PDB Short entry for 4LJO HEADER LIGASE 05-JUL-13 4LJO TITLE STRUCTURE OF AN ACTIVE LIGASE (HOIP)/UBIQUITIN TRANSFER COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RNF31; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: E3 LIGASE HOIP CATALYTIC CORE (UNP RESIDUES 853-1072); COMPND 5 SYNONYM: HOIL-1-INTERACTING PROTEIN, HOIP, RING FINGER PROTEIN 31, COMPND 6 ZINC IN-BETWEEN-RING-FINGER UBIQUITIN-ASSOCIATED DOMAIN PROTEIN; COMPND 7 EC: 6.3.2.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: POLYUBIQUITIN-C; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 77-152 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RNF31, ZIBRA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-49B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 13 ORGANISM_COMMON: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW; SOURCE 14 ORGANISM_TAXID: 9913 KEYWDS E3 LIGASE-UBIQUITIN COMPLEX, LIGASE, HOIP, RNF31, UBIQUITIN, RBR KEYWDS 2 LIGASE, E3 LIGASE, RING DOMAIN, IBR DOMAIN, ZINC FINGER EXPDTA X-RAY DIFFRACTION AUTHOR R.R.RANA,B.STIEGLITZ,M.G.KOLIOPOULOS,A.C.MORRIS-DAVIES, AUTHOR 2 E.CHRISTODOULOU,S.HOWELL,N.R.BROWN,K.RITTINGER REVDAT 8 20-SEP-23 4LJO 1 REMARK SEQADV LINK REVDAT 7 17-JUL-19 4LJO 1 REMARK REVDAT 6 24-JAN-18 4LJO 1 AUTHOR REVDAT 5 15-NOV-17 4LJO 1 REMARK REVDAT 4 08-OCT-14 4LJO 1 AUTHOR REVDAT 3 18-DEC-13 4LJO 1 JRNL REVDAT 2 13-NOV-13 4LJO 1 JRNL REVDAT 1 16-OCT-13 4LJO 0 JRNL AUTH B.STIEGLITZ,R.R.RANA,M.G.KOLIOPOULOS,A.C.MORRIS-DAVIES, JRNL AUTH 2 V.SCHAEFFER,E.CHRISTODOULOU,S.HOWELL,N.R.BROWN,I.DIKIC, JRNL AUTH 3 K.RITTINGER JRNL TITL STRUCTURAL BASIS FOR LIGASE-SPECIFIC CONJUGATION OF LINEAR JRNL TITL 2 UBIQUITIN CHAINS BY HOIP. JRNL REF NATURE V. 503 422 2013 JRNL REFN ISSN 0028-0836 JRNL PMID 24141947 JRNL DOI 10.1038/NATURE12638 REMARK 2 REMARK 2 RESOLUTION. 1.56 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.730 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 44055 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 2220 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 44.3545 - 4.8567 0.90 2517 169 0.1492 0.1464 REMARK 3 2 4.8567 - 3.8556 0.95 2664 133 0.1300 0.1395 REMARK 3 3 3.8556 - 3.3685 0.92 2582 146 0.1650 0.2157 REMARK 3 4 3.3685 - 3.0606 0.95 2636 134 0.1879 0.2583 REMARK 3 5 3.0606 - 2.8412 0.96 2735 128 0.2057 0.2720 REMARK 3 6 2.8412 - 2.6737 0.96 2743 119 0.1979 0.1984 REMARK 3 7 2.6737 - 2.5399 0.95 2653 143 0.1886 0.2582 REMARK 3 8 2.5399 - 2.4293 0.94 2623 127 0.1846 0.2169 REMARK 3 9 2.4293 - 2.3358 0.95 2675 141 0.1795 0.2555 REMARK 3 10 2.3358 - 2.2552 0.95 2756 127 0.1918 0.2752 REMARK 3 11 2.2552 - 2.1847 0.95 2599 150 0.1890 0.2289 REMARK 3 12 2.1847 - 2.1222 0.96 2768 162 0.1963 0.2344 REMARK 3 13 2.1222 - 2.0664 0.96 2652 149 0.1889 0.2291 REMARK 3 14 2.0664 - 2.0159 0.96 2688 159 0.1916 0.2105 REMARK 3 15 2.0159 - 1.9701 0.95 2697 143 0.2001 0.2229 REMARK 3 16 1.9701 - 1.9282 0.92 2555 137 0.1940 0.2286 REMARK 3 17 1.9282 - 1.8896 0.95 2732 134 0.1988 0.2654 REMARK 3 18 1.8896 - 1.8540 0.95 2665 122 0.2068 0.2220 REMARK 3 19 1.8540 - 1.8208 0.95 2677 128 0.1991 0.2542 REMARK 3 20 1.8208 - 1.7900 0.95 2684 165 0.2058 0.2225 REMARK 3 21 1.7900 - 1.7611 0.96 2625 119 0.2234 0.2425 REMARK 3 22 1.7611 - 1.7340 0.96 2807 138 0.2326 0.2870 REMARK 3 23 1.7340 - 1.7085 0.96 2631 126 0.2354 0.2993 REMARK 3 24 1.7085 - 1.6844 0.94 2646 153 0.2521 0.2499 REMARK 3 25 1.6844 - 1.6617 0.95 2743 135 0.2570 0.2629 REMARK 3 26 1.6617 - 1.6401 0.92 2488 144 0.2747 0.3162 REMARK 3 27 1.6401 - 1.6196 0.94 2710 133 0.3041 0.3300 REMARK 3 28 1.6196 - 1.6001 0.93 2568 184 0.3074 0.3366 REMARK 3 29 1.6001 - 1.5815 0.94 2562 140 0.3184 0.3234 REMARK 3 30 1.5815 - 1.5637 0.94 2715 141 0.3243 0.3680 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.56 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.00 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 : 0.006 2360 REMARK 3 ANGLE : 1.032 3187 REMARK 3 CHIRALITY : 0.071 341 REMARK 3 PLANARITY : 0.006 424 REMARK 3 DIHEDRAL : 13.877 907 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 17 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 857:879 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.3098 14.1118 19.5067 REMARK 3 T TENSOR REMARK 3 T11: 0.3123 T22: 0.4009 REMARK 3 T33: 0.2087 T12: -0.0527 REMARK 3 T13: -0.0008 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 4.9045 L22: 1.3188 REMARK 3 L33: 4.0676 L12: 0.2385 REMARK 3 L13: -0.9517 L23: -0.4015 REMARK 3 S TENSOR REMARK 3 S11: 0.0416 S12: -0.7504 S13: 0.3168 REMARK 3 S21: 0.1343 S22: -0.0885 S23: -0.0967 REMARK 3 S31: -0.6950 S32: 0.2971 S33: 0.0757 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 880:895 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1767 4.6204 14.6899 REMARK 3 T TENSOR REMARK 3 T11: 0.2476 T22: 0.3222 REMARK 3 T33: 0.1962 T12: -0.0714 REMARK 3 T13: 0.0349 T23: 0.0362 REMARK 3 L TENSOR REMARK 3 L11: 3.0132 L22: 2.4627 REMARK 3 L33: 5.7251 L12: -1.5847 REMARK 3 L13: -0.0930 L23: -0.0344 REMARK 3 S TENSOR REMARK 3 S11: 0.0097 S12: 0.0408 S13: -0.1806 REMARK 3 S21: 0.0980 S22: -0.0527 S23: 0.1105 REMARK 3 S31: 0.3460 S32: -0.2756 S33: 0.1339 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 896:913 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.4078 7.8035 4.8188 REMARK 3 T TENSOR REMARK 3 T11: 0.2384 T22: 0.3272 REMARK 3 T33: 0.2624 T12: -0.0494 REMARK 3 T13: -0.0315 T23: -0.0155 REMARK 3 L TENSOR REMARK 3 L11: 5.7496 L22: 6.1034 REMARK 3 L33: 7.6251 L12: 0.5608 REMARK 3 L13: 0.2238 L23: 0.7837 REMARK 3 S TENSOR REMARK 3 S11: -0.0487 S12: 0.2738 S13: -0.2731 REMARK 3 S21: -0.3385 S22: -0.0898 S23: 0.6337 REMARK 3 S31: -0.0568 S32: -0.5746 S33: 0.1129 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 914:949 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.7823 14.0909 -0.7674 REMARK 3 T TENSOR REMARK 3 T11: 0.2772 T22: 0.2081 REMARK 3 T33: 0.1549 T12: -0.0749 REMARK 3 T13: -0.0045 T23: 0.0083 REMARK 3 L TENSOR REMARK 3 L11: 1.5286 L22: 4.1242 REMARK 3 L33: 2.9686 L12: 0.9722 REMARK 3 L13: -1.0753 L23: -0.5928 REMARK 3 S TENSOR REMARK 3 S11: -0.1355 S12: 0.2437 S13: 0.0089 REMARK 3 S21: -0.4754 S22: 0.0922 S23: 0.0617 REMARK 3 S31: -0.0657 S32: -0.0784 S33: 0.1218 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 950:971 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.6861 14.8115 16.5024 REMARK 3 T TENSOR REMARK 3 T11: 0.4835 T22: 0.7979 REMARK 3 T33: 0.4199 T12: -0.2176 REMARK 3 T13: -0.1893 T23: 0.0950 REMARK 3 L TENSOR REMARK 3 L11: 2.0905 L22: 4.3182 REMARK 3 L33: 1.2964 L12: 0.2304 REMARK 3 L13: -1.5262 L23: 0.5332 REMARK 3 S TENSOR REMARK 3 S11: -0.2043 S12: -1.0059 S13: -0.0889 REMARK 3 S21: 1.5717 S22: -0.1533 S23: -1.2291 REMARK 3 S31: -0.5397 S32: 1.4541 S33: 0.2764 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND RESID 972:985 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.6265 -3.4124 19.8185 REMARK 3 T TENSOR REMARK 3 T11: 0.4430 T22: 0.5977 REMARK 3 T33: 0.4394 T12: 0.0282 REMARK 3 T13: 0.0464 T23: 0.1381 REMARK 3 L TENSOR REMARK 3 L11: 1.1585 L22: 3.9406 REMARK 3 L33: 3.6082 L12: 1.7937 REMARK 3 L13: -1.8301 L23: -3.1932 REMARK 3 S TENSOR REMARK 3 S11: -0.1082 S12: -0.3135 S13: -0.9430 REMARK 3 S21: -0.0913 S22: -0.2559 S23: -0.2884 REMARK 3 S31: 1.4124 S32: 0.2145 S33: 0.2863 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN A AND RESID 986:1012 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.4890 12.4462 9.4676 REMARK 3 T TENSOR REMARK 3 T11: 0.1790 T22: 0.3021 REMARK 3 T33: 0.2639 T12: -0.0879 REMARK 3 T13: 0.0152 T23: 0.0541 REMARK 3 L TENSOR REMARK 3 L11: 2.1430 L22: 2.0459 REMARK 3 L33: 3.5990 L12: 0.3072 REMARK 3 L13: -0.0999 L23: -1.3720 REMARK 3 S TENSOR REMARK 3 S11: -0.0507 S12: -0.2772 S13: -0.2323 REMARK 3 S21: -0.0969 S22: -0.1987 S23: -0.5266 REMARK 3 S31: 0.0715 S32: 0.5890 S33: 0.2517 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN A AND RESID 1013:1034 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.7222 20.1986 -6.9610 REMARK 3 T TENSOR REMARK 3 T11: 0.3011 T22: 0.2144 REMARK 3 T33: 0.1574 T12: -0.0391 REMARK 3 T13: -0.0078 T23: 0.0397 REMARK 3 L TENSOR REMARK 3 L11: 3.2453 L22: 3.5863 REMARK 3 L33: 9.2123 L12: 0.2283 REMARK 3 L13: -0.9958 L23: -1.0706 REMARK 3 S TENSOR REMARK 3 S11: 0.0038 S12: 0.4130 S13: 0.0837 REMARK 3 S21: -0.6175 S22: 0.0823 S23: 0.0502 REMARK 3 S31: -0.2259 S32: -0.3250 S33: -0.1228 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: ( CHAIN A AND RESID 1035:1072 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.2892 25.0240 -7.8982 REMARK 3 T TENSOR REMARK 3 T11: 0.4869 T22: 0.3554 REMARK 3 T33: 0.2815 T12: 0.0584 REMARK 3 T13: 0.0114 T23: 0.0626 REMARK 3 L TENSOR REMARK 3 L11: 2.3165 L22: 2.1266 REMARK 3 L33: 7.5590 L12: 0.0425 REMARK 3 L13: -1.2910 L23: -1.8652 REMARK 3 S TENSOR REMARK 3 S11: 0.3377 S12: 0.3873 S13: 0.4159 REMARK 3 S21: -0.2545 S22: 0.2244 S23: 0.2336 REMARK 3 S31: -1.1514 S32: -1.0315 S33: -0.1331 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: ( CHAIN B AND RESID 1:6 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.5348 0.1403 -0.7471 REMARK 3 T TENSOR REMARK 3 T11: 0.3253 T22: 0.3843 REMARK 3 T33: 0.2316 T12: -0.1093 REMARK 3 T13: 0.0165 T23: -0.0095 REMARK 3 L TENSOR REMARK 3 L11: 5.6169 L22: 2.0317 REMARK 3 L33: 5.8913 L12: -1.4572 REMARK 3 L13: -5.6831 L23: 1.4846 REMARK 3 S TENSOR REMARK 3 S11: -0.0734 S12: -0.8662 S13: -0.4281 REMARK 3 S21: 0.4244 S22: -0.2091 S23: -0.2557 REMARK 3 S31: 0.2382 S32: 1.1677 S33: 0.2392 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: ( CHAIN B AND RESID 7:12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.6862 4.1010 -9.9962 REMARK 3 T TENSOR REMARK 3 T11: 0.5515 T22: 0.6734 REMARK 3 T33: 0.6293 T12: -0.1694 REMARK 3 T13: 0.1090 T23: 0.1268 REMARK 3 L TENSOR REMARK 3 L11: 3.2498 L22: 5.5008 REMARK 3 L33: 5.0839 L12: -3.8221 REMARK 3 L13: 3.8642 L23: -5.0433 REMARK 3 S TENSOR REMARK 3 S11: 0.3814 S12: 1.1247 S13: 0.9209 REMARK 3 S21: -0.8640 S22: -0.0883 S23: -1.4601 REMARK 3 S31: -0.7271 S32: 0.9991 S33: -0.0643 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: ( CHAIN B AND RESID 13:22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.3819 -0.8186 -0.6004 REMARK 3 T TENSOR REMARK 3 T11: 0.2271 T22: 0.2003 REMARK 3 T33: 0.1835 T12: -0.0447 REMARK 3 T13: 0.0349 T23: -0.0202 REMARK 3 L TENSOR REMARK 3 L11: 9.8616 L22: 8.4933 REMARK 3 L33: 9.8302 L12: -0.6786 REMARK 3 L13: 0.3210 L23: 0.1866 REMARK 3 S TENSOR REMARK 3 S11: -0.1616 S12: -0.2506 S13: 0.1384 REMARK 3 S21: 0.2254 S22: 0.1351 S23: 0.1594 REMARK 3 S31: 0.2206 S32: -0.2832 S33: 0.1429 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: ( CHAIN B AND RESID 23:34 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.0178 3.0926 -8.5116 REMARK 3 T TENSOR REMARK 3 T11: 0.2823 T22: 0.2016 REMARK 3 T33: 0.1413 T12: -0.0598 REMARK 3 T13: 0.0136 T23: -0.0472 REMARK 3 L TENSOR REMARK 3 L11: 9.5466 L22: 7.1921 REMARK 3 L33: 7.3791 L12: -0.9641 REMARK 3 L13: -3.0311 L23: -4.7664 REMARK 3 S TENSOR REMARK 3 S11: 0.0615 S12: -0.2177 S13: -0.0787 REMARK 3 S21: -0.0313 S22: -0.2486 S23: 0.3600 REMARK 3 S31: -0.0511 S32: -0.4160 S33: 0.1785 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: ( CHAIN B AND RESID 35:44 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.7417 0.2208 -15.3609 REMARK 3 T TENSOR REMARK 3 T11: 0.3907 T22: 0.2300 REMARK 3 T33: 0.2096 T12: -0.0647 REMARK 3 T13: 0.0350 T23: -0.0307 REMARK 3 L TENSOR REMARK 3 L11: 4.2280 L22: 5.8565 REMARK 3 L33: 6.9827 L12: -4.9828 REMARK 3 L13: 2.4592 L23: -2.5691 REMARK 3 S TENSOR REMARK 3 S11: 0.5347 S12: 0.5560 S13: -0.0519 REMARK 3 S21: -1.1981 S22: -0.4523 S23: -0.1240 REMARK 3 S31: 0.1574 S32: -0.0689 S33: -0.1869 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: ( CHAIN B AND RESID 45:56 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.1555 -10.4459 -8.9165 REMARK 3 T TENSOR REMARK 3 T11: 0.6354 T22: 0.2936 REMARK 3 T33: 0.3261 T12: -0.1314 REMARK 3 T13: 0.0663 T23: -0.0129 REMARK 3 L TENSOR REMARK 3 L11: 8.2416 L22: 6.0233 REMARK 3 L33: 7.6794 L12: -1.1779 REMARK 3 L13: -1.2858 L23: 0.0237 REMARK 3 S TENSOR REMARK 3 S11: -0.2726 S12: 1.0010 S13: -0.7275 REMARK 3 S21: -1.0560 S22: -0.0659 S23: -0.1548 REMARK 3 S31: 0.9655 S32: -0.1612 S33: 0.3618 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: ( CHAIN B AND RESID 57:65 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.5451 -8.8350 0.5121 REMARK 3 T TENSOR REMARK 3 T11: 0.3633 T22: 0.3144 REMARK 3 T33: 0.3450 T12: -0.0205 REMARK 3 T13: 0.0315 T23: 0.0641 REMARK 3 L TENSOR REMARK 3 L11: 2.7257 L22: 8.7962 REMARK 3 L33: 8.6025 L12: 3.1196 REMARK 3 L13: 1.7706 L23: 5.4677 REMARK 3 S TENSOR REMARK 3 S11: -0.2202 S12: -0.8267 S13: -0.2813 REMARK 3 S21: 1.0373 S22: -0.0448 S23: 0.0182 REMARK 3 S31: 0.8942 S32: 0.3507 S33: 0.1554 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: ( CHAIN B AND RESID 66:76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.6619 -1.5953 -17.6770 REMARK 3 T TENSOR REMARK 3 T11: 0.3484 T22: 0.2461 REMARK 3 T33: 0.2643 T12: -0.0479 REMARK 3 T13: 0.0505 T23: -0.0260 REMARK 3 L TENSOR REMARK 3 L11: 1.5651 L22: 1.2374 REMARK 3 L33: 2.0923 L12: -0.5560 REMARK 3 L13: 0.4838 L23: 0.7457 REMARK 3 S TENSOR REMARK 3 S11: 0.2354 S12: -0.0088 S13: -0.0515 REMARK 3 S21: -0.2577 S22: -0.0977 S23: 0.0264 REMARK 3 S31: -0.1263 S32: 0.1118 S33: -0.1419 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 4LJO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.920 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CCP4 REMARK 200 DATA SCALING SOFTWARE : XSCALE, CCP4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44055 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.560 REMARK 200 RESOLUTION RANGE LOW (A) : 44.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.03900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.59300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.520 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: PDB ENTRY 4LJQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CARBOXYLIC ACIDS, 0.1 M REMARK 280 IMIDAZOLE, MES, 30 % P550 MME_P20K, PH 6.5, VAPOUR DIFFUSION, REMARK 280 TEMPERATURE 293K, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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 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 44.33667 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 88.67333 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: 2050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL 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 850 REMARK 465 PRO A 851 REMARK 465 GLY A 852 REMARK 465 PRO A 853 REMARK 465 GLU A 854 REMARK 465 TYR A 855 REMARK 465 GLN A 856 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 B 7 -169.29 -101.79 REMARK 500 GLU B 64 18.29 59.81 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 A1101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 871 SG REMARK 620 2 CYS A 874 SG 113.7 REMARK 620 3 CYS A 890 SG 104.3 104.4 REMARK 620 4 CYS A 893 SG 108.9 115.3 109.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1106 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 885 SG REMARK 620 2 HIS A 887 ND1 112.5 REMARK 620 3 IMD A1105 N1 115.4 109.1 REMARK 620 4 MET B 1 N 113.2 96.3 108.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 898 SG REMARK 620 2 CYS A 901 SG 109.5 REMARK 620 3 HIS A 926 ND1 103.2 106.9 REMARK 620 4 CYS A 930 SG 106.6 112.7 117.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1103 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 911 SG REMARK 620 2 CYS A 916 SG 140.0 REMARK 620 3 HIS A 923 NE2 108.7 84.5 REMARK 620 4 HIS A 925 NE2 97.2 111.5 114.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 969 SG REMARK 620 2 CYS A 986 SG 107.7 REMARK 620 3 CYS A 998 SG 113.9 114.4 REMARK 620 4 HIS A1001 ND1 111.2 109.7 99.7 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 ZN A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1106 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LJP RELATED DB: PDB REMARK 900 RELATED ID: 4LJQ RELATED DB: PDB DBREF 4LJO A 853 1072 UNP Q96EP0 RNF31_HUMAN 853 1072 DBREF 4LJO B 1 76 UNP E1B9K1 E1B9K1_BOVIN 77 152 SEQADV 4LJO GLY A 850 UNP Q96EP0 EXPRESSION TAG SEQADV 4LJO PRO A 851 UNP Q96EP0 EXPRESSION TAG SEQADV 4LJO GLY A 852 UNP Q96EP0 EXPRESSION TAG SEQRES 1 A 223 GLY PRO GLY PRO GLU TYR GLN ALA GLN GLY LEU ALA MET SEQRES 2 A 223 TYR LEU GLN GLU ASN GLY ILE ASP CYS PRO LYS CYS LYS SEQRES 3 A 223 PHE SER TYR ALA LEU ALA ARG GLY GLY CYS MET HIS PHE SEQRES 4 A 223 HIS CYS THR GLN CYS ARG HIS GLN PHE CYS SER GLY CYS SEQRES 5 A 223 TYR ASN ALA PHE TYR ALA LYS ASN LYS CYS PRO GLU PRO SEQRES 6 A 223 ASN CYS ARG VAL LYS LYS SER LEU HIS GLY HIS HIS PRO SEQRES 7 A 223 ARG ASP CYS LEU PHE TYR LEU ARG ASP TRP THR ALA LEU SEQRES 8 A 223 ARG LEU GLN LYS LEU LEU GLN ASP ASN ASN VAL MET PHE SEQRES 9 A 223 ASN THR GLU PRO PRO ALA GLY ALA ARG ALA VAL PRO GLY SEQRES 10 A 223 GLY GLY CYS ARG VAL ILE GLU GLN LYS GLU VAL PRO ASN SEQRES 11 A 223 GLY LEU ARG ASP GLU ALA CYS GLY LYS GLU THR PRO ALA SEQRES 12 A 223 GLY TYR ALA GLY LEU CYS GLN ALA HIS TYR LYS GLU TYR SEQRES 13 A 223 LEU VAL SER LEU ILE ASN ALA HIS SER LEU ASP PRO ALA SEQRES 14 A 223 THR LEU TYR GLU VAL GLU GLU LEU GLU THR ALA THR GLU SEQRES 15 A 223 ARG TYR LEU HIS VAL ARG PRO GLN PRO LEU ALA GLY GLU SEQRES 16 A 223 ASP PRO PRO ALA TYR GLN ALA ARG LEU LEU GLN LYS LEU SEQRES 17 A 223 THR GLU GLU VAL PRO LEU GLY GLN SER ILE PRO ARG ARG SEQRES 18 A 223 ARG LYS SEQRES 1 B 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY HET ZN A1101 1 HET ZN A1102 1 HET ZN A1103 1 HET ZN A1104 1 HET IMD A1105 5 HET ZN A1106 1 HETNAM ZN ZINC ION HETNAM IMD IMIDAZOLE FORMUL 3 ZN 5(ZN 2+) FORMUL 7 IMD C3 H5 N2 1+ FORMUL 9 HOH *220(H2 O) HELIX 1 1 GLN A 858 GLN A 865 1 8 HELIX 2 2 CYS A 930 ARG A 935 1 6 HELIX 3 3 THR A 938 ASN A 949 1 12 HELIX 4 4 CYS A 998 HIS A 1013 1 16 HELIX 5 5 ASP A 1016 TYR A 1021 5 6 HELIX 6 6 GLU A 1022 HIS A 1035 1 14 HELIX 7 7 ASP A 1045 VAL A 1061 1 17 HELIX 8 8 THR B 22 GLY B 35 1 14 HELIX 9 9 PRO B 37 ASP B 39 5 3 HELIX 10 10 LEU B 56 ASN B 60 5 5 SHEET 1 A 2 GLY A 868 ASP A 870 0 SHEET 2 A 2 SER A 877 ALA A 879 -1 O TYR A 878 N ILE A 869 SHEET 1 B 2 HIS A 887 HIS A 889 0 SHEET 2 B 2 GLN A 896 CYS A 898 -1 O PHE A 897 N PHE A 888 SHEET 1 C 2 PHE A 905 TYR A 906 0 SHEET 2 C 2 HIS A 923 GLY A 924 -1 O HIS A 923 N TYR A 906 SHEET 1 D 2 ILE A 972 VAL A 977 0 SHEET 2 D 2 GLY A 980 ALA A 985 -1 O GLU A 984 N GLU A 973 SHEET 1 E 5 THR B 12 GLU B 16 0 SHEET 2 E 5 GLN B 2 LYS B 6 -1 N VAL B 5 O ILE B 13 SHEET 3 E 5 THR B 66 LEU B 71 1 O LEU B 67 N PHE B 4 SHEET 4 E 5 GLN B 41 PHE B 45 -1 N ILE B 44 O HIS B 68 SHEET 5 E 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 LINK SG CYS A 871 ZN ZN A1101 1555 1555 2.30 LINK SG CYS A 874 ZN ZN A1101 1555 1555 2.31 LINK SG CYS A 885 ZN ZN A1106 1555 1555 2.23 LINK ND1 HIS A 887 ZN ZN A1106 1555 1555 2.09 LINK SG CYS A 890 ZN ZN A1101 1555 1555 2.35 LINK SG CYS A 893 ZN ZN A1101 1555 1555 2.26 LINK SG CYS A 898 ZN ZN A1102 1555 1555 2.33 LINK SG CYS A 901 ZN ZN A1102 1555 1555 2.26 LINK SG CYS A 911 ZN ZN A1103 1555 1555 2.14 LINK SG CYS A 916 ZN ZN A1103 1555 1555 2.38 LINK NE2 HIS A 923 ZN ZN A1103 1555 1555 2.12 LINK NE2 HIS A 925 ZN ZN A1103 1555 1555 2.21 LINK ND1 HIS A 926 ZN ZN A1102 1555 1555 2.12 LINK SG CYS A 930 ZN ZN A1102 1555 1555 2.32 LINK SG CYS A 969 ZN ZN A1104 1555 1555 2.35 LINK SG CYS A 986 ZN ZN A1104 1555 1555 2.34 LINK SG CYS A 998 ZN ZN A1104 1555 1555 2.24 LINK ND1 HIS A1001 ZN ZN A1104 1555 1555 2.06 LINK N1 IMD A1105 ZN ZN A1106 1555 1555 1.97 LINK ZN ZN A1106 N MET B 1 1555 1555 2.02 CISPEP 1 PRO A 914 ASN A 915 0 -1.92 CISPEP 2 GLY A 967 GLY A 968 0 0.44 CISPEP 3 LEU B 8 THR B 9 0 -4.23 CISPEP 4 THR B 9 GLY B 10 0 -3.15 SITE 1 AC1 4 CYS A 871 CYS A 874 CYS A 890 CYS A 893 SITE 1 AC2 4 CYS A 898 CYS A 901 HIS A 926 CYS A 930 SITE 1 AC3 4 CYS A 911 CYS A 916 HIS A 923 HIS A 925 SITE 1 AC4 4 CYS A 969 CYS A 986 CYS A 998 HIS A1001 SITE 1 AC5 7 CYS A 885 HIS A 887 ZN A1106 MET B 1 SITE 2 AC5 7 VAL B 17 GLU B 18 HOH B 145 SITE 1 AC6 4 CYS A 885 HIS A 887 IMD A1105 MET B 1 CRYST1 45.950 45.950 133.010 90.00 90.00 120.00 P 31 3 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 0.021763 0.012565 0.000000 0.00000 SCALE2 0.000000 0.025130 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007518 0.00000