HEADER LIGASE 06-JAN-15 4XI1 TITLE CRYSTAL STRUCTURE OF U-BOX 2 OF LUBX / LEGU2 / LPP2887 FROM LEGIONELLA TITLE 2 PNEUMOPHILA STR. PARIS, WILD-TYPE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE LUBX; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: UNP RESIDUES 102-202; COMPND 5 SYNONYM: LEGIONELLA U-BOX PROTEIN; COMPND 6 EC: 6.3.2.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA (STRAIN PARIS); SOURCE 3 ORGANISM_TAXID: 297246; SOURCE 4 STRAIN: PARIS; SOURCE 5 GENE: LUBX, LPP2887; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: P15TV-LIC KEYWDS ALPHA/BETA PROTEIN, EFFECTOR, STRUCTURAL GENOMICS, PSI-BIOLOGY, KEYWDS 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR P.J.STOGIOS,T.QUAILE,T.SKARINA,M.CUFF,R.DI LEO,V.YIM,A.SAVCHENKO, AUTHOR 2 A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 4 27-SEP-23 4XI1 1 JRNL REMARK REVDAT 3 26-AUG-15 4XI1 1 JRNL REVDAT 2 29-JUL-15 4XI1 1 JRNL REVDAT 1 21-JAN-15 4XI1 0 SPRSDE 21-JAN-15 4XI1 4WZ1 JRNL AUTH A.T.QUAILE,M.L.URBANUS,P.J.STOGIOS,B.NOCEK,T.SKARINA, JRNL AUTH 2 A.W.ENSMINGER,A.SAVCHENKO JRNL TITL MOLECULAR CHARACTERIZATION OF LUBX: FUNCTIONAL DIVERGENCE OF JRNL TITL 2 THE U-BOX FOLD BY LEGIONELLA PNEUMOPHILA. JRNL REF STRUCTURE V. 23 1459 2015 JRNL REFN ISSN 0969-2126 JRNL PMID 26146184 JRNL DOI 10.1016/J.STR.2015.05.020 REMARK 2 REMARK 2 RESOLUTION. 2.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 3 NUMBER OF REFLECTIONS : 13167 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 659 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.8741 - 5.0773 0.82 2456 129 0.1547 0.1994 REMARK 3 2 5.0773 - 4.0411 0.88 2485 131 0.1329 0.1523 REMARK 3 3 4.0411 - 3.5335 0.90 2508 133 0.1596 0.2315 REMARK 3 4 3.5335 - 3.2119 0.92 2527 133 0.1937 0.2638 REMARK 3 5 3.2119 - 2.9825 0.92 2532 133 0.2468 0.3078 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 1908 REMARK 3 ANGLE : 1.052 2561 REMARK 3 CHIRALITY : 0.043 295 REMARK 3 PLANARITY : 0.004 317 REMARK 3 DIHEDRAL : 16.849 733 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESI 123:158 REMARK 3 ORIGIN FOR THE GROUP (A): 35.7282 47.4256 64.9005 REMARK 3 T TENSOR REMARK 3 T11: 0.9792 T22: 0.4716 REMARK 3 T33: 0.5597 T12: -0.0249 REMARK 3 T13: 0.0488 T23: 0.0903 REMARK 3 L TENSOR REMARK 3 L11: 5.8613 L22: 8.6093 REMARK 3 L33: 4.5951 L12: -1.0609 REMARK 3 L13: 0.2527 L23: -1.6899 REMARK 3 S TENSOR REMARK 3 S11: 0.0159 S12: 0.0325 S13: 0.7563 REMARK 3 S21: -0.7020 S22: 0.0265 S23: -0.2233 REMARK 3 S31: -1.0008 S32: -0.0496 S33: -0.0423 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESI 159:182 REMARK 3 ORIGIN FOR THE GROUP (A): 27.0679 46.1763 56.5317 REMARK 3 T TENSOR REMARK 3 T11: 1.3479 T22: 0.8980 REMARK 3 T33: 0.7492 T12: 0.0844 REMARK 3 T13: -0.1265 T23: 0.0985 REMARK 3 L TENSOR REMARK 3 L11: 2.8153 L22: 3.9045 REMARK 3 L33: 6.5944 L12: 2.2534 REMARK 3 L13: 1.1959 L23: -2.4907 REMARK 3 S TENSOR REMARK 3 S11: -0.4162 S12: 0.6640 S13: 0.3352 REMARK 3 S21: -1.0234 S22: 0.7314 S23: 0.2128 REMARK 3 S31: -0.0816 S32: -1.5431 S33: -0.2812 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESI 183:198 REMARK 3 ORIGIN FOR THE GROUP (A): 38.5646 46.5255 78.5951 REMARK 3 T TENSOR REMARK 3 T11: 0.6835 T22: 0.6740 REMARK 3 T33: 0.6113 T12: -0.1228 REMARK 3 T13: 0.0505 T23: 0.0455 REMARK 3 L TENSOR REMARK 3 L11: 3.6452 L22: 9.0228 REMARK 3 L33: 4.2170 L12: -1.6623 REMARK 3 L13: 3.1882 L23: 1.8890 REMARK 3 S TENSOR REMARK 3 S11: -0.3782 S12: -0.6916 S13: 0.7717 REMARK 3 S21: 0.0435 S22: -0.4522 S23: -0.2714 REMARK 3 S31: -1.1455 S32: -0.1718 S33: 0.7453 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN B AND RESI 124:158 REMARK 3 ORIGIN FOR THE GROUP (A): 44.6247 31.8353 62.3170 REMARK 3 T TENSOR REMARK 3 T11: 0.5814 T22: 0.5521 REMARK 3 T33: 0.4606 T12: -0.0843 REMARK 3 T13: 0.0843 T23: 0.0309 REMARK 3 L TENSOR REMARK 3 L11: 3.6428 L22: 6.9602 REMARK 3 L33: 9.4056 L12: -1.4956 REMARK 3 L13: -2.8064 L23: -1.1533 REMARK 3 S TENSOR REMARK 3 S11: 0.3328 S12: 0.5758 S13: -0.0169 REMARK 3 S21: -0.7806 S22: -0.1930 S23: -0.3478 REMARK 3 S31: -0.2145 S32: 0.7504 S33: -0.0376 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND RESI 159:182 REMARK 3 ORIGIN FOR THE GROUP (A): 55.6200 36.1881 65.1997 REMARK 3 T TENSOR REMARK 3 T11: 0.8199 T22: 1.2196 REMARK 3 T33: 0.8679 T12: -0.2428 REMARK 3 T13: 0.1182 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 4.4172 L22: 3.5103 REMARK 3 L33: 8.3761 L12: 1.3772 REMARK 3 L13: -5.1275 L23: 1.1339 REMARK 3 S TENSOR REMARK 3 S11: 0.6776 S12: -0.1542 S13: 0.6496 REMARK 3 S21: 0.0296 S22: 0.1547 S23: -0.6790 REMARK 3 S31: -1.0934 S32: 1.7657 S33: -0.7910 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND RESI 183:198 REMARK 3 ORIGIN FOR THE GROUP (A): 32.8799 24.7866 67.4456 REMARK 3 T TENSOR REMARK 3 T11: 0.7038 T22: 0.4867 REMARK 3 T33: 0.5088 T12: 0.0179 REMARK 3 T13: -0.0081 T23: -0.0225 REMARK 3 L TENSOR REMARK 3 L11: 5.2195 L22: 4.3514 REMARK 3 L33: 6.1166 L12: 4.3687 REMARK 3 L13: -1.3828 L23: -2.9182 REMARK 3 S TENSOR REMARK 3 S11: 0.3567 S12: 0.4891 S13: -1.1676 REMARK 3 S21: 0.0287 S22: -0.1208 S23: -1.0753 REMARK 3 S31: 0.2889 S32: -0.0551 S33: -0.1481 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN C AND RESI 123:158 REMARK 3 ORIGIN FOR THE GROUP (A): 13.3471 25.4118 77.1715 REMARK 3 T TENSOR REMARK 3 T11: 0.4066 T22: 0.5167 REMARK 3 T33: 0.6065 T12: -0.0584 REMARK 3 T13: -0.1160 T23: 0.0143 REMARK 3 L TENSOR REMARK 3 L11: 3.8535 L22: 5.9203 REMARK 3 L33: 6.8973 L12: -0.8462 REMARK 3 L13: 0.0090 L23: -2.4308 REMARK 3 S TENSOR REMARK 3 S11: 0.3249 S12: 0.0175 S13: -0.1703 REMARK 3 S21: -0.2942 S22: -0.3158 S23: 0.4208 REMARK 3 S31: 0.1214 S32: -0.1728 S33: -0.0023 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN C AND RESI 159:182 REMARK 3 ORIGIN FOR THE GROUP (A): 7.0729 27.0900 87.5404 REMARK 3 T TENSOR REMARK 3 T11: 0.5030 T22: 0.5311 REMARK 3 T33: 0.5460 T12: 0.0308 REMARK 3 T13: -0.0183 T23: -0.0035 REMARK 3 L TENSOR REMARK 3 L11: 8.9892 L22: 1.9504 REMARK 3 L33: 4.7324 L12: 1.1774 REMARK 3 L13: 0.0497 L23: -1.2102 REMARK 3 S TENSOR REMARK 3 S11: -0.0026 S12: -0.9756 S13: -0.2316 REMARK 3 S21: 0.0679 S22: -0.1010 S23: 0.1847 REMARK 3 S31: 0.1760 S32: 0.2264 S33: 0.0856 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN C AND RESI 183:197 REMARK 3 ORIGIN FOR THE GROUP (A): 23.1916 31.2959 69.6408 REMARK 3 T TENSOR REMARK 3 T11: 0.4599 T22: 0.6101 REMARK 3 T33: 0.6753 T12: -0.0561 REMARK 3 T13: -0.1207 T23: 0.0913 REMARK 3 L TENSOR REMARK 3 L11: 8.2526 L22: 6.4952 REMARK 3 L33: 5.6538 L12: 1.6677 REMARK 3 L13: -6.7987 L23: -1.0088 REMARK 3 S TENSOR REMARK 3 S11: 0.2090 S12: 0.8553 S13: 0.5302 REMARK 3 S21: -0.2460 S22: 0.2515 S23: 0.2480 REMARK 3 S31: -0.8498 S32: -0.4996 S33: -0.3623 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4XI1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000205721. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790433 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13171 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.980 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.5800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.62300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 4WZ2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 74.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15 MG/ML PROTEIN, V8 PROTEASE (1:100), REMARK 280 1.6 M AMMONIUM SULFATE, 0.1 M HEPES PH 7.5 AND 2% HEXANEDIOL, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 Y,X,-Z REMARK 290 14555 -Y,-X,-Z REMARK 290 15555 Y,-X,Z REMARK 290 16555 -Y,X,Z REMARK 290 17555 X,Z,-Y REMARK 290 18555 -X,Z,Y REMARK 290 19555 -X,-Z,-Y REMARK 290 20555 X,-Z,Y REMARK 290 21555 Z,Y,-X REMARK 290 22555 Z,-Y,X REMARK 290 23555 -Z,Y,X REMARK 290 24555 -Z,-Y,-X 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 160.22700 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL C 302 LIES ON A SPECIAL POSITION. REMARK 375 C3 HEZ C 303 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 411 LIES ON A SPECIAL POSITION. 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 ASN A 102 REMARK 465 TYR A 103 REMARK 465 GLU A 104 REMARK 465 LYS A 105 REMARK 465 LEU A 106 REMARK 465 LYS A 107 REMARK 465 ASN A 108 REMARK 465 ARG A 109 REMARK 465 LEU A 110 REMARK 465 VAL A 111 REMARK 465 GLN A 112 REMARK 465 ASN A 113 REMARK 465 ALA A 114 REMARK 465 ARG A 115 REMARK 465 VAL A 116 REMARK 465 ALA A 117 REMARK 465 ALA A 118 REMARK 465 ARG A 119 REMARK 465 GLN A 120 REMARK 465 LYS A 121 REMARK 465 GLU A 122 REMARK 465 VAL A 199 REMARK 465 GLN A 200 REMARK 465 LYS A 201 REMARK 465 ASN A 202 REMARK 465 ASN B 102 REMARK 465 TYR B 103 REMARK 465 GLU B 104 REMARK 465 LYS B 105 REMARK 465 LEU B 106 REMARK 465 LYS B 107 REMARK 465 ASN B 108 REMARK 465 ARG B 109 REMARK 465 LEU B 110 REMARK 465 VAL B 111 REMARK 465 GLN B 112 REMARK 465 ASN B 113 REMARK 465 ALA B 114 REMARK 465 ARG B 115 REMARK 465 VAL B 116 REMARK 465 ALA B 117 REMARK 465 ALA B 118 REMARK 465 ARG B 119 REMARK 465 GLN B 120 REMARK 465 LYS B 121 REMARK 465 GLU B 122 REMARK 465 TYR B 123 REMARK 465 VAL B 199 REMARK 465 GLN B 200 REMARK 465 LYS B 201 REMARK 465 ASN B 202 REMARK 465 ASN C 102 REMARK 465 TYR C 103 REMARK 465 GLU C 104 REMARK 465 LYS C 105 REMARK 465 LEU C 106 REMARK 465 LYS C 107 REMARK 465 ASN C 108 REMARK 465 ARG C 109 REMARK 465 LEU C 110 REMARK 465 VAL C 111 REMARK 465 GLN C 112 REMARK 465 ASN C 113 REMARK 465 ALA C 114 REMARK 465 ARG C 115 REMARK 465 VAL C 116 REMARK 465 ALA C 117 REMARK 465 ALA C 118 REMARK 465 ARG C 119 REMARK 465 GLN C 120 REMARK 465 LYS C 121 REMARK 465 GLU C 122 REMARK 465 GLU C 198 REMARK 465 VAL C 199 REMARK 465 GLN C 200 REMARK 465 LYS C 201 REMARK 465 ASN C 202 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 NH2 ARG B 197 O GLU C 125 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 137 -155.24 -132.30 REMARK 500 LYS A 196 4.89 -68.59 REMARK 500 LEU B 173 116.18 -172.03 REMARK 500 LYS C 196 1.26 -60.07 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 CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEZ A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEZ B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEZ B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEZ C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEZ C 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WZ1 RELATED DB: PDB REMARK 900 THIS DEPOSITION IS RE-REFINEMENT OF 4WZ1. REMARK 900 RELATED ID: 4WZ0 RELATED DB: PDB REMARK 900 U-BOX 1 OF LUBX. REMARK 900 RELATED ID: 4WZ2 RELATED DB: PDB REMARK 900 SAME REGION AS THIS ENTRY, U-BOX 2 OF LUBX ILE175MET MUTANT REMARK 900 RELATED ID: 4WZ3 RELATED DB: PDB REMARK 900 COMPLEX OF U-BOX 1 OF LUBX AND HOMO SAPIENS UBE2D2 REMARK 900 RELATED ID: MCSG-APC108251 RELATED DB: TARGETTRACK DBREF 4XI1 A 102 202 UNP Q5X159 LUBX_LEGPA 102 202 DBREF 4XI1 B 102 202 UNP Q5X159 LUBX_LEGPA 102 202 DBREF 4XI1 C 102 202 UNP Q5X159 LUBX_LEGPA 102 202 SEQRES 1 A 101 ASN TYR GLU LYS LEU LYS ASN ARG LEU VAL GLN ASN ALA SEQRES 2 A 101 ARG VAL ALA ALA ARG GLN LYS GLU TYR THR GLU ILE PRO SEQRES 3 A 101 ASP ILE PHE LEU CYS PRO ILE SER LYS THR LEU ILE LYS SEQRES 4 A 101 THR PRO VAL ILE THR ALA GLN GLY LYS VAL TYR ASP GLN SEQRES 5 A 101 GLU ALA LEU SER ASN PHE LEU ILE ALA THR GLY ASN LYS SEQRES 6 A 101 ASP GLU THR GLY LYS LYS LEU SER ILE ASP ASP VAL VAL SEQRES 7 A 101 VAL PHE ASP GLU LEU TYR GLN GLN ILE LYS VAL TYR ASN SEQRES 8 A 101 PHE TYR ARG LYS ARG GLU VAL GLN LYS ASN SEQRES 1 B 101 ASN TYR GLU LYS LEU LYS ASN ARG LEU VAL GLN ASN ALA SEQRES 2 B 101 ARG VAL ALA ALA ARG GLN LYS GLU TYR THR GLU ILE PRO SEQRES 3 B 101 ASP ILE PHE LEU CYS PRO ILE SER LYS THR LEU ILE LYS SEQRES 4 B 101 THR PRO VAL ILE THR ALA GLN GLY LYS VAL TYR ASP GLN SEQRES 5 B 101 GLU ALA LEU SER ASN PHE LEU ILE ALA THR GLY ASN LYS SEQRES 6 B 101 ASP GLU THR GLY LYS LYS LEU SER ILE ASP ASP VAL VAL SEQRES 7 B 101 VAL PHE ASP GLU LEU TYR GLN GLN ILE LYS VAL TYR ASN SEQRES 8 B 101 PHE TYR ARG LYS ARG GLU VAL GLN LYS ASN SEQRES 1 C 101 ASN TYR GLU LYS LEU LYS ASN ARG LEU VAL GLN ASN ALA SEQRES 2 C 101 ARG VAL ALA ALA ARG GLN LYS GLU TYR THR GLU ILE PRO SEQRES 3 C 101 ASP ILE PHE LEU CYS PRO ILE SER LYS THR LEU ILE LYS SEQRES 4 C 101 THR PRO VAL ILE THR ALA GLN GLY LYS VAL TYR ASP GLN SEQRES 5 C 101 GLU ALA LEU SER ASN PHE LEU ILE ALA THR GLY ASN LYS SEQRES 6 C 101 ASP GLU THR GLY LYS LYS LEU SER ILE ASP ASP VAL VAL SEQRES 7 C 101 VAL PHE ASP GLU LEU TYR GLN GLN ILE LYS VAL TYR ASN SEQRES 8 C 101 PHE TYR ARG LYS ARG GLU VAL GLN LYS ASN HET CL A 301 1 HET HEZ A 302 8 HET HEZ B 301 8 HET HEZ B 302 8 HET GOL B 303 6 HET HEZ C 301 8 HET CL C 302 1 HET HEZ C 303 8 HETNAM CL CHLORIDE ION HETNAM HEZ HEXANE-1,6-DIOL HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 CL 2(CL 1-) FORMUL 5 HEZ 5(C6 H14 O2) FORMUL 8 GOL C3 H8 O3 FORMUL 12 HOH *87(H2 O) HELIX 1 AA1 PRO A 127 LEU A 131 5 5 HELIX 2 AA2 GLN A 153 GLY A 164 1 12 HELIX 3 AA3 SER A 174 VAL A 178 5 5 HELIX 4 AA4 PHE A 181 LYS A 196 1 16 HELIX 5 AA5 PRO B 127 LEU B 131 5 5 HELIX 6 AA6 GLN B 153 GLY B 164 1 12 HELIX 7 AA7 SER B 174 VAL B 178 5 5 HELIX 8 AA8 PHE B 181 ARG B 197 1 17 HELIX 9 AA9 PRO C 127 LEU C 131 5 5 HELIX 10 AB1 GLN C 153 GLY C 164 1 12 HELIX 11 AB2 SER C 174 VAL C 178 5 5 HELIX 12 AB3 PHE C 181 LYS C 196 1 16 SHEET 1 AA1 3 VAL A 150 ASP A 152 0 SHEET 2 AA1 3 PRO A 142 ILE A 144 -1 N VAL A 143 O TYR A 151 SHEET 3 AA1 3 VAL A 179 VAL A 180 -1 O VAL A 179 N ILE A 144 SHEET 1 AA2 3 VAL B 150 ASP B 152 0 SHEET 2 AA2 3 PRO B 142 ILE B 144 -1 N VAL B 143 O TYR B 151 SHEET 3 AA2 3 VAL B 179 VAL B 180 -1 O VAL B 179 N ILE B 144 SHEET 1 AA3 3 VAL C 150 ASP C 152 0 SHEET 2 AA3 3 PRO C 142 ILE C 144 -1 N VAL C 143 O TYR C 151 SHEET 3 AA3 3 VAL C 179 VAL C 180 -1 O VAL C 179 N ILE C 144 SITE 1 AC1 3 GLN A 187 HOH A 407 GLN B 187 SITE 1 AC2 5 VAL A 180 ASP A 182 GLN B 187 PHE C 193 SITE 2 AC2 5 TYR C 194 SITE 1 AC3 3 ARG B 197 GLU B 198 TYR C 194 SITE 1 AC4 7 PHE A 130 GLN A 187 PHE A 193 TYR A 194 SITE 2 AC4 7 VAL B 180 ASP B 182 GLU B 183 SITE 1 AC5 2 ARG B 195 LYS B 196 SITE 1 AC6 7 PHE B 193 TYR B 194 PHE C 130 VAL C 180 SITE 2 AC6 7 ASP C 182 GLN C 187 HOH C 402 SITE 1 AC7 1 GLN C 187 SITE 1 AC8 3 ILE C 129 LYS C 149 VAL C 150 CRYST1 160.227 160.227 160.227 90.00 90.00 90.00 P 4 3 2 72 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 0.006241 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006241 0.00000