HEADER LIGASE 19-MAR-20 6W7Z TITLE RNF12 RING DOMAIN IN COMPLEX WITH UBE2D2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 D2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: (E3-INDEPENDENT) E2 UBIQUITIN-CONJUGATING ENZYME D2,E2 COMPND 5 UBIQUITIN-CONJUGATING ENZYME D2,UBIQUITIN CARRIER PROTEIN D2, COMPND 6 UBIQUITIN-CONJUGATING ENZYME E2(17)KB 2,UBIQUITIN-CONJUGATING ENZYME COMPND 7 E2-17 KDA 2,UBIQUITIN-PROTEIN LIGASE D2,P53-REGULATED UBIQUITIN- COMPND 8 CONJUGATING ENZYME 1; COMPND 9 EC: 2.3.2.23,2.3.2.24; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RLIM; COMPND 13 CHAIN: B; COMPND 14 SYNONYM: LIM DOMAIN-INTERACTING RING FINGER PROTEIN,RING FINGER LIM COMPND 15 DOMAIN-BINDING PROTEIN,R-LIM,RING FINGER PROTEIN 12,RING-TYPE E3 COMPND 16 UBIQUITIN TRANSFERASE RLIM,RENAL CARCINOMA ANTIGEN NY-REN-43, RNF12- COMPND 17 RING; COMPND 18 EC: 2.3.2.27; COMPND 19 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, PUBC1, UBC4, UBC5B, UBCH4, UBCH5B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: RLIM, RNF12; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RING E3 LIGASE, UBIQUITIN, UBIQUITIN CONJUGATING ENZYME, X-CHROMOSOME KEYWDS 2 INACTIVATION, RING, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR A.J.MIDDLETON,C.L.DAY REVDAT 5 03-APR-24 6W7Z 1 REMARK REVDAT 4 06-MAR-24 6W7Z 1 REMARK REVDAT 3 01-JUL-20 6W7Z 1 JRNL REVDAT 2 27-MAY-20 6W7Z 1 JRNL REVDAT 1 20-MAY-20 6W7Z 0 JRNL AUTH A.J.MIDDLETON,J.ZHU,C.L.DAY JRNL TITL THE RING DOMAIN OF RING FINGER 12 EFFICIENTLY BUILDS JRNL TITL 2 DEGRADATIVE UBIQUITIN CHAINS. JRNL REF J.MOL.BIOL. V. 432 3790 2020 JRNL REFN ESSN 1089-8638 JRNL PMID 32416094 JRNL DOI 10.1016/J.JMB.2020.05.001 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 24081 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 1166 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 47.7400 - 3.5992 1.00 2928 153 0.1475 0.1523 REMARK 3 2 3.5992 - 2.8571 1.00 2887 131 0.1787 0.2137 REMARK 3 3 2.8571 - 2.4960 1.00 2876 147 0.1904 0.2428 REMARK 3 4 2.4960 - 2.2678 1.00 2839 160 0.1871 0.2406 REMARK 3 5 2.2678 - 2.1053 1.00 2838 153 0.1858 0.2433 REMARK 3 6 2.1053 - 1.9812 1.00 2884 141 0.1981 0.2380 REMARK 3 7 1.9812 - 1.8820 1.00 2821 145 0.2214 0.2752 REMARK 3 8 1.8820 - 1.8000 1.00 2842 136 0.2729 0.3442 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.840 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.31 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.93 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 : 0.002 1861 REMARK 3 ANGLE : 0.530 2531 REMARK 3 CHIRALITY : 0.041 273 REMARK 3 PLANARITY : 0.004 331 REMARK 3 DIHEDRAL : 2.413 1567 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 13 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 0:16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 78.028 7.651 77.151 REMARK 3 T TENSOR REMARK 3 T11: 0.2095 T22: 0.2162 REMARK 3 T33: 0.3913 T12: -0.0017 REMARK 3 T13: -0.0065 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 2.9764 L22: 7.3436 REMARK 3 L33: 6.2127 L12: 1.0004 REMARK 3 L13: -1.8462 L23: -0.2553 REMARK 3 S TENSOR REMARK 3 S11: -0.1610 S12: 0.0919 S13: 0.1300 REMARK 3 S21: -0.0219 S22: -0.0527 S23: 1.0207 REMARK 3 S31: -0.0138 S32: -0.4892 S33: 0.1499 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 17:39 ) REMARK 3 ORIGIN FOR THE GROUP (A): 88.217 7.623 84.396 REMARK 3 T TENSOR REMARK 3 T11: 0.2016 T22: 0.2032 REMARK 3 T33: 0.2793 T12: 0.0076 REMARK 3 T13: -0.0038 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 6.3628 L22: 5.5831 REMARK 3 L33: 7.6588 L12: -4.3341 REMARK 3 L13: 5.0677 L23: -3.8258 REMARK 3 S TENSOR REMARK 3 S11: -0.1407 S12: -0.4017 S13: 0.0745 REMARK 3 S21: 0.3551 S22: 0.3508 S23: -0.0849 REMARK 3 S31: -0.1963 S32: -0.4771 S33: -0.1610 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 40:75 ) REMARK 3 ORIGIN FOR THE GROUP (A): 94.861 1.234 81.381 REMARK 3 T TENSOR REMARK 3 T11: 0.1379 T22: 0.1078 REMARK 3 T33: 0.2150 T12: 0.0028 REMARK 3 T13: 0.0486 T23: -0.0094 REMARK 3 L TENSOR REMARK 3 L11: 5.9486 L22: 1.3122 REMARK 3 L33: 5.4114 L12: -0.4309 REMARK 3 L13: 5.0667 L23: -0.0168 REMARK 3 S TENSOR REMARK 3 S11: -0.1556 S12: 0.1713 S13: -0.1217 REMARK 3 S21: 0.0684 S22: 0.0521 S23: -0.1737 REMARK 3 S31: -0.0242 S32: 0.1950 S33: 0.0803 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 76:85 ) REMARK 3 ORIGIN FOR THE GROUP (A): 102.582 -3.227 79.009 REMARK 3 T TENSOR REMARK 3 T11: 0.1390 T22: 0.1806 REMARK 3 T33: 0.3076 T12: 0.0058 REMARK 3 T13: 0.0252 T23: -0.0532 REMARK 3 L TENSOR REMARK 3 L11: 8.6392 L22: 4.7427 REMARK 3 L33: 6.5684 L12: 0.2232 REMARK 3 L13: 1.1172 L23: -4.4286 REMARK 3 S TENSOR REMARK 3 S11: 0.1889 S12: 0.1735 S13: -0.5912 REMARK 3 S21: -0.3195 S22: -0.1290 S23: -0.3204 REMARK 3 S31: 0.1672 S32: 0.3110 S33: -0.0619 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 86:112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 89.558 -5.617 78.233 REMARK 3 T TENSOR REMARK 3 T11: 0.2079 T22: 0.1635 REMARK 3 T33: 0.3514 T12: -0.0154 REMARK 3 T13: 0.0358 T23: -0.0139 REMARK 3 L TENSOR REMARK 3 L11: 4.6745 L22: 1.2475 REMARK 3 L33: 3.3510 L12: -0.0679 REMARK 3 L13: 3.6239 L23: 0.1982 REMARK 3 S TENSOR REMARK 3 S11: 0.1008 S12: 0.0829 S13: -0.5148 REMARK 3 S21: 0.0180 S22: 0.0453 S23: -0.1594 REMARK 3 S31: 0.3531 S32: 0.0696 S33: -0.1666 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND RESID 113:121 ) REMARK 3 ORIGIN FOR THE GROUP (A): 103.445 -12.429 79.385 REMARK 3 T TENSOR REMARK 3 T11: 0.3186 T22: 0.3178 REMARK 3 T33: 0.5004 T12: 0.0599 REMARK 3 T13: -0.0880 T23: -0.0852 REMARK 3 L TENSOR REMARK 3 L11: 5.0570 L22: 5.3819 REMARK 3 L33: 5.9212 L12: 3.9299 REMARK 3 L13: -4.6161 L23: -3.8766 REMARK 3 S TENSOR REMARK 3 S11: 0.1038 S12: 0.2379 S13: -0.6673 REMARK 3 S21: -0.6163 S22: 0.1905 S23: 0.0609 REMARK 3 S31: 0.6737 S32: -0.2092 S33: -0.2490 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN A AND RESID 122:147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 107.825 -7.798 91.612 REMARK 3 T TENSOR REMARK 3 T11: 0.2624 T22: 0.2889 REMARK 3 T33: 0.4204 T12: 0.0463 REMARK 3 T13: -0.1369 T23: 0.0188 REMARK 3 L TENSOR REMARK 3 L11: 4.5226 L22: 5.3825 REMARK 3 L33: 4.6368 L12: -3.2841 REMARK 3 L13: -0.1070 L23: 1.3722 REMARK 3 S TENSOR REMARK 3 S11: 0.0459 S12: -0.5877 S13: -0.5894 REMARK 3 S21: 0.5824 S22: 0.5412 S23: -0.4449 REMARK 3 S31: 0.5827 S32: 0.4554 S33: -0.4788 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN B AND RESID 546:554 ) REMARK 3 ORIGIN FOR THE GROUP (A): 79.166 -8.603 51.945 REMARK 3 T TENSOR REMARK 3 T11: 0.5285 T22: 0.5759 REMARK 3 T33: 0.3245 T12: 0.0250 REMARK 3 T13: 0.0301 T23: -0.0459 REMARK 3 L TENSOR REMARK 3 L11: 9.9028 L22: 2.2147 REMARK 3 L33: 2.1609 L12: 4.2084 REMARK 3 L13: 4.2581 L23: 1.5490 REMARK 3 S TENSOR REMARK 3 S11: -0.0428 S12: 1.1758 S13: 0.4209 REMARK 3 S21: -1.2950 S22: 0.0686 S23: -0.2329 REMARK 3 S31: 0.4411 S32: 0.0449 S33: -0.1025 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: ( CHAIN B AND RESID 555:565 ) REMARK 3 ORIGIN FOR THE GROUP (A): 62.035 -6.114 62.672 REMARK 3 T TENSOR REMARK 3 T11: 0.2784 T22: 0.4050 REMARK 3 T33: 0.4532 T12: -0.0856 REMARK 3 T13: -0.0981 T23: -0.0793 REMARK 3 L TENSOR REMARK 3 L11: 9.3416 L22: 9.3510 REMARK 3 L33: 10.0765 L12: -6.6163 REMARK 3 L13: -7.3735 L23: 5.6828 REMARK 3 S TENSOR REMARK 3 S11: 0.0554 S12: 0.8806 S13: -0.8863 REMARK 3 S21: -0.2641 S22: -0.6889 S23: 1.2564 REMARK 3 S31: -0.1111 S32: -1.1283 S33: 0.7507 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: ( CHAIN B AND RESID 566:570 ) REMARK 3 ORIGIN FOR THE GROUP (A): 66.259 -3.832 72.429 REMARK 3 T TENSOR REMARK 3 T11: 0.2582 T22: 0.2896 REMARK 3 T33: 0.4532 T12: 0.0257 REMARK 3 T13: 0.1096 T23: -0.0433 REMARK 3 L TENSOR REMARK 3 L11: 4.7308 L22: 6.8500 REMARK 3 L33: 6.1925 L12: 0.3631 REMARK 3 L13: -0.9857 L23: -5.0769 REMARK 3 S TENSOR REMARK 3 S11: -1.0254 S12: -0.7084 S13: -1.1439 REMARK 3 S21: 0.2475 S22: 0.3100 S23: 0.8847 REMARK 3 S31: 0.7415 S32: -0.0121 S33: 0.6467 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: ( CHAIN B AND RESID 571:575 ) REMARK 3 ORIGIN FOR THE GROUP (A): 74.203 0.514 71.058 REMARK 3 T TENSOR REMARK 3 T11: 0.1440 T22: 0.1923 REMARK 3 T33: 0.2766 T12: -0.0218 REMARK 3 T13: -0.0337 T23: -0.0223 REMARK 3 L TENSOR REMARK 3 L11: 2.0391 L22: 2.0160 REMARK 3 L33: 5.8281 L12: -3.3121 REMARK 3 L13: -7.4951 L23: 1.9495 REMARK 3 S TENSOR REMARK 3 S11: 0.0125 S12: -0.5587 S13: 0.2238 REMARK 3 S21: -0.0868 S22: -0.0401 S23: 0.5893 REMARK 3 S31: -0.2981 S32: 0.2993 S33: -0.0319 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: ( CHAIN B AND RESID 576:590 ) REMARK 3 ORIGIN FOR THE GROUP (A): 67.213 -5.310 65.207 REMARK 3 T TENSOR REMARK 3 T11: 0.2011 T22: 0.2609 REMARK 3 T33: 0.3723 T12: -0.0454 REMARK 3 T13: -0.0557 T23: -0.0149 REMARK 3 L TENSOR REMARK 3 L11: 5.8273 L22: 7.9742 REMARK 3 L33: 4.6330 L12: -4.9270 REMARK 3 L13: 0.3048 L23: 0.9074 REMARK 3 S TENSOR REMARK 3 S11: 0.2128 S12: 0.1777 S13: -0.1306 REMARK 3 S21: -0.4805 S22: -0.3044 S23: 1.0898 REMARK 3 S31: -0.0232 S32: -0.4886 S33: 0.1039 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: ( CHAIN B AND RESID 591:615 ) REMARK 3 ORIGIN FOR THE GROUP (A): 78.507 -7.420 63.098 REMARK 3 T TENSOR REMARK 3 T11: 0.1994 T22: 0.1919 REMARK 3 T33: 0.1362 T12: -0.0519 REMARK 3 T13: 0.0179 T23: -0.0275 REMARK 3 L TENSOR REMARK 3 L11: 7.5136 L22: 8.2607 REMARK 3 L33: 5.6552 L12: -2.9389 REMARK 3 L13: 1.2696 L23: -1.6107 REMARK 3 S TENSOR REMARK 3 S11: 0.0516 S12: 0.4533 S13: 0.0551 REMARK 3 S21: -0.4513 S22: -0.0178 S23: -0.0559 REMARK 3 S31: -0.0966 S32: 0.2134 S33: -0.0174 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 6W7Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1000247799. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.29 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24099 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.71100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: SAD-PHASED STRUCTURE OF RNF12-UBE2D2 (UNDEPOSITED REMARK 200 MODEL) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15-20% PEG 3350, 100-200 MM AMMONIUM REMARK 280 FORMATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 25.22650 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 -4 REMARK 465 PRO A -3 REMARK 465 LEU A -2 REMARK 465 GLY B 526 REMARK 465 PRO B 527 REMARK 465 LEU B 528 REMARK 465 GLY B 529 REMARK 465 SER B 530 REMARK 465 LEU B 531 REMARK 465 ALA B 532 REMARK 465 GLN B 533 REMARK 465 PHE B 534 REMARK 465 PHE B 535 REMARK 465 LEU B 536 REMARK 465 LEU B 537 REMARK 465 ASN B 538 REMARK 465 GLU B 539 REMARK 465 ASP B 540 REMARK 465 ASP B 541 REMARK 465 ASP B 542 REMARK 465 ASP B 543 REMARK 465 GLN B 544 REMARK 465 PRO B 545 REMARK 465 SER B 617 REMARK 465 GLY B 618 REMARK 465 ASN B 619 REMARK 465 ARG B 620 REMARK 465 GLU B 621 REMARK 465 SER B 622 REMARK 465 VAL B 623 REMARK 465 VAL B 624 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 ARG A 90 -107.92 -129.04 REMARK 500 ASP A 130 82.76 -156.11 REMARK 500 SER B 589 -4.86 81.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 570 SG REMARK 620 2 CYS B 573 SG 113.2 REMARK 620 3 HIS B 593 ND1 100.9 93.3 REMARK 620 4 CYS B 596 SG 114.7 112.5 120.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 588 SG REMARK 620 2 HIS B 590 ND1 111.7 REMARK 620 3 CYS B 607 SG 105.6 105.0 REMARK 620 4 CYS B 610 SG 109.1 116.3 108.6 REMARK 620 N 1 2 3 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 702 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6W9A RELATED DB: PDB REMARK 900 RELATED ID: 6W9D RELATED DB: PDB DBREF 6W7Z A 1 147 UNP P62837 UB2D2_HUMAN 1 147 DBREF 6W7Z B 530 624 UNP Q9NVW2 RNF12_HUMAN 530 624 SEQADV 6W7Z GLY A -4 UNP P62837 EXPRESSION TAG SEQADV 6W7Z PRO A -3 UNP P62837 EXPRESSION TAG SEQADV 6W7Z LEU A -2 UNP P62837 EXPRESSION TAG SEQADV 6W7Z GLY A -1 UNP P62837 EXPRESSION TAG SEQADV 6W7Z SER A 0 UNP P62837 EXPRESSION TAG SEQADV 6W7Z SER A 21 UNP P62837 CYS 21 ENGINEERED MUTATION SEQADV 6W7Z ARG A 22 UNP P62837 SER 22 ENGINEERED MUTATION SEQADV 6W7Z SER A 107 UNP P62837 CYS 107 ENGINEERED MUTATION SEQADV 6W7Z SER A 111 UNP P62837 CYS 111 ENGINEERED MUTATION SEQADV 6W7Z GLY B 526 UNP Q9NVW2 EXPRESSION TAG SEQADV 6W7Z PRO B 527 UNP Q9NVW2 EXPRESSION TAG SEQADV 6W7Z LEU B 528 UNP Q9NVW2 EXPRESSION TAG SEQADV 6W7Z GLY B 529 UNP Q9NVW2 EXPRESSION TAG SEQRES 1 A 152 GLY PRO LEU GLY SER MET ALA LEU LYS ARG ILE HIS LYS SEQRES 2 A 152 GLU LEU ASN ASP LEU ALA ARG ASP PRO PRO ALA GLN SER SEQRES 3 A 152 ARG ALA GLY PRO VAL GLY ASP ASP MET PHE HIS TRP GLN SEQRES 4 A 152 ALA THR ILE MET GLY PRO ASN ASP SER PRO TYR GLN GLY SEQRES 5 A 152 GLY VAL PHE PHE LEU THR ILE HIS PHE PRO THR ASP TYR SEQRES 6 A 152 PRO PHE LYS PRO PRO LYS VAL ALA PHE THR THR ARG ILE SEQRES 7 A 152 TYR HIS PRO ASN ILE ASN SER ASN GLY SER ILE CYS LEU SEQRES 8 A 152 ASP ILE LEU ARG SER GLN TRP SER PRO ALA LEU THR ILE SEQRES 9 A 152 SER LYS VAL LEU LEU SER ILE SER SER LEU LEU SER ASP SEQRES 10 A 152 PRO ASN PRO ASP ASP PRO LEU VAL PRO GLU ILE ALA ARG SEQRES 11 A 152 ILE TYR LYS THR ASP ARG GLU LYS TYR ASN ARG ILE ALA SEQRES 12 A 152 ARG GLU TRP THR GLN LYS TYR ALA MET SEQRES 1 B 99 GLY PRO LEU GLY SER LEU ALA GLN PHE PHE LEU LEU ASN SEQRES 2 B 99 GLU ASP ASP ASP ASP GLN PRO ARG GLY LEU THR LYS GLU SEQRES 3 B 99 GLN ILE ASP ASN LEU ALA MET ARG SER PHE GLY GLU ASN SEQRES 4 B 99 ASP ALA LEU LYS THR CYS SER VAL CYS ILE THR GLU TYR SEQRES 5 B 99 THR GLU GLY ASN LYS LEU ARG LYS LEU PRO CYS SER HIS SEQRES 6 B 99 GLU TYR HIS VAL HIS CYS ILE ASP ARG TRP LEU SER GLU SEQRES 7 B 99 ASN SER THR CYS PRO ILE CYS ARG ARG ALA VAL LEU ALA SEQRES 8 B 99 SER GLY ASN ARG GLU SER VAL VAL HET GOL A 201 6 HET ZN B 701 1 HET ZN B 702 1 HETNAM GOL GLYCEROL HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 ZN 2(ZN 2+) FORMUL 6 HOH *146(H2 O) HELIX 1 AA1 GLY A -1 ASP A 16 1 18 HELIX 2 AA2 LEU A 86 ARG A 90 5 5 HELIX 3 AA3 THR A 98 ASP A 112 1 15 HELIX 4 AA4 VAL A 120 ASP A 130 1 11 HELIX 5 AA5 ASP A 130 ALA A 146 1 17 HELIX 6 AA6 THR B 549 ASN B 555 1 7 HELIX 7 AA7 VAL B 594 SER B 602 1 9 SHEET 1 AA1 4 SER A 21 PRO A 25 0 SHEET 2 AA1 4 HIS A 32 MET A 38 -1 O GLN A 34 N GLY A 24 SHEET 3 AA1 4 VAL A 49 HIS A 55 -1 O ILE A 54 N TRP A 33 SHEET 4 AA1 4 LYS A 66 PHE A 69 -1 O ALA A 68 N THR A 53 SHEET 1 AA2 3 MET B 558 SER B 560 0 SHEET 2 AA2 3 LYS B 582 LYS B 585 -1 O LEU B 583 N ARG B 559 SHEET 3 AA2 3 GLU B 591 HIS B 593 -1 O TYR B 592 N ARG B 584 SHEET 1 AA3 2 THR B 569 CYS B 570 0 SHEET 2 AA3 2 THR B 575 GLU B 576 -1 O THR B 575 N CYS B 570 LINK SG CYS B 570 ZN ZN B 702 1555 1555 2.36 LINK SG CYS B 573 ZN ZN B 702 1555 1555 2.31 LINK SG CYS B 588 ZN ZN B 701 1555 1555 2.31 LINK ND1 HIS B 590 ZN ZN B 701 1555 1555 2.05 LINK ND1 HIS B 593 ZN ZN B 702 1555 1555 2.23 LINK SG CYS B 596 ZN ZN B 702 1555 1555 2.30 LINK SG CYS B 607 ZN ZN B 701 1555 1555 2.35 LINK SG CYS B 610 ZN ZN B 701 1555 1555 2.33 CISPEP 1 TYR A 60 PRO A 61 0 4.54 SITE 1 AC1 7 PRO A 65 LYS A 66 VAL A 67 SER A 83 SITE 2 AC1 7 ILE A 84 ARG A 90 HOH A 321 SITE 1 AC2 4 CYS B 588 HIS B 590 CYS B 607 CYS B 610 SITE 1 AC3 4 CYS B 570 CYS B 573 HIS B 593 CYS B 596 CRYST1 48.441 50.453 54.375 90.00 99.72 90.00 P 1 21 1 2 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 0.020644 0.000000 0.003538 0.00000 SCALE2 0.000000 0.019820 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018659 0.00000