DEV. = -16.3 DEGREES REMARK 500 ARG A 5 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 ASP A 12 CB - CG - OD2 ANGL. DEV. = 8.9 DEGREES REMARK 500 MET A 38 CG - SD - CE ANGL. DEV. = 14.8 DEGREES REMARK 500 ARG A 125 CG - CD - NE ANGL. DEV. = -16.9 DEGREES REMARK 500 ARG A 125 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 MET A 147 CG - SD - CE ANGL. DEV. = -18.6 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 ALA A 19 -124.82 41.41 REMARK 500 ARG A 90 -104.44 -136.57 REMARK 500 ASP A 112 88.87 -153.40 REMARK 500 ASP A 117 50.43 -113.61 REMARK 500 ASP A 130 78.79 -152.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ESK RELATED DB: PDB REMARK 900 RELATED ID: 2ESO RELATED DB: PDB REMARK 900 RELATED ID: 2ESP RELATED DB: PDB DBREF 2ESQ A 1 147 UNP P62837 UB2D2_HUMAN 1 147 SEQADV 2ESQ GLY A -1 UNP P62837 CLONING ARTIFACT SEQADV 2ESQ ALA A 0 UNP P62837 CLONING ARTIFACT SEQADV 2ESQ GLY A 94 UNP P62837 SER 94 ENGINEERED MUTATION SEQRES 1 A 149 GLY ALA MET ALA LEU LYS ARG ILE HIS LYS GLU LEU ASN SEQRES 2 A 149 ASP LEU ALA ARG ASP PRO PRO ALA GLN CYS SER ALA GLY SEQRES 3 A 149 PRO VAL GLY ASP ASP MET PHE HIS TRP GLN ALA THR ILE SEQRES 4 A 149 MET GLY PRO ASN ASP SER PRO TYR GLN GLY GLY VAL PHE SEQRES 5 A 149 PHE LEU THR ILE HIS PHE PRO THR ASP TYR PRO PHE LYS SEQRES 6 A 149 PRO PRO LYS VAL ALA PHE THR THR ARG ILE TYR HIS PRO SEQRES 7 A 149 ASN ILE ASN SER ASN GLY SER ILE CYS LEU ASP ILE LEU SEQRES 8 A 149 ARG SER GLN TRP GLY PRO ALA LEU THR ILE SER LYS VAL SEQRES 9 A 149 LEU LEU SER ILE CYS SER LEU LEU CYS ASP PRO ASN PRO SEQRES 10 A 149 ASP ASP PRO LEU VAL PRO GLU ILE ALA ARG ILE TYR LYS SEQRES 11 A 149 THR ASP ARG GLU LYS TYR ASN ARG ILE ALA ARG GLU TRP SEQRES 12 A 149 THR GLN LYS TYR ALA MET FORMUL 2 HOH *148(H2 O) HELIX 1 1 GLY A -1 ASP A 16 1 18 HELIX 2 2 LEU A 86 ARG A 90 5 5 HELIX 3 3 THR A 98 ASP A 112 1 15 HELIX 4 4 VAL A 120 ASP A 130 1 11 HELIX 5 5 ASP A 130 ALA A 146 1 17 SHEET 1 A 4 CYS A 21 VAL A 26 0 SHEET 2 A 4 ASP A 29 MET A 38 -1 O HIS A 32 N VAL A 26 SHEET 3 A 4 VAL A 49 HIS A 55 -1 O ILE A 54 N TRP A 33 SHEET 4 A 4 LYS A 66 PHE A 69 -1 O LYS A 66 N HIS A 55 CISPEP 1 TYR A 60 PRO A 61 0 6.76 CRYST1 47.514 49.295 62.617 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 0.021046 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020286 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015970 0.00000