PDB Short entry for 3BZH HEADER LIGASE 18-JAN-08 3BZH TITLE CRYSTAL STRUCTURE OF HUMAN UBIQUITIN-CONJUGATING ENZYME E2 E1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 E1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UBIQUITIN-PROTEIN LIGASE E1, UBIQUITIN CARRIER PROTEIN E1, COMPND 5 UBCH6; 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: UBE2E1, UBCH6; 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: PET28-MHL KEYWDS STRUCTURAL GENOMICS CONSORTIUM, UBIQUITIN, UBIQUITIN-CONJUGATING KEYWDS 2 ENZYME, LIGASE, SGC, UBL CONJUGATION PATHWAY EXPDTA X-RAY DIFFRACTION AUTHOR J.R.WALKER,G.V.AVVAKUMOV,S.XUE,Y.LI,J.WEIGELT,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,A.BOCHKAREV,S.DHE-PAGANON,STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (SGC) REVDAT 5 30-AUG-23 3BZH 1 REMARK SEQADV REVDAT 4 28-NOV-12 3BZH 1 JRNL REVDAT 3 13-JUL-11 3BZH 1 VERSN REVDAT 2 24-FEB-09 3BZH 1 VERSN REVDAT 1 26-FEB-08 3BZH 0 JRNL AUTH Y.SHENG,J.H.HONG,R.DOHERTY,T.SRIKUMAR,J.SHLOUSH, JRNL AUTH 2 G.V.AVVAKUMOV,J.R.WALKER,S.XUE,D.NECULAI,J.W.WAN,S.K.KIM, JRNL AUTH 3 C.H.ARROWSMITH,B.RAUGHT,S.DHE-PAGANON JRNL TITL A HUMAN UBIQUITIN CONJUGATING ENZYME (E2)-HECT E3 LIGASE JRNL TITL 2 STRUCTURE-FUNCTION SCREEN. JRNL REF MOL CELL PROTEOMICS V. 11 329 2012 JRNL REFN ISSN 1535-9476 JRNL PMID 22496338 JRNL DOI 10.1074/MCP.O111.013706 REMARK 2 REMARK 2 RESOLUTION. 1.60 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21768 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1178 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1555 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1236 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 67 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.50000 REMARK 3 B22 (A**2) : 0.50000 REMARK 3 B33 (A**2) : -0.75000 REMARK 3 B12 (A**2) : 0.25000 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): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.092 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.713 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1342 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1843 ; 1.347 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 175 ; 5.599 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 52 ;33.616 ;23.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 214 ;13.470 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.945 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 210 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1033 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 631 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 973 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 80 ; 0.142 ; 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 ; 0.213 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.169 ; 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): 870 ; 1.533 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1408 ; 2.360 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 530 ; 3.197 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 435 ; 4.761 ; 7.000 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 : 13 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 21 A 27 REMARK 3 ORIGIN FOR THE GROUP (A): 4.6150 -16.3841 -23.4923 REMARK 3 T TENSOR REMARK 3 T11: 0.1048 T22: 0.0887 REMARK 3 T33: 0.1441 T12: -0.0354 REMARK 3 T13: -0.0397 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 18.5820 L22: 6.1739 REMARK 3 L33: 25.2736 L12: -2.3748 REMARK 3 L13: 5.4903 L23: 1.8114 REMARK 3 S TENSOR REMARK 3 S11: -0.1493 S12: 1.3198 S13: -0.1541 REMARK 3 S21: -0.5713 S22: -0.0729 S23: 0.0086 REMARK 3 S31: -0.4292 S32: 0.0904 S33: 0.2222 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 40 A 51 REMARK 3 ORIGIN FOR THE GROUP (A): -0.8524 10.6678 -3.0050 REMARK 3 T TENSOR REMARK 3 T11: 0.1031 T22: 0.2614 REMARK 3 T33: 0.0570 T12: 0.1222 REMARK 3 T13: 0.1751 T23: 0.1101 REMARK 3 L TENSOR REMARK 3 L11: 11.6687 L22: 3.1984 REMARK 3 L33: 15.5494 L12: -4.8111 REMARK 3 L13: -0.3141 L23: 2.8634 REMARK 3 S TENSOR REMARK 3 S11: -0.1840 S12: 0.3003 S13: -0.6342 REMARK 3 S21: -0.4021 S22: 0.0161 S23: 0.2818 REMARK 3 S31: 0.9479 S32: 1.5216 S33: 0.1678 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 52 A 60 REMARK 3 ORIGIN FOR THE GROUP (A): -6.3611 18.3537 8.2693 REMARK 3 T TENSOR REMARK 3 T11: 0.0527 T22: 0.1183 REMARK 3 T33: 0.1217 T12: -0.0574 REMARK 3 T13: -0.0345 T23: 0.0711 REMARK 3 L TENSOR REMARK 3 L11: 1.7696 L22: 10.4500 REMARK 3 L33: 31.1076 L12: -0.5613 REMARK 3 L13: 1.4780 L23: 9.3374 REMARK 3 S TENSOR REMARK 3 S11: -0.1436 S12: 0.3760 S13: 0.3042 REMARK 3 S21: -0.0922 S22: -0.4874 S23: -0.5506 REMARK 3 S31: -0.5778 S32: 0.4633 S33: 0.6310 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 61 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): -11.9016 17.2479 14.9356 REMARK 3 T TENSOR REMARK 3 T11: 0.0629 T22: 0.0996 REMARK 3 T33: 0.1794 T12: -0.0052 REMARK 3 T13: -0.0380 T23: -0.0403 REMARK 3 L TENSOR REMARK 3 L11: 2.5038 L22: 4.5078 REMARK 3 L33: 6.9785 L12: -1.6288 REMARK 3 L13: 0.1742 L23: -1.5589 REMARK 3 S TENSOR REMARK 3 S11: -0.2463 S12: 0.1025 S13: 0.0689 REMARK 3 S21: 0.0787 S22: -0.1586 S23: 0.0007 REMARK 3 S31: -0.3632 S32: -0.2531 S33: 0.4049 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 74 A 81 REMARK 3 ORIGIN FOR THE GROUP (A): -4.2565 7.8840 11.0391 REMARK 3 T TENSOR REMARK 3 T11: 0.0917 T22: 0.1289 REMARK 3 T33: 0.1038 T12: 0.0744 REMARK 3 T13: 0.0704 T23: 0.0487 REMARK 3 L TENSOR REMARK 3 L11: 11.3249 L22: 4.0681 REMARK 3 L33: 7.0747 L12: -3.6250 REMARK 3 L13: -5.1817 L23: 1.6061 REMARK 3 S TENSOR REMARK 3 S11: -0.2831 S12: -0.2697 S13: -0.0673 REMARK 3 S21: -0.1324 S22: -0.0802 S23: -0.1058 REMARK 3 S31: 0.7405 S32: 0.7748 S33: 0.3634 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 82 A 96 REMARK 3 ORIGIN FOR THE GROUP (A): -23.8436 11.2021 21.6717 REMARK 3 T TENSOR REMARK 3 T11: 0.0132 T22: 0.1282 REMARK 3 T33: 0.1115 T12: -0.0116 REMARK 3 T13: 0.0132 T23: -0.0606 REMARK 3 L TENSOR REMARK 3 L11: 4.7484 L22: 3.7653 REMARK 3 L33: 2.6576 L12: -0.0056 REMARK 3 L13: 0.4358 L23: 1.1736 REMARK 3 S TENSOR REMARK 3 S11: 0.0263 S12: -0.4872 S13: 0.3509 REMARK 3 S21: -0.0648 S22: -0.0504 S23: 0.2220 REMARK 3 S31: -0.0473 S32: -0.1194 S33: 0.0240 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 97 A 118 REMARK 3 ORIGIN FOR THE GROUP (A): -12.1774 5.3025 7.5660 REMARK 3 T TENSOR REMARK 3 T11: 0.1798 T22: 0.0728 REMARK 3 T33: 0.0800 T12: 0.0089 REMARK 3 T13: 0.0414 T23: -0.0066 REMARK 3 L TENSOR REMARK 3 L11: 3.1173 L22: 2.7111 REMARK 3 L33: 8.8565 L12: 1.8366 REMARK 3 L13: -3.5801 L23: -4.1010 REMARK 3 S TENSOR REMARK 3 S11: -0.1626 S12: 0.0681 S13: -0.1137 REMARK 3 S21: -0.6044 S22: 0.0237 S23: -0.0822 REMARK 3 S31: 0.8073 S32: 0.0561 S33: 0.1389 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 119 A 132 REMARK 3 ORIGIN FOR THE GROUP (A): -24.3453 0.4960 12.4608 REMARK 3 T TENSOR REMARK 3 T11: 0.1282 T22: 0.0547 REMARK 3 T33: 0.1264 T12: -0.0447 REMARK 3 T13: -0.0222 T23: -0.0055 REMARK 3 L TENSOR REMARK 3 L11: 5.6407 L22: 0.8661 REMARK 3 L33: 3.6555 L12: 0.6774 REMARK 3 L13: 0.8635 L23: 0.2655 REMARK 3 S TENSOR REMARK 3 S11: -0.0042 S12: 0.1008 S13: -0.3434 REMARK 3 S21: -0.2123 S22: -0.0228 S23: 0.0241 REMARK 3 S31: 0.3020 S32: -0.0443 S33: 0.0270 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 133 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): -18.7166 10.4012 -0.9208 REMARK 3 T TENSOR REMARK 3 T11: 0.1263 T22: 0.1637 REMARK 3 T33: 0.0026 T12: -0.1125 REMARK 3 T13: -0.0549 T23: 0.0726 REMARK 3 L TENSOR REMARK 3 L11: 6.4070 L22: 14.7774 REMARK 3 L33: 13.9480 L12: 4.2405 REMARK 3 L13: -4.1635 L23: -6.8925 REMARK 3 S TENSOR REMARK 3 S11: -0.2362 S12: 0.7251 S13: 0.3016 REMARK 3 S21: -0.8188 S22: 0.5690 S23: 0.4051 REMARK 3 S31: 0.6396 S32: -0.8552 S33: -0.3328 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 144 A 156 REMARK 3 ORIGIN FOR THE GROUP (A): -20.0467 13.6970 9.2667 REMARK 3 T TENSOR REMARK 3 T11: 0.0838 T22: 0.0984 REMARK 3 T33: 0.0642 T12: -0.0308 REMARK 3 T13: -0.0203 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 18.4323 L22: 3.9654 REMARK 3 L33: 7.4073 L12: 3.1090 REMARK 3 L13: -5.0290 L23: -3.2066 REMARK 3 S TENSOR REMARK 3 S11: 0.2214 S12: 0.5913 S13: 0.3282 REMARK 3 S21: 0.1441 S22: -0.2683 S23: 0.0751 REMARK 3 S31: -0.2787 S32: 0.2838 S33: 0.0468 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 157 A 173 REMARK 3 ORIGIN FOR THE GROUP (A): -33.1826 1.9294 11.0101 REMARK 3 T TENSOR REMARK 3 T11: 0.0714 T22: 0.1026 REMARK 3 T33: 0.0876 T12: -0.0625 REMARK 3 T13: -0.0487 T23: -0.0436 REMARK 3 L TENSOR REMARK 3 L11: 7.1173 L22: 2.4900 REMARK 3 L33: 2.7905 L12: -1.2005 REMARK 3 L13: -0.3280 L23: -0.5575 REMARK 3 S TENSOR REMARK 3 S11: 0.1269 S12: 0.0937 S13: -0.3414 REMARK 3 S21: -0.3104 S22: -0.0744 S23: 0.1314 REMARK 3 S31: 0.1498 S32: -0.4710 S33: -0.0525 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 174 A 188 REMARK 3 ORIGIN FOR THE GROUP (A): -34.7286 1.7013 21.8491 REMARK 3 T TENSOR REMARK 3 T11: 0.0400 T22: 0.1369 REMARK 3 T33: 0.1476 T12: -0.0798 REMARK 3 T13: 0.0109 T23: 0.0350 REMARK 3 L TENSOR REMARK 3 L11: 8.7971 L22: 1.0455 REMARK 3 L33: 6.2287 L12: -1.1164 REMARK 3 L13: 2.2321 L23: -0.4533 REMARK 3 S TENSOR REMARK 3 S11: 0.0578 S12: -0.3716 S13: -0.4979 REMARK 3 S21: 0.1635 S22: 0.1099 S23: 0.4096 REMARK 3 S31: 0.4402 S32: -0.5847 S33: -0.1677 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 189 A 193 REMARK 3 ORIGIN FOR THE GROUP (A): -22.8385 1.4124 27.6713 REMARK 3 T TENSOR REMARK 3 T11: 0.1137 T22: 0.2110 REMARK 3 T33: 0.0828 T12: -0.0495 REMARK 3 T13: -0.0385 T23: 0.0914 REMARK 3 L TENSOR REMARK 3 L11: 16.3370 L22: 1.8606 REMARK 3 L33: 13.2058 L12: 1.1207 REMARK 3 L13: -3.0952 L23: -0.8575 REMARK 3 S TENSOR REMARK 3 S11: 0.3510 S12: -0.9838 S13: -0.8613 REMARK 3 S21: 0.6466 S22: -0.1175 S23: -0.2537 REMARK 3 S31: 0.3797 S32: -0.1501 S33: -0.2335 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. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B REMARK 3 FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS REMARK 4 REMARK 4 3BZH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000046150. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97942 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22998 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 64.3816 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.83500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.420 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 1Y6L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2M (NH4)2SO4, 0.1M BIS-TRIS-PROPANE REMARK 280 PH 9.0, 0.001M DTT, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.47900 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 72.95800 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 72.95800 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 36.47900 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2180 ANGSTROM**2 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 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 ASP A 4 REMARK 465 ASP A 5 REMARK 465 SER A 6 REMARK 465 ARG A 7 REMARK 465 ALA A 8 REMARK 465 SER A 9 REMARK 465 THR A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 SER A 13 REMARK 465 SER A 14 REMARK 465 SER A 15 REMARK 465 SER A 16 REMARK 465 SER A 17 REMARK 465 SER A 18 REMARK 465 ASN A 19 REMARK 465 GLN A 20 REMARK 465 THR A 28 REMARK 465 PRO A 29 REMARK 465 LYS A 30 REMARK 465 LYS A 31 REMARK 465 LYS A 32 REMARK 465 GLU A 33 REMARK 465 SER A 34 REMARK 465 LYS A 35 REMARK 465 VAL A 36 REMARK 465 SER A 37 REMARK 465 MET A 38 REMARK 465 SER A 39 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 25 CG CD OE1 OE2 REMARK 470 LYS A 40 CG CD CE NZ REMARK 470 ASN A 41 CG OD1 ND2 REMARK 470 LYS A 54 CD CE NZ REMARK 470 LYS A 109 CE NZ REMARK 470 LYS A 136 CD CE NZ REMARK 470 ASP A 137 CG OD1 OD2 REMARK 470 ARG A 185 CZ NH1 NH2 REMARK 470 LYS A 189 CD CE NZ REMARK 470 ARG A 190 CD NE CZ NH1 NH2 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 VAL A 113 O1 GOL A 200 2.08 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 LYS A 136 -111.55 -133.20 REMARK 500 ASN A 176 65.70 -151.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 200 DBREF 3BZH A 1 193 UNP P51965 UB2E1_HUMAN 1 193 SEQADV 3BZH GLY A 0 UNP P51965 EXPRESSION TAG SEQRES 1 A 194 GLY MET SER ASP ASP ASP SER ARG ALA SER THR SER SER SEQRES 2 A 194 SER SER SER SER SER SER ASN GLN GLN THR GLU LYS GLU SEQRES 3 A 194 THR ASN THR PRO LYS LYS LYS GLU SER LYS VAL SER MET SEQRES 4 A 194 SER LYS ASN SER LYS LEU LEU SER THR SER ALA LYS ARG SEQRES 5 A 194 ILE GLN LYS GLU LEU ALA ASP ILE THR LEU ASP PRO PRO SEQRES 6 A 194 PRO ASN CYS SER ALA GLY PRO LYS GLY ASP ASN ILE TYR SEQRES 7 A 194 GLU TRP ARG SER THR ILE LEU GLY PRO PRO GLY SER VAL SEQRES 8 A 194 TYR GLU GLY GLY VAL PHE PHE LEU ASP ILE THR PHE THR SEQRES 9 A 194 PRO GLU TYR PRO PHE LYS PRO PRO LYS VAL THR PHE ARG SEQRES 10 A 194 THR ARG ILE TYR HIS CYS ASN ILE ASN SER GLN GLY VAL SEQRES 11 A 194 ILE CYS LEU ASP ILE LEU LYS ASP ASN TRP SER PRO ALA SEQRES 12 A 194 LEU THR ILE SER LYS VAL LEU LEU SER ILE CYS SER LEU SEQRES 13 A 194 LEU THR ASP CYS ASN PRO ALA ASP PRO LEU VAL GLY SER SEQRES 14 A 194 ILE ALA THR GLN TYR MET THR ASN ARG ALA GLU HIS ASP SEQRES 15 A 194 ARG MET ALA ARG GLN TRP THR LYS ARG TYR ALA THR HET GOL A 200 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL C3 H8 O3 FORMUL 3 HOH *67(H2 O) HELIX 1 1 GLN A 21 GLU A 25 5 5 HELIX 2 2 ASN A 41 ASP A 62 1 22 HELIX 3 3 LEU A 132 LYS A 136 5 5 HELIX 4 4 THR A 144 ASP A 158 1 15 HELIX 5 5 VAL A 166 ASN A 176 1 11 HELIX 6 6 ASN A 176 ALA A 192 1 17 SHEET 1 A 4 CYS A 67 PRO A 71 0 SHEET 2 A 4 GLU A 78 LEU A 84 -1 O ARG A 80 N GLY A 70 SHEET 3 A 4 VAL A 95 THR A 101 -1 O ILE A 100 N TRP A 79 SHEET 4 A 4 LYS A 112 PHE A 115 -1 O LYS A 112 N THR A 101 CISPEP 1 TYR A 106 PRO A 107 0 4.34 SITE 1 AC1 5 LYS A 112 ILE A 130 LEU A 135 HOH A 215 SITE 2 AC1 5 HOH A 258 CRYST1 51.630 51.630 109.437 90.00 90.00 120.00 P 31 2 1 6 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 0.019369 0.011182 0.000000 0.00000 SCALE2 0.000000 0.022365 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009138 0.00000