HEADER LIGASE 26-OCT-05 2ESK TITLE HUMAN UBIQUITIN-CONJUGATING ENZYME (E2) UBCH5B, WILD-TYPE 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 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 6 23-AUG-23 2ESK 1 SEQADV REVDAT 5 18-OCT-17 2ESK 1 REMARK REVDAT 4 13-JUL-11 2ESK 1 VERSN REVDAT 3 24-FEB-09 2ESK 1 VERSN REVDAT 2 10-JAN-06 2ESK 1 JRNL REVDAT 1 06-DEC-05 2ESK 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. 1.36 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 31463 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.054 REMARK 3 FREE R VALUE TEST SET COUNT : 1590 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) : 1.36 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.40 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2046 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 96 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1187 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 174 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) : 12.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15400 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.44400 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): 0.063 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.069 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.041 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1317 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1817 ; 1.872 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 174 ; 6.767 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 61 ;35.542 ;23.934 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 214 ;12.257 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.345 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 195 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1048 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 607 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 900 ; 0.323 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 110 ; 0.196 ; 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): 60 ; 0.256 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.224 ; 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): 833 ; 0.994 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1332 ; 1.225 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 559 ; 2.116 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 475 ; 3.187 ; 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 7 REMARK 3 ORIGIN FOR THE GROUP (A): 30.3289 -6.8996 58.6722 REMARK 3 T TENSOR REMARK 3 T11: 0.0747 T22: 0.0920 REMARK 3 T33: 0.0323 T12: -0.0005 REMARK 3 T13: 0.0032 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 6.0534 L22: 3.4093 REMARK 3 L33: 4.7200 L12: 1.5435 REMARK 3 L13: 1.3764 L23: 0.5536 REMARK 3 S TENSOR REMARK 3 S11: 0.2320 S12: -0.2528 S13: 0.2086 REMARK 3 S21: -0.1712 S22: -0.1522 S23: -0.1410 REMARK 3 S31: 0.2334 S32: -0.2645 S33: -0.0798 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 8 A 12 REMARK 3 ORIGIN FOR THE GROUP (A): 30.0515 -6.0718 57.4410 REMARK 3 T TENSOR REMARK 3 T11: 0.0816 T22: 0.0397 REMARK 3 T33: 0.0614 T12: 0.0096 REMARK 3 T13: 0.0251 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 12.5488 L22: 3.8161 REMARK 3 L33: 2.5482 L12: 0.2182 REMARK 3 L13: 4.2606 L23: -1.9753 REMARK 3 S TENSOR REMARK 3 S11: 0.0575 S12: -0.3149 S13: -0.1052 REMARK 3 S21: -0.2804 S22: -0.1116 S23: -0.1029 REMARK 3 S31: 0.0085 S32: -0.1549 S33: 0.0541 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 13 A 17 REMARK 3 ORIGIN FOR THE GROUP (A): 24.3436 -4.6010 51.6056 REMARK 3 T TENSOR REMARK 3 T11: 0.1753 T22: 0.0172 REMARK 3 T33: 0.0774 T12: 0.0273 REMARK 3 T13: -0.0498 T23: 0.0196 REMARK 3 L TENSOR REMARK 3 L11: 28.0807 L22: 15.4484 REMARK 3 L33: 24.8793 L12: 6.8917 REMARK 3 L13: 15.7895 L23: 8.6090 REMARK 3 S TENSOR REMARK 3 S11: -0.4679 S12: 0.2876 S13: 0.1468 REMARK 3 S21: 0.3059 S22: 0.0905 S23: 0.4016 REMARK 3 S31: -0.0975 S32: 0.2970 S33: 0.3775 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 29 REMARK 3 ORIGIN FOR THE GROUP (A): 22.9025 1.6408 57.5790 REMARK 3 T TENSOR REMARK 3 T11: 0.0775 T22: 0.0609 REMARK 3 T33: -0.0025 T12: 0.0142 REMARK 3 T13: 0.0228 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 19.0520 L22: 9.6005 REMARK 3 L33: 3.1462 L12: 7.1425 REMARK 3 L13: 0.8402 L23: 0.9274 REMARK 3 S TENSOR REMARK 3 S11: -0.0408 S12: 0.0234 S13: 0.1687 REMARK 3 S21: -0.0876 S22: 0.1020 S23: 0.0053 REMARK 3 S31: 0.0279 S32: -0.1077 S33: -0.0612 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 30 A 33 REMARK 3 ORIGIN FOR THE GROUP (A): 26.7007 1.6181 59.7127 REMARK 3 T TENSOR REMARK 3 T11: 0.0537 T22: 0.0318 REMARK 3 T33: 0.0666 T12: -0.0176 REMARK 3 T13: 0.0078 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 10.5742 L22: 5.0495 REMARK 3 L33: 4.9926 L12: -2.0561 REMARK 3 L13: 5.3469 L23: -0.6010 REMARK 3 S TENSOR REMARK 3 S11: 0.1147 S12: -0.0791 S13: 0.0328 REMARK 3 S21: -0.1621 S22: 0.0681 S23: 0.0605 REMARK 3 S31: 0.1572 S32: 0.0043 S33: -0.1828 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 34 A 38 REMARK 3 ORIGIN FOR THE GROUP (A): 18.0365 1.7393 60.6856 REMARK 3 T TENSOR REMARK 3 T11: 0.0343 T22: 0.0389 REMARK 3 T33: 0.0095 T12: -0.0135 REMARK 3 T13: 0.0155 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 64.3952 L22: 8.9591 REMARK 3 L33: 2.4466 L12: 14.9757 REMARK 3 L13: 7.7806 L23: 4.6818 REMARK 3 S TENSOR REMARK 3 S11: 0.1017 S12: -0.2766 S13: -0.0380 REMARK 3 S21: -0.2323 S22: 0.0766 S23: 0.0063 REMARK 3 S31: -0.1021 S32: -0.0137 S33: -0.1783 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 39 A 44 REMARK 3 ORIGIN FOR THE GROUP (A): 6.2675 -0.0443 63.1063 REMARK 3 T TENSOR REMARK 3 T11: 0.0310 T22: 0.0362 REMARK 3 T33: 0.0746 T12: 0.0140 REMARK 3 T13: -0.0379 T23: 0.0163 REMARK 3 L TENSOR REMARK 3 L11: 8.2455 L22: 14.1417 REMARK 3 L33: 1.4405 L12: 4.6756 REMARK 3 L13: 2.4304 L23: 1.6901 REMARK 3 S TENSOR REMARK 3 S11: -0.1399 S12: 0.0241 S13: 0.0836 REMARK 3 S21: 0.1199 S22: -0.0750 S23: -0.1934 REMARK 3 S31: 0.1102 S32: -0.1736 S33: 0.2149 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 45 A 50 REMARK 3 ORIGIN FOR THE GROUP (A): 9.7720 0.4782 64.3341 REMARK 3 T TENSOR REMARK 3 T11: 0.0191 T22: 0.0278 REMARK 3 T33: 0.0361 T12: 0.0155 REMARK 3 T13: -0.0020 T23: -0.0163 REMARK 3 L TENSOR REMARK 3 L11: 8.8923 L22: 6.3284 REMARK 3 L33: 1.7382 L12: 1.9595 REMARK 3 L13: -0.8576 L23: -1.2158 REMARK 3 S TENSOR REMARK 3 S11: -0.0115 S12: 0.0258 S13: -0.0208 REMARK 3 S21: -0.0259 S22: 0.0262 S23: 0.0296 REMARK 3 S31: 0.0031 S32: 0.0493 S33: -0.0147 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 51 A 59 REMARK 3 ORIGIN FOR THE GROUP (A): 24.4843 0.6583 64.8694 REMARK 3 T TENSOR REMARK 3 T11: 0.0324 T22: 0.0606 REMARK 3 T33: 0.0474 T12: -0.0167 REMARK 3 T13: 0.0053 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 21.4533 L22: 6.7482 REMARK 3 L33: 0.9904 L12: -10.3644 REMARK 3 L13: 2.7893 L23: -0.3391 REMARK 3 S TENSOR REMARK 3 S11: 0.1120 S12: -0.0980 S13: -0.1236 REMARK 3 S21: -0.0595 S22: -0.0557 S23: 0.0928 REMARK 3 S31: 0.0970 S32: 0.0028 S33: -0.0563 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 60 A 64 REMARK 3 ORIGIN FOR THE GROUP (A): 30.6543 -7.9848 64.5652 REMARK 3 T TENSOR REMARK 3 T11: 0.0252 T22: 0.0251 REMARK 3 T33: 0.0492 T12: 0.0004 REMARK 3 T13: 0.0081 T23: -0.0079 REMARK 3 L TENSOR REMARK 3 L11: 9.1746 L22: 6.5427 REMARK 3 L33: 8.3819 L12: -2.6723 REMARK 3 L13: -1.5987 L23: 2.4721 REMARK 3 S TENSOR REMARK 3 S11: -0.0923 S12: 0.1176 S13: 0.0114 REMARK 3 S21: 0.2485 S22: 0.1094 S23: 0.0073 REMARK 3 S31: 0.0732 S32: 0.0350 S33: -0.0172 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 65 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): 18.1922 0.8036 66.9655 REMARK 3 T TENSOR REMARK 3 T11: 0.0592 T22: 0.0708 REMARK 3 T33: 0.0487 T12: 0.0231 REMARK 3 T13: -0.0089 T23: -0.0191 REMARK 3 L TENSOR REMARK 3 L11: 14.0618 L22: 4.3109 REMARK 3 L33: 0.3499 L12: -6.3241 REMARK 3 L13: 0.8376 L23: -1.0400 REMARK 3 S TENSOR REMARK 3 S11: 0.0082 S12: -0.1699 S13: -0.0153 REMARK 3 S21: -0.0847 S22: -0.0383 S23: 0.0886 REMARK 3 S31: -0.0388 S32: 0.1017 S33: 0.0301 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 84 REMARK 3 ORIGIN FOR THE GROUP (A): 11.2371 -0.6063 72.5814 REMARK 3 T TENSOR REMARK 3 T11: 0.0792 T22: 0.0831 REMARK 3 T33: 0.0090 T12: 0.0337 REMARK 3 T13: 0.0093 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 6.9753 L22: 3.6884 REMARK 3 L33: 6.7757 L12: -1.0904 REMARK 3 L13: -1.9302 L23: -0.3118 REMARK 3 S TENSOR REMARK 3 S11: 0.0313 S12: -0.0180 S13: 0.0097 REMARK 3 S21: 0.0499 S22: -0.0551 S23: -0.0061 REMARK 3 S31: -0.0011 S32: 0.0273 S33: 0.0238 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 85 A 89 REMARK 3 ORIGIN FOR THE GROUP (A): 20.7367 -7.1833 71.9146 REMARK 3 T TENSOR REMARK 3 T11: 0.1083 T22: 0.1119 REMARK 3 T33: 0.0552 T12: 0.0218 REMARK 3 T13: 0.0042 T23: 0.0296 REMARK 3 L TENSOR REMARK 3 L11: 5.7181 L22: 16.6521 REMARK 3 L33: 9.2994 L12: -6.2546 REMARK 3 L13: -0.4727 L23: 5.1757 REMARK 3 S TENSOR REMARK 3 S11: -0.4618 S12: 0.1198 S13: -0.0636 REMARK 3 S21: 0.1709 S22: 0.0780 S23: -0.1345 REMARK 3 S31: 0.0647 S32: -0.1595 S33: 0.3837 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): 27.7033 -12.8060 64.6522 REMARK 3 T TENSOR REMARK 3 T11: 0.0398 T22: 0.0278 REMARK 3 T33: 0.0694 T12: 0.0073 REMARK 3 T13: 0.0062 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 7.9362 L22: 9.0873 REMARK 3 L33: 7.5567 L12: -3.7698 REMARK 3 L13: 0.1791 L23: 1.5406 REMARK 3 S TENSOR REMARK 3 S11: 0.0141 S12: 0.0594 S13: 0.0561 REMARK 3 S21: 0.1988 S22: 0.0127 S23: -0.0669 REMARK 3 S31: 0.0736 S32: 0.0418 S33: -0.0268 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): 18.1190 -7.5953 62.9702 REMARK 3 T TENSOR REMARK 3 T11: 0.0306 T22: 0.0127 REMARK 3 T33: 0.0220 T12: 0.0005 REMARK 3 T13: 0.0052 T23: -0.0089 REMARK 3 L TENSOR REMARK 3 L11: 16.2060 L22: 1.7131 REMARK 3 L33: 3.9500 L12: -0.9282 REMARK 3 L13: -5.1307 L23: 0.5770 REMARK 3 S TENSOR REMARK 3 S11: -0.0821 S12: -0.0113 S13: 0.0420 REMARK 3 S21: 0.0395 S22: 0.0182 S23: -0.0176 REMARK 3 S31: 0.0395 S32: -0.0409 S33: 0.0638 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 117 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5707 -6.7528 66.9494 REMARK 3 T TENSOR REMARK 3 T11: 0.0850 T22: 0.1300 REMARK 3 T33: 0.1208 T12: -0.0653 REMARK 3 T13: -0.0062 T23: -0.0269 REMARK 3 L TENSOR REMARK 3 L11: 4.8554 L22: 9.4863 REMARK 3 L33: 51.1414 L12: 0.9857 REMARK 3 L13: 5.2450 L23: -4.8266 REMARK 3 S TENSOR REMARK 3 S11: -0.4010 S12: 0.2498 S13: 0.1085 REMARK 3 S21: 0.2078 S22: -0.2451 S23: -0.0136 REMARK 3 S31: -1.3188 S32: 1.5431 S33: 0.6461 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 118 A 130 REMARK 3 ORIGIN FOR THE GROUP (A): 5.0292 -0.0037 77.5752 REMARK 3 T TENSOR REMARK 3 T11: 0.1227 T22: 0.0658 REMARK 3 T33: 0.0173 T12: -0.0147 REMARK 3 T13: 0.0303 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 6.6562 L22: 4.3088 REMARK 3 L33: 6.6724 L12: 3.0715 REMARK 3 L13: -0.9060 L23: 2.2478 REMARK 3 S TENSOR REMARK 3 S11: -0.0900 S12: 0.0090 S13: 0.0484 REMARK 3 S21: 0.0411 S22: 0.0399 S23: 0.1728 REMARK 3 S31: 0.0063 S32: 0.1193 S33: 0.0501 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 131 A 135 REMARK 3 ORIGIN FOR THE GROUP (A): 1.6635 1.1732 69.9978 REMARK 3 T TENSOR REMARK 3 T11: 0.0702 T22: 0.1013 REMARK 3 T33: 0.1989 T12: 0.0183 REMARK 3 T13: 0.0703 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 6.3361 L22: 12.5091 REMARK 3 L33: 5.6214 L12: -0.8379 REMARK 3 L13: 1.0826 L23: -6.0849 REMARK 3 S TENSOR REMARK 3 S11: 0.0708 S12: 0.1871 S13: 0.6722 REMARK 3 S21: -0.0231 S22: -0.4655 S23: -0.2295 REMARK 3 S31: 0.1898 S32: 0.2185 S33: 0.3947 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 136 A 141 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0088 4.7943 67.8072 REMARK 3 T TENSOR REMARK 3 T11: 0.0345 T22: 0.0198 REMARK 3 T33: 0.0985 T12: 0.0259 REMARK 3 T13: -0.0037 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 10.3897 L22: 13.2499 REMARK 3 L33: 5.9588 L12: 3.3805 REMARK 3 L13: -3.1272 L23: -2.2341 REMARK 3 S TENSOR REMARK 3 S11: -0.1228 S12: -0.0026 S13: 0.1277 REMARK 3 S21: 0.2145 S22: -0.0610 S23: -0.0077 REMARK 3 S31: 0.0857 S32: -0.0749 S33: 0.1839 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): 6.7415 7.2458 65.2501 REMARK 3 T TENSOR REMARK 3 T11: 0.0229 T22: 0.0279 REMARK 3 T33: 0.1325 T12: 0.0267 REMARK 3 T13: -0.0078 T23: 0.0112 REMARK 3 L TENSOR REMARK 3 L11: 17.3362 L22: 18.7254 REMARK 3 L33: 8.1722 L12: 1.0649 REMARK 3 L13: -2.5559 L23: 0.2579 REMARK 3 S TENSOR REMARK 3 S11: -0.0087 S12: 0.0840 S13: 0.1665 REMARK 3 S21: -0.0418 S22: -0.0402 S23: -0.2254 REMARK 3 S31: -0.1500 S32: 0.0090 S33: 0.0489 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL PLUS 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 2ESK 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_1000035040. 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) : 0.97897 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 : 31496 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.360 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 (%) : 97.2 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.41 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.49600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1QCQ 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 23.79850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.22950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.68600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 31.22950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.79850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.68600 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 IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 168 O HOH A 256 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS A 8 O HOH A 151 4547 2.13 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 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 5 NE - CZ - NH2 ANGL. DEV. = 4.6 DEGREES REMARK 500 ASP A 87 CB - CG - OD1 ANGL. DEV. = 8.5 DEGREES REMARK 500 ARG A 125 CG - CD - NE ANGL. DEV. = -13.6 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 -9.02 63.30 REMARK 500 ARG A 90 -113.06 -130.60 REMARK 500 ASN A 114 77.85 -116.94 REMARK 500 ASP A 130 80.96 -150.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 19 GLN A 20 147.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ESO RELATED DB: PDB REMARK 900 RELATED ID: 2ESP RELATED DB: PDB REMARK 900 RELATED ID: 2ESQ RELATED DB: PDB DBREF 2ESK A 1 147 UNP P62837 UB2D2_HUMAN 1 147 SEQADV 2ESK GLY A -1 UNP P62837 CLONING ARTIFACT SEQADV 2ESK ALA A 0 UNP P62837 CLONING ARTIFACT 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 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 *174(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 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 7.71 CRYST1 47.597 49.372 62.459 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 0.021010 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020250 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016010 0.00000