PDB Short entry for 2ESO HEADER LIGASE 26-OCT-05 2ESO TITLE HUMAN UBIQUITIN-CONJUGATING ENZYME (E2) UBCH5B MUTANT ILE37ALA 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 2ESO 1 REMARK REVDAT 6 20-OCT-21 2ESO 1 SEQADV REVDAT 5 18-OCT-17 2ESO 1 REMARK REVDAT 4 13-JUL-11 2ESO 1 VERSN REVDAT 3 24-FEB-09 2ESO 1 VERSN REVDAT 2 10-JAN-06 2ESO 1 JRNL REVDAT 1 06-DEC-05 2ESO 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. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 23013 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1231 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1635 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1184 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 178 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) : 22.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : -0.32000 REMARK 3 B33 (A**2) : -0.02000 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): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.686 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1258 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1728 ; 2.067 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 161 ;18.176 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 55 ;30.205 ;23.636 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 204 ;14.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;11.524 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 188 ; 0.169 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 984 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 612 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 876 ; 0.325 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 123 ; 0.161 ; 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): 50 ; 0.191 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.205 ; 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): 797 ; 1.298 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1277 ; 1.634 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 529 ; 2.762 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 445 ; 4.066 ; 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 10 REMARK 3 ORIGIN FOR THE GROUP (A): 34.5390 -6.0870 57.7670 REMARK 3 T TENSOR REMARK 3 T11: 0.0048 T22: -0.0080 REMARK 3 T33: 0.0665 T12: 0.0446 REMARK 3 T13: 0.0822 T23: 0.0288 REMARK 3 L TENSOR REMARK 3 L11: 7.3939 L22: 5.3506 REMARK 3 L33: 1.8625 L12: -0.8534 REMARK 3 L13: 2.9347 L23: -0.6595 REMARK 3 S TENSOR REMARK 3 S11: 0.3478 S12: 0.2203 S13: 0.2693 REMARK 3 S21: -0.5056 S22: -0.3513 S23: -0.7003 REMARK 3 S31: 0.3320 S32: 0.1523 S33: 0.0035 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 11 A 19 REMARK 3 ORIGIN FOR THE GROUP (A): 22.0000 -6.5870 51.6610 REMARK 3 T TENSOR REMARK 3 T11: 0.1195 T22: -0.0237 REMARK 3 T33: -0.0028 T12: -0.0035 REMARK 3 T13: -0.0329 T23: 0.0107 REMARK 3 L TENSOR REMARK 3 L11: 25.6850 L22: 9.4445 REMARK 3 L33: 6.0557 L12: 7.6439 REMARK 3 L13: -2.1568 L23: -1.4277 REMARK 3 S TENSOR REMARK 3 S11: -0.4120 S12: 0.3103 S13: 0.0306 REMARK 3 S21: -0.6326 S22: 0.3152 S23: 0.2348 REMARK 3 S31: 0.4763 S32: -0.1223 S33: 0.0968 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 20 A 29 REMARK 3 ORIGIN FOR THE GROUP (A): 24.7330 3.3500 57.1460 REMARK 3 T TENSOR REMARK 3 T11: -0.0389 T22: -0.0445 REMARK 3 T33: -0.0579 T12: -0.0055 REMARK 3 T13: 0.0211 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 15.0600 L22: 7.5986 REMARK 3 L33: 1.7303 L12: 4.4162 REMARK 3 L13: -0.9501 L23: -0.4238 REMARK 3 S TENSOR REMARK 3 S11: -0.3882 S12: 0.3475 S13: 0.2350 REMARK 3 S21: -0.4319 S22: 0.3228 S23: -0.1986 REMARK 3 S31: 0.0176 S32: -0.0296 S33: 0.0654 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 30 A 33 REMARK 3 ORIGIN FOR THE GROUP (A): 30.7150 2.1080 61.1820 REMARK 3 T TENSOR REMARK 3 T11: -0.0546 T22: -0.0443 REMARK 3 T33: 0.0438 T12: 0.0124 REMARK 3 T13: 0.0240 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 5.6798 L22: 2.3177 REMARK 3 L33: 3.8840 L12: 0.1532 REMARK 3 L13: 2.7381 L23: -2.3617 REMARK 3 S TENSOR REMARK 3 S11: 0.0425 S12: 0.1270 S13: 0.2536 REMARK 3 S21: -0.0645 S22: -0.0648 S23: -0.4053 REMARK 3 S31: 0.1788 S32: 0.2236 S33: 0.0223 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 34 A 38 REMARK 3 ORIGIN FOR THE GROUP (A): 16.6870 2.7120 59.5320 REMARK 3 T TENSOR REMARK 3 T11: -0.0563 T22: -0.0048 REMARK 3 T33: -0.0431 T12: -0.0301 REMARK 3 T13: -0.0142 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 23.3330 L22: 6.9108 REMARK 3 L33: 1.4259 L12: 8.2372 REMARK 3 L13: 4.5538 L23: 3.0740 REMARK 3 S TENSOR REMARK 3 S11: -0.3044 S12: 0.7430 S13: 0.2812 REMARK 3 S21: -0.4081 S22: 0.1993 S23: 0.1372 REMARK 3 S31: -0.0946 S32: -0.0336 S33: 0.1051 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 39 A 44 REMARK 3 ORIGIN FOR THE GROUP (A): 3.2390 -3.2500 62.0380 REMARK 3 T TENSOR REMARK 3 T11: -0.0435 T22: -0.0345 REMARK 3 T33: -0.0188 T12: -0.0073 REMARK 3 T13: -0.0365 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 6.4904 L22: 13.0719 REMARK 3 L33: 4.8287 L12: 3.8447 REMARK 3 L13: 1.3333 L23: 1.3817 REMARK 3 S TENSOR REMARK 3 S11: -0.0316 S12: 0.1661 S13: -0.1527 REMARK 3 S21: -0.2228 S22: -0.0970 S23: 0.2657 REMARK 3 S31: 0.2189 S32: -0.3603 S33: 0.1286 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 45 A 53 REMARK 3 ORIGIN FOR THE GROUP (A): 11.3440 3.3670 63.2890 REMARK 3 T TENSOR REMARK 3 T11: -0.0750 T22: -0.0748 REMARK 3 T33: -0.0305 T12: 0.0053 REMARK 3 T13: -0.0284 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 8.1569 L22: 2.3473 REMARK 3 L33: 1.2850 L12: 2.1807 REMARK 3 L13: -1.2580 L23: -0.3391 REMARK 3 S TENSOR REMARK 3 S11: -0.1018 S12: 0.2630 S13: 0.4046 REMARK 3 S21: -0.1504 S22: 0.1216 S23: 0.1698 REMARK 3 S31: 0.0229 S32: -0.0150 S33: -0.0198 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 54 A 62 REMARK 3 ORIGIN FOR THE GROUP (A): 32.5650 -4.8610 66.2690 REMARK 3 T TENSOR REMARK 3 T11: -0.0838 T22: -0.0168 REMARK 3 T33: 0.0130 T12: 0.0168 REMARK 3 T13: -0.0305 T23: -0.0166 REMARK 3 L TENSOR REMARK 3 L11: 4.1794 L22: 8.0303 REMARK 3 L33: 2.5184 L12: -3.5979 REMARK 3 L13: -0.7954 L23: 1.2718 REMARK 3 S TENSOR REMARK 3 S11: -0.0762 S12: -0.1900 S13: 0.3522 REMARK 3 S21: 0.2950 S22: 0.1664 S23: -0.5807 REMARK 3 S31: 0.0336 S32: 0.1665 S33: -0.0902 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 63 A 68 REMARK 3 ORIGIN FOR THE GROUP (A): 27.3990 -3.6160 70.0660 REMARK 3 T TENSOR REMARK 3 T11: -0.0535 T22: -0.0088 REMARK 3 T33: -0.0238 T12: 0.0257 REMARK 3 T13: -0.0348 T23: -0.0220 REMARK 3 L TENSOR REMARK 3 L11: 18.9712 L22: 26.9023 REMARK 3 L33: 2.4767 L12: -22.2260 REMARK 3 L13: -2.2321 L23: 1.9956 REMARK 3 S TENSOR REMARK 3 S11: -0.5741 S12: -0.5417 S13: 0.4714 REMARK 3 S21: 0.7758 S22: 0.6769 S23: -0.6814 REMARK 3 S31: 0.1626 S32: 0.1155 S33: -0.1029 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 69 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): 13.5340 6.0190 69.5710 REMARK 3 T TENSOR REMARK 3 T11: -0.0429 T22: -0.0535 REMARK 3 T33: 0.0033 T12: 0.0230 REMARK 3 T13: -0.0286 T23: -0.0517 REMARK 3 L TENSOR REMARK 3 L11: 13.3103 L22: 3.2735 REMARK 3 L33: 2.9739 L12: -1.0208 REMARK 3 L13: -1.6485 L23: -2.8484 REMARK 3 S TENSOR REMARK 3 S11: -0.0537 S12: -0.4939 S13: 0.6605 REMARK 3 S21: 0.1569 S22: 0.1098 S23: 0.0068 REMARK 3 S31: -0.1837 S32: -0.0146 S33: -0.0561 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 74 A 80 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7760 0.3680 75.2830 REMARK 3 T TENSOR REMARK 3 T11: -0.0258 T22: -0.0205 REMARK 3 T33: -0.0702 T12: 0.0209 REMARK 3 T13: 0.0100 T23: -0.0330 REMARK 3 L TENSOR REMARK 3 L11: 7.6622 L22: 0.6731 REMARK 3 L33: 4.8211 L12: 0.0945 REMARK 3 L13: -1.2617 L23: -0.9296 REMARK 3 S TENSOR REMARK 3 S11: -0.0065 S12: -0.3152 S13: 0.1474 REMARK 3 S21: 0.1356 S22: -0.0121 S23: 0.0674 REMARK 3 S31: 0.0060 S32: 0.0302 S33: 0.0186 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 81 A 89 REMARK 3 ORIGIN FOR THE GROUP (A): 19.4730 -4.3730 73.3670 REMARK 3 T TENSOR REMARK 3 T11: -0.0157 T22: 0.0312 REMARK 3 T33: -0.0791 T12: 0.0289 REMARK 3 T13: -0.0030 T23: 0.0111 REMARK 3 L TENSOR REMARK 3 L11: 6.7994 L22: 15.5904 REMARK 3 L33: 3.4195 L12: -6.5039 REMARK 3 L13: -3.1015 L23: 3.7852 REMARK 3 S TENSOR REMARK 3 S11: -0.2161 S12: -0.3185 S13: -0.2102 REMARK 3 S21: 0.3095 S22: 0.1025 S23: -0.0474 REMARK 3 S31: 0.2881 S32: 0.1001 S33: 0.1137 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 90 A 97 REMARK 3 ORIGIN FOR THE GROUP (A): 26.2470 -12.7910 70.1030 REMARK 3 T TENSOR REMARK 3 T11: 0.0549 T22: -0.0255 REMARK 3 T33: -0.0246 T12: 0.0437 REMARK 3 T13: 0.0006 T23: 0.0187 REMARK 3 L TENSOR REMARK 3 L11: 8.6900 L22: 5.0693 REMARK 3 L33: 10.9184 L12: -3.5124 REMARK 3 L13: -3.5405 L23: 1.8662 REMARK 3 S TENSOR REMARK 3 S11: -0.3211 S12: -0.5848 S13: -0.1173 REMARK 3 S21: 0.7689 S22: 0.3370 S23: -0.0629 REMARK 3 S31: 0.2866 S32: 0.1952 S33: -0.0159 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 98 A 110 REMARK 3 ORIGIN FOR THE GROUP (A): 17.4560 -7.5810 63.7500 REMARK 3 T TENSOR REMARK 3 T11: -0.0481 T22: -0.0961 REMARK 3 T33: -0.0576 T12: -0.0051 REMARK 3 T13: 0.0067 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 10.9971 L22: 1.9455 REMARK 3 L33: 2.2070 L12: -0.0855 REMARK 3 L13: -1.8314 L23: -0.5531 REMARK 3 S TENSOR REMARK 3 S11: -0.1150 S12: -0.0462 S13: -0.0048 REMARK 3 S21: 0.0593 S22: -0.0062 S23: 0.0125 REMARK 3 S31: 0.0712 S32: 0.0365 S33: 0.1212 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 111 A 118 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5730 -8.9500 76.0070 REMARK 3 T TENSOR REMARK 3 T11: 0.1886 T22: -0.0163 REMARK 3 T33: 0.0430 T12: -0.0073 REMARK 3 T13: 0.0445 T23: -0.0295 REMARK 3 L TENSOR REMARK 3 L11: 4.9593 L22: 8.5773 REMARK 3 L33: 50.4575 L12: 1.2979 REMARK 3 L13: 9.1734 L23: 1.7181 REMARK 3 S TENSOR REMARK 3 S11: -0.0601 S12: -0.1794 S13: 0.1042 REMARK 3 S21: 1.2553 S22: -0.4206 S23: 0.1234 REMARK 3 S31: 1.3356 S32: 0.3986 S33: 0.4807 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 119 A 127 REMARK 3 ORIGIN FOR THE GROUP (A): 5.6070 -2.6740 80.7050 REMARK 3 T TENSOR REMARK 3 T11: 0.0514 T22: 0.0163 REMARK 3 T33: -0.0484 T12: -0.0467 REMARK 3 T13: 0.0276 T23: -0.0180 REMARK 3 L TENSOR REMARK 3 L11: 2.0486 L22: 0.9608 REMARK 3 L33: 8.3989 L12: -1.3457 REMARK 3 L13: -3.7365 L23: 2.8033 REMARK 3 S TENSOR REMARK 3 S11: 0.0180 S12: 0.0757 S13: -0.1847 REMARK 3 S21: 0.0772 S22: -0.2052 S23: 0.1574 REMARK 3 S31: 0.4365 S32: 0.0639 S33: 0.1872 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 128 A 133 REMARK 3 ORIGIN FOR THE GROUP (A): -2.5170 -4.9440 77.3480 REMARK 3 T TENSOR REMARK 3 T11: -0.0058 T22: 0.0685 REMARK 3 T33: 0.0587 T12: -0.0772 REMARK 3 T13: 0.1066 T23: -0.0872 REMARK 3 L TENSOR REMARK 3 L11: 2.9275 L22: 18.4615 REMARK 3 L33: 21.6725 L12: 2.8501 REMARK 3 L13: 0.9803 L23: -7.7384 REMARK 3 S TENSOR REMARK 3 S11: 0.1167 S12: 0.1578 S13: -0.0951 REMARK 3 S21: 0.6172 S22: -0.1005 S23: 0.9020 REMARK 3 S31: 0.2217 S32: -0.4918 S33: -0.0162 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 134 A 138 REMARK 3 ORIGIN FOR THE GROUP (A): -0.5950 0.8330 72.7070 REMARK 3 T TENSOR REMARK 3 T11: -0.0362 T22: 0.0381 REMARK 3 T33: 0.0364 T12: 0.0101 REMARK 3 T13: 0.0367 T23: -0.0871 REMARK 3 L TENSOR REMARK 3 L11: 10.0438 L22: 17.5737 REMARK 3 L33: 9.9246 L12: 5.2429 REMARK 3 L13: -0.6653 L23: -10.6303 REMARK 3 S TENSOR REMARK 3 S11: -0.2412 S12: -0.3381 S13: 0.1927 REMARK 3 S21: 0.1009 S22: 0.1357 S23: 0.3934 REMARK 3 S31: 0.1683 S32: -0.6319 S33: 0.1055 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 139 A 142 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9410 5.8260 69.8030 REMARK 3 T TENSOR REMARK 3 T11: -0.0628 T22: -0.0656 REMARK 3 T33: 0.0953 T12: 0.0355 REMARK 3 T13: -0.0117 T23: -0.0543 REMARK 3 L TENSOR REMARK 3 L11: 9.4644 L22: 13.1040 REMARK 3 L33: 18.9124 L12: 2.4179 REMARK 3 L13: 2.9953 L23: 3.6026 REMARK 3 S TENSOR REMARK 3 S11: 0.0957 S12: -0.4304 S13: 0.7874 REMARK 3 S21: 0.4694 S22: -0.0826 S23: 0.7448 REMARK 3 S31: 0.2512 S32: -0.5128 S33: -0.0130 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 143 A 147 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3860 10.2450 66.1810 REMARK 3 T TENSOR REMARK 3 T11: -0.0533 T22: -0.0755 REMARK 3 T33: 0.1066 T12: 0.0409 REMARK 3 T13: -0.0338 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 6.6794 L22: 9.9943 REMARK 3 L33: 7.0728 L12: 3.5925 REMARK 3 L13: 3.3010 L23: 4.5565 REMARK 3 S TENSOR REMARK 3 S11: 0.0559 S12: -0.0893 S13: 0.5869 REMARK 3 S21: -0.0314 S22: -0.0430 S23: 0.0834 REMARK 3 S31: -0.2483 S32: -0.2577 S33: -0.0129 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 2ESO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035044. 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) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.97897 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 : 24280 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 42.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.79600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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 (%): 44.00 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 23.82700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.51850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.71450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 31.51850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.82700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.71450 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: 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 O HOH A 198 O HOH A 323 2555 2.06 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. = -14.2 DEGREES REMARK 500 ARG A 5 NE - CZ - NH2 ANGL. DEV. = 5.2 DEGREES REMARK 500 GLN A 20 C - N - CA ANGL. DEV. = 17.4 DEGREES REMARK 500 GLY A 27 C - N - CA ANGL. DEV. = 13.5 DEGREES REMARK 500 ARG A 125 NE - CZ - NH2 ANGL. DEV. = -3.1 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 ASP A 16 77.48 -151.27 REMARK 500 ALA A 19 -142.67 66.42 REMARK 500 GLN A 20 -13.54 73.12 REMARK 500 ARG A 90 -108.88 -134.13 REMARK 500 ASP A 117 68.25 -118.78 REMARK 500 ASP A 130 74.64 -154.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ESK RELATED DB: PDB REMARK 900 RELATED ID: 2ESP RELATED DB: PDB REMARK 900 RELATED ID: 2ESQ RELATED DB: PDB DBREF 2ESO A 1 147 UNP P62837 UB2D2_HUMAN 1 147 SEQADV 2ESO GLY A -1 UNP P62837 CLONING ARTIFACT SEQADV 2ESO ALA A 0 UNP P62837 CLONING ARTIFACT SEQADV 2ESO ALA A 37 UNP P62837 ILE 37 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 ALA 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 SER 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 *178(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 PRO A 25 0 SHEET 2 A 4 HIS A 32 MET A 38 -1 O GLN A 34 N GLY A 24 SHEET 3 A 4 VAL A 49 HIS A 55 -1 O PHE A 50 N ALA A 37 SHEET 4 A 4 LYS A 66 PHE A 69 -1 O LYS A 66 N HIS A 55 CISPEP 1 ALA A 19 GLN A 20 0 11.54 CISPEP 2 TYR A 60 PRO A 61 0 7.16 CRYST1 47.654 49.429 63.037 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 0.020985 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020231 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015864 0.00000