HEADER TRANSFERASE 15-JUL-19 6SA0 TITLE TERNARY COMPLEX OF PRIM-POLC FROM MYCOBACTERIUM SMEGMATIS WITH 2NT TITLE 2 GAPPED DNA AND UPNHPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LIGD, POLYMERASE DOMAIN; COMPND 3 CHAIN: A, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(P*GP*CP*GP*AP*GP*CP*G)-3'); COMPND 7 CHAIN: B, E; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (5'-D(*CP*GP*CP*TP*CP*GP*CP*AP*AP*CP*GP*CP*A)-3'); COMPND 11 CHAIN: C, F; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: DNA (5'-D(P*TP*GP*CP*GP)-3'); COMPND 15 CHAIN: H, G; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOLICIBACTERIUM SMEGMATIS MC2 155; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 VARIANT: ATCC 700084 / MC(2)155; SOURCE 5 GENE: LIGD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 17 ORGANISM_TAXID: 32630; SOURCE 18 MOL_ID: 4; SOURCE 19 SYNTHETIC: YES; SOURCE 20 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 21 ORGANISM_TAXID: 32630 KEYWDS NUCLEOTIDYL TRANSFERASE, POLYMERASE, BASE EXCISION REPAIR, KEYWDS 2 TRANSFERASE, PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.C.BRISSETT,A.J.DOHERTY REVDAT 3 23-OCT-24 6SA0 1 REMARK REVDAT 2 24-JAN-24 6SA0 1 REMARK REVDAT 1 18-NOV-20 6SA0 0 JRNL AUTH N.C.BRISSETT,K.ZABRADY,P.PLOCINSKI,J.BIANCHI, JRNL AUTH 2 M.KORYCKA-MACHALA,A.BRZOSTEK,J.DZIADEK,A.J.DOHERTY JRNL TITL MOLECULAR BASIS FOR DNA REPAIR SYNTHESIS ON SHORT GAPS BY JRNL TITL 2 MYCOBACTERIAL PRIMASE-POLYMERASE C. JRNL REF NAT COMMUN V. 11 4196 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32826907 JRNL DOI 10.1038/S41467-020-18012-8 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12-2829 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) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 71066 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 3502 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 58.0710 - 6.4549 0.99 2901 146 0.1509 0.1267 REMARK 3 2 6.4549 - 5.1245 1.00 2798 138 0.1393 0.1676 REMARK 3 3 5.1245 - 4.4770 1.00 2736 178 0.1163 0.1406 REMARK 3 4 4.4770 - 4.0677 0.99 2729 140 0.1148 0.1443 REMARK 3 5 4.0677 - 3.7762 0.99 2761 116 0.1354 0.1649 REMARK 3 6 3.7762 - 3.5536 0.99 2736 120 0.1511 0.1912 REMARK 3 7 3.5536 - 3.3757 0.99 2724 158 0.1573 0.2059 REMARK 3 8 3.3757 - 3.2288 0.99 2709 120 0.1725 0.1871 REMARK 3 9 3.2288 - 3.1045 1.00 2721 146 0.1826 0.2482 REMARK 3 10 3.1045 - 2.9973 0.99 2695 157 0.1979 0.2393 REMARK 3 11 2.9973 - 2.9036 0.99 2704 125 0.2059 0.2588 REMARK 3 12 2.9036 - 2.8206 0.99 2698 130 0.1990 0.2666 REMARK 3 13 2.8206 - 2.7464 0.99 2702 128 0.2065 0.2477 REMARK 3 14 2.7464 - 2.6794 0.99 2675 140 0.2137 0.2255 REMARK 3 15 2.6794 - 2.6185 0.99 2679 142 0.2282 0.2842 REMARK 3 16 2.6185 - 2.5627 0.99 2649 159 0.2264 0.2751 REMARK 3 17 2.5627 - 2.5115 0.99 2675 145 0.2468 0.3243 REMARK 3 18 2.5115 - 2.4641 0.98 2694 135 0.2412 0.2984 REMARK 3 19 2.4641 - 2.4201 0.98 2686 117 0.2591 0.3123 REMARK 3 20 2.4201 - 2.3791 0.99 2681 125 0.2671 0.3048 REMARK 3 21 2.3791 - 2.3407 0.98 2619 173 0.2770 0.3283 REMARK 3 22 2.3407 - 2.3047 0.98 2643 164 0.2889 0.3287 REMARK 3 23 2.3047 - 2.2708 0.98 2608 154 0.2934 0.3160 REMARK 3 24 2.2708 - 2.2388 0.98 2704 113 0.2965 0.3508 REMARK 3 25 2.2388 - 2.2090 0.97 2637 133 0.3133 0.3197 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.08 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 : 0.013 6772 REMARK 3 ANGLE : 1.309 9465 REMARK 3 CHIRALITY : 0.067 1027 REMARK 3 PLANARITY : 0.008 1040 REMARK 3 DIHEDRAL : 19.719 3877 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 4 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.9646 28.4674 20.1491 REMARK 3 T TENSOR REMARK 3 T11: 0.8552 T22: 0.3561 REMARK 3 T33: 0.5286 T12: 0.1300 REMARK 3 T13: 0.3364 T23: 0.0773 REMARK 3 L TENSOR REMARK 3 L11: 0.6773 L22: 2.6167 REMARK 3 L33: 0.1564 L12: 0.1023 REMARK 3 L13: -0.0674 L23: -0.6029 REMARK 3 S TENSOR REMARK 3 S11: 0.3519 S12: 0.0301 S13: 0.2775 REMARK 3 S21: 0.2573 S22: -0.0904 S23: 0.1582 REMARK 3 S31: -0.6090 S32: -0.1066 S33: -0.1446 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 87 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): -42.5111 18.9754 7.4028 REMARK 3 T TENSOR REMARK 3 T11: 0.8188 T22: 0.4566 REMARK 3 T33: 0.6172 T12: 0.2427 REMARK 3 T13: 0.0845 T23: 0.1633 REMARK 3 L TENSOR REMARK 3 L11: 6.8762 L22: 4.2688 REMARK 3 L33: 0.5316 L12: 5.4117 REMARK 3 L13: 0.8316 L23: 0.7317 REMARK 3 S TENSOR REMARK 3 S11: -0.2301 S12: 0.5108 S13: 0.7459 REMARK 3 S21: -0.8911 S22: 0.2636 S23: 0.4911 REMARK 3 S31: -0.3503 S32: -0.2406 S33: -0.0841 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 107 THROUGH 255 ) REMARK 3 ORIGIN FOR THE GROUP (A): -35.0631 4.9008 20.8048 REMARK 3 T TENSOR REMARK 3 T11: 0.4334 T22: 0.2773 REMARK 3 T33: 0.3081 T12: 0.1135 REMARK 3 T13: 0.1019 T23: 0.0558 REMARK 3 L TENSOR REMARK 3 L11: 0.8699 L22: 2.3042 REMARK 3 L33: 0.9137 L12: 0.0463 REMARK 3 L13: -0.1927 L23: -0.4709 REMARK 3 S TENSOR REMARK 3 S11: 0.2112 S12: 0.0843 S13: 0.0245 REMARK 3 S21: -0.0301 S22: -0.0198 S23: 0.1046 REMARK 3 S31: -0.2051 S32: -0.1166 S33: -0.1584 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 256 THROUGH 286 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.6911 12.8349 27.7330 REMARK 3 T TENSOR REMARK 3 T11: 0.5460 T22: 0.3895 REMARK 3 T33: 0.4669 T12: -0.0368 REMARK 3 T13: 0.0802 T23: 0.0413 REMARK 3 L TENSOR REMARK 3 L11: 1.8590 L22: 5.0368 REMARK 3 L33: 2.6986 L12: 0.2426 REMARK 3 L13: -0.3531 L23: -0.2142 REMARK 3 S TENSOR REMARK 3 S11: 0.2878 S12: -0.2244 S13: 0.1205 REMARK 3 S21: 0.3079 S22: -0.1060 S23: -0.7388 REMARK 3 S31: -0.4315 S32: 0.5131 S33: -0.0878 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 287 THROUGH 336 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.5044 -3.6262 15.0383 REMARK 3 T TENSOR REMARK 3 T11: 0.4788 T22: 0.3702 REMARK 3 T33: 0.3232 T12: 0.1364 REMARK 3 T13: -0.0110 T23: 0.0666 REMARK 3 L TENSOR REMARK 3 L11: 2.8776 L22: 1.7294 REMARK 3 L33: 1.0444 L12: 0.4916 REMARK 3 L13: -0.2255 L23: 0.4182 REMARK 3 S TENSOR REMARK 3 S11: 0.1958 S12: 0.2628 S13: -0.0996 REMARK 3 S21: -0.2179 S22: -0.0693 S23: 0.1405 REMARK 3 S31: 0.0662 S32: -0.1666 S33: -0.1341 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): -51.4179 41.1762 17.0830 REMARK 3 T TENSOR REMARK 3 T11: 1.2045 T22: 0.2106 REMARK 3 T33: 1.2986 T12: 0.6989 REMARK 3 T13: 0.3734 T23: 0.1656 REMARK 3 L TENSOR REMARK 3 L11: 2.5051 L22: 0.3797 REMARK 3 L33: 1.0453 L12: -0.8411 REMARK 3 L13: 1.0762 L23: -0.1232 REMARK 3 S TENSOR REMARK 3 S11: -0.3870 S12: 0.0363 S13: 0.4972 REMARK 3 S21: -0.2990 S22: -0.3418 S23: 0.8182 REMARK 3 S31: -0.4252 S32: -0.2455 S33: 0.2616 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): -54.5649 25.0394 20.3450 REMARK 3 T TENSOR REMARK 3 T11: 0.7571 T22: 0.4850 REMARK 3 T33: 1.0870 T12: 0.3706 REMARK 3 T13: 0.2101 T23: 0.0604 REMARK 3 L TENSOR REMARK 3 L11: 0.2621 L22: 2.1251 REMARK 3 L33: 0.5419 L12: 0.0973 REMARK 3 L13: 0.3437 L23: -0.2115 REMARK 3 S TENSOR REMARK 3 S11: 0.2512 S12: -0.0885 S13: 0.7188 REMARK 3 S21: -0.1537 S22: -0.2711 S23: 0.5402 REMARK 3 S31: -0.5066 S32: -0.5086 S33: 0.4144 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 1 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): -56.9726 6.4001 28.0169 REMARK 3 T TENSOR REMARK 3 T11: 0.3890 T22: 0.6267 REMARK 3 T33: 0.4632 T12: 0.1578 REMARK 3 T13: -0.0161 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 5.7695 L22: 2.5711 REMARK 3 L33: 2.8408 L12: 0.4550 REMARK 3 L13: 2.3725 L23: -1.2442 REMARK 3 S TENSOR REMARK 3 S11: -0.1366 S12: -0.8211 S13: 0.7535 REMARK 3 S21: -0.1640 S22: -0.0531 S23: 0.4835 REMARK 3 S31: -0.2798 S32: -0.8941 S33: 0.0931 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 4 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): -40.6831 11.7945 -17.4897 REMARK 3 T TENSOR REMARK 3 T11: 0.3607 T22: 0.7848 REMARK 3 T33: 0.5550 T12: -0.1069 REMARK 3 T13: -0.0165 T23: 0.1039 REMARK 3 L TENSOR REMARK 3 L11: 1.9719 L22: 2.2609 REMARK 3 L33: 4.2390 L12: 0.1752 REMARK 3 L13: -0.7271 L23: -1.0187 REMARK 3 S TENSOR REMARK 3 S11: -0.1094 S12: 0.0746 S13: -0.4396 REMARK 3 S21: -0.0942 S22: 0.2474 S23: 0.4579 REMARK 3 S31: 0.7116 S32: -0.9217 S33: -0.0663 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 27 THROUGH 63 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.5068 17.1917 -16.7561 REMARK 3 T TENSOR REMARK 3 T11: 0.2694 T22: 0.5523 REMARK 3 T33: 0.3865 T12: -0.0080 REMARK 3 T13: 0.0637 T23: 0.0975 REMARK 3 L TENSOR REMARK 3 L11: 2.1328 L22: 2.8483 REMARK 3 L33: 3.5298 L12: 0.4945 REMARK 3 L13: -0.1563 L23: 0.4704 REMARK 3 S TENSOR REMARK 3 S11: -0.0421 S12: 0.0276 S13: -0.1870 REMARK 3 S21: 0.0564 S22: 0.0459 S23: 0.1692 REMARK 3 S31: 0.3536 S32: -0.3014 S33: -0.0632 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 64 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): -36.9042 28.8095 -11.1806 REMARK 3 T TENSOR REMARK 3 T11: 0.3406 T22: 0.7667 REMARK 3 T33: 0.4953 T12: 0.1072 REMARK 3 T13: 0.1261 T23: 0.0823 REMARK 3 L TENSOR REMARK 3 L11: 1.7228 L22: 2.4526 REMARK 3 L33: 0.4660 L12: 0.9639 REMARK 3 L13: -0.0217 L23: -0.1233 REMARK 3 S TENSOR REMARK 3 S11: 0.0672 S12: -0.0910 S13: 0.1914 REMARK 3 S21: 0.2836 S22: 0.1617 S23: 0.6446 REMARK 3 S31: -0.0323 S32: -0.4354 S33: -0.0786 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 107 THROUGH 276 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6646 29.9356 -15.9656 REMARK 3 T TENSOR REMARK 3 T11: 0.2471 T22: 0.5389 REMARK 3 T33: 0.2829 T12: 0.1017 REMARK 3 T13: 0.0521 T23: 0.0256 REMARK 3 L TENSOR REMARK 3 L11: 1.4627 L22: 1.7936 REMARK 3 L33: 0.8049 L12: 0.7293 REMARK 3 L13: 0.3846 L23: -0.1743 REMARK 3 S TENSOR REMARK 3 S11: -0.0841 S12: 0.0551 S13: -0.0481 REMARK 3 S21: 0.0697 S22: 0.1220 S23: 0.0261 REMARK 3 S31: -0.0008 S32: -0.1316 S33: -0.0401 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 277 THROUGH 310 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.4647 25.9837 -7.5521 REMARK 3 T TENSOR REMARK 3 T11: 0.2600 T22: 0.4660 REMARK 3 T33: 0.3056 T12: 0.1242 REMARK 3 T13: 0.0421 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 1.9465 L22: 4.7665 REMARK 3 L33: 1.5210 L12: 1.2782 REMARK 3 L13: 0.4076 L23: 0.0306 REMARK 3 S TENSOR REMARK 3 S11: 0.0441 S12: -0.2261 S13: -0.3096 REMARK 3 S21: 0.7153 S22: 0.0933 S23: -0.2705 REMARK 3 S31: 0.1685 S32: 0.0618 S33: -0.1384 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 311 THROUGH 336 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.5187 50.6228 -15.3377 REMARK 3 T TENSOR REMARK 3 T11: 0.3519 T22: 0.5144 REMARK 3 T33: 0.3659 T12: 0.1436 REMARK 3 T13: 0.0006 T23: 0.0051 REMARK 3 L TENSOR REMARK 3 L11: 2.8471 L22: 3.0451 REMARK 3 L33: 0.9246 L12: 1.6356 REMARK 3 L13: -1.4154 L23: -0.5155 REMARK 3 S TENSOR REMARK 3 S11: -0.2209 S12: -0.0181 S13: 0.4432 REMARK 3 S21: 0.0326 S22: 0.1055 S23: 0.2377 REMARK 3 S31: -0.3777 S32: -0.1200 S33: 0.0022 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): -55.6414 26.0090 -17.4505 REMARK 3 T TENSOR REMARK 3 T11: 0.2829 T22: 1.1985 REMARK 3 T33: 1.1868 T12: 0.0620 REMARK 3 T13: -0.0215 T23: -0.0664 REMARK 3 L TENSOR REMARK 3 L11: 2.6930 L22: 0.0576 REMARK 3 L33: 0.5915 L12: -0.4017 REMARK 3 L13: 1.2633 L23: -0.1827 REMARK 3 S TENSOR REMARK 3 S11: -0.4475 S12: -0.3609 S13: 0.5521 REMARK 3 S21: -0.0173 S22: -0.0484 S23: 0.6214 REMARK 3 S31: -0.4285 S32: -0.6809 S33: -0.0716 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'F' AND (RESID 1 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): -42.9764 37.2522 -19.9873 REMARK 3 T TENSOR REMARK 3 T11: 0.3261 T22: 0.8784 REMARK 3 T33: 0.9952 T12: 0.1504 REMARK 3 T13: -0.0296 T23: -0.0002 REMARK 3 L TENSOR REMARK 3 L11: 3.6587 L22: 0.6398 REMARK 3 L33: 1.6660 L12: 1.4545 REMARK 3 L13: 0.8141 L23: 0.6178 REMARK 3 S TENSOR REMARK 3 S11: -0.1649 S12: -0.2401 S13: -0.0774 REMARK 3 S21: -0.2507 S22: -0.1194 S23: 0.9065 REMARK 3 S31: -0.0740 S32: -0.7197 S33: 0.1886 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 1 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.2383 48.7334 -26.2686 REMARK 3 T TENSOR REMARK 3 T11: 0.4817 T22: 0.6174 REMARK 3 T33: 0.5139 T12: 0.2522 REMARK 3 T13: -0.1452 T23: -0.0539 REMARK 3 L TENSOR REMARK 3 L11: 3.5693 L22: 0.4534 REMARK 3 L33: 0.2298 L12: -1.2299 REMARK 3 L13: -0.5007 L23: 0.1133 REMARK 3 S TENSOR REMARK 3 S11: 0.0840 S12: 0.1215 S13: 0.0743 REMARK 3 S21: -0.6995 S22: -0.5319 S23: 0.6128 REMARK 3 S31: -0.3542 S32: -0.2688 S33: 0.3162 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 4 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 4 THROUGH 178 OR REMARK 3 RESID 180 THROUGH 336)) REMARK 3 SELECTION : (CHAIN D AND (RESID 4 THROUGH 178 OR REMARK 3 RESID 180 THROUGH 335 OR (RESID 336 AND REMARK 3 (NAME N OR NAME CA OR NAME C OR NAME O OR REMARK 3 NAME CB OR NAME CG OR NAME CD OR NAME CE REMARK 3 OR NAME NZ )))) REMARK 3 ATOM PAIRS NUMBER : 3249 REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C REMARK 3 SELECTION : CHAIN F REMARK 3 ATOM PAIRS NUMBER : 292 REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN B REMARK 3 SELECTION : CHAIN E REMARK 3 ATOM PAIRS NUMBER : 134 REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : 4 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN G REMARK 3 SELECTION : CHAIN H REMARK 3 ATOM PAIRS NUMBER : 112 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6SA0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1292103330. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-17 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 : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : KB BIMORPH MIRROR PAIR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS 1.5.0 REMARK 200 DATA SCALING SOFTWARE : XIA2 0.5.270 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71872 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.208 REMARK 200 RESOLUTION RANGE LOW (A) : 117.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.7.17 REMARK 200 STARTING MODEL: 5OP0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM SODIUM CACODYLATE, 2M AMMONIUM REMARK 280 CHLORIDE, 10MM MANGANESE CHLORIDE, PH 6.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 285.0K 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 44.49300 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 88.98600 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 88.98600 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 44.49300 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, H 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F, G 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 MET A 1 REMARK 465 MET A 2 REMARK 465 ALA A 3 REMARK 465 LYS A 337 REMARK 465 VAL A 338 REMARK 465 ALA A 339 REMARK 465 GLU A 340 REMARK 465 HIS A 341 REMARK 465 TRP A 342 REMARK 465 ASP A 343 REMARK 465 GLU A 344 REMARK 465 GLN A 345 REMARK 465 GLY A 346 REMARK 465 ASN A 347 REMARK 465 ARG A 348 REMARK 465 LYS A 349 REMARK 465 GLN A 350 REMARK 465 MET D 1 REMARK 465 MET D 2 REMARK 465 ALA D 3 REMARK 465 LYS D 337 REMARK 465 VAL D 338 REMARK 465 ALA D 339 REMARK 465 GLU D 340 REMARK 465 HIS D 341 REMARK 465 TRP D 342 REMARK 465 ASP D 343 REMARK 465 GLU D 344 REMARK 465 GLN D 345 REMARK 465 GLY D 346 REMARK 465 ASN D 347 REMARK 465 ARG D 348 REMARK 465 LYS D 349 REMARK 465 GLN D 350 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH D 669 O HOH D 686 1.92 REMARK 500 O HOH D 661 O HOH D 693 1.95 REMARK 500 O HOH D 677 O HOH D 679 1.99 REMARK 500 O HOH A 672 O HOH A 692 2.02 REMARK 500 OE1 GLU D 208 O HOH D 501 2.04 REMARK 500 O HOH A 505 O HOH A 657 2.04 REMARK 500 O HOH D 619 O HOH D 666 2.05 REMARK 500 O HOH D 697 O HOH D 704 2.08 REMARK 500 O HOH D 670 O HOH D 677 2.08 REMARK 500 O HOH D 540 O HOH D 617 2.11 REMARK 500 OP2 DT H 3 O HOH H 101 2.16 REMARK 500 O HOH D 620 O HOH D 673 2.17 REMARK 500 OP2 DG B 5 O HOH B 101 2.18 REMARK 500 O HOH D 615 O HOH D 684 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG B 1 P DG B 1 OP3 -0.141 REMARK 500 DG C 2 O3' DG C 2 C3' -0.037 REMARK 500 DC C 3 O3' DC C 3 C3' -0.045 REMARK 500 DG E 1 P DG E 1 OP3 -0.124 REMARK 500 DG E 5 O3' DG E 5 C3' -0.049 REMARK 500 DA F 9 O3' DA F 9 C3' -0.058 REMARK 500 DG F 11 O3' DG F 11 C3' -0.036 REMARK 500 DG G 2 O3' DG G 2 C3' -0.041 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DC C 10 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG H 6 O4' - C4' - C3' ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP D 142 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 DG E 5 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC E 6 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG G 6 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 VAL A 159 -53.27 -121.47 REMARK 500 LYS A 249 41.54 -79.18 REMARK 500 ASN A 321 -0.75 80.59 REMARK 500 PRO A 334 -169.23 -74.90 REMARK 500 SER A 335 90.46 12.81 REMARK 500 VAL D 159 -55.14 -124.58 REMARK 500 LYS D 249 42.13 -79.80 REMARK 500 ASN D 321 0.82 82.41 REMARK 500 SER D 335 83.53 -62.11 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 MN A 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 140 OD2 REMARK 620 2 ASP A 142 OD2 101.9 REMARK 620 3 ASP A 231 OD2 104.5 105.2 REMARK 620 4 2KH A 401 O1A 80.2 86.7 165.7 REMARK 620 5 DG H 6 O3' 152.0 94.8 92.4 78.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 140 OD1 REMARK 620 2 ASP A 142 OD1 85.2 REMARK 620 3 2KH A 401 O1A 114.4 99.1 REMARK 620 4 2KH A 401 O1B 99.2 174.8 81.6 REMARK 620 5 2KH A 401 O2G 164.2 89.4 81.1 85.7 REMARK 620 6 HOH A 555 O 82.0 86.0 163.1 92.0 82.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 140 OD2 REMARK 620 2 ASP D 142 OD2 113.5 REMARK 620 3 ASP D 231 OD2 102.5 108.2 REMARK 620 4 2KH D 401 O2A 82.4 87.1 159.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 140 OD1 REMARK 620 2 ASP D 142 OD1 82.0 REMARK 620 3 2KH D 401 O2A 115.3 89.2 REMARK 620 4 2KH D 401 O1B 104.1 173.6 89.6 REMARK 620 5 2KH D 401 O3G 157.9 89.9 85.0 83.7 REMARK 620 6 HOH D 561 O 81.4 93.6 163.3 85.8 78.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2KH A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CAC A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2KH D 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN D 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN D 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO D 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5OP0 RELATED DB: PDB REMARK 900 APO VERSION OF SAME PROTEIN DBREF 6SA0 A 1 350 UNP A0R5T1 A0R5T1_MYCS2 1 350 DBREF 6SA0 B 1 7 PDB 6SA0 6SA0 1 7 DBREF 6SA0 C 1 15 PDB 6SA0 6SA0 1 15 DBREF 6SA0 H 1 6 PDB 6SA0 6SA0 1 6 DBREF 6SA0 D 1 350 UNP A0R5T1 A0R5T1_MYCS2 1 350 DBREF 6SA0 E 1 7 PDB 6SA0 6SA0 1 7 DBREF 6SA0 F 1 15 PDB 6SA0 6SA0 1 15 DBREF 6SA0 G 1 6 PDB 6SA0 6SA0 1 6 SEQRES 1 A 350 MET MET ALA SER ALA ALA THR GLU LEU ASP VAL ASP GLY SEQRES 2 A 350 VAL LYS VAL ARG PHE THR ASN PRO ASP LYS VAL TYR PHE SEQRES 3 A 350 PRO LYS LEU GLY LYS ASN GLY THR LYS GLY LYS LEU VAL SEQRES 4 A 350 GLU TYR TYR LEU SER VAL ALA SER GLY PRO MET LEU ALA SEQRES 5 A 350 LEU LEU ARG ASP ARG PRO VAL HIS LEU GLN ARG PHE PRO SEQRES 6 A 350 ASP GLY ILE GLU GLY GLU GLU ILE TYR GLN LYS ARG VAL SEQRES 7 A 350 PRO GLN LYS HIS PRO ASP TYR LEU GLU THR CYS VAL VAL SEQRES 8 A 350 THR PHE PRO SER GLY ARG THR ALA ASP ALA LEU LYS ILE SEQRES 9 A 350 THR HIS PRO SER SER ILE ILE TRP ALA ALA GLN MET GLY SEQRES 10 A 350 THR VAL THR LEU HIS PRO TRP GLN VAL ARG CYS PRO ASP SEQRES 11 A 350 THR GLU HIS PRO ASP GLU LEU ARG VAL ASP LEU ASP PRO SEQRES 12 A 350 GLN PRO GLY THR GLY PHE LYS GLU ALA ARG THR VAL ALA SEQRES 13 A 350 CYS ASP VAL LEU LYS PRO LEU LEU ASP GLU LEU GLY LEU SEQRES 14 A 350 VAL GLY TYR PRO LYS THR SER GLY GLY ARG GLY VAL HIS SEQRES 15 A 350 VAL PHE LEU ARG ILE LYS PRO GLN TRP ASP PHE ILE GLU SEQRES 16 A 350 VAL ARG ARG ALA GLY ILE ALA LEU ALA ARG GLU VAL GLU SEQRES 17 A 350 ARG ARG ALA PRO ASP ALA VAL THR THR SER TRP TRP LYS SEQRES 18 A 350 GLU GLU ARG GLY GLU ARG LEU PHE ILE ASP TYR ASN GLN SEQRES 19 A 350 ASN ALA ARG ASP ARG THR PHE ALA SER ALA TYR SER VAL SEQRES 20 A 350 ARG LYS THR PRO ILE ALA THR VAL SER MET PRO LEU SER SEQRES 21 A 350 TRP ASP GLU LEU ARG ASN ALA ASP PRO ASP ASP TYR THR SEQRES 22 A 350 MET ASN THR VAL PRO ASP LEU LEU ALA GLY ARG ASP ASP SEQRES 23 A 350 PRO TRP ALA ASP ILE ASP SER VAL GLN GLN SER LEU GLY SEQRES 24 A 350 PRO LEU LEU ASP LEU VAL ALA ALA ASP GLU GLU ARG GLY SEQRES 25 A 350 LEU GLY ASP LEU PRO TYR PRO PRO ASN TYR PRO LYS MET SEQRES 26 A 350 PRO GLY GLU PRO PRO ARG VAL GLN PRO SER LYS LYS VAL SEQRES 27 A 350 ALA GLU HIS TRP ASP GLU GLN GLY ASN ARG LYS GLN SEQRES 1 B 7 DG DC DG DA DG DC DG SEQRES 1 C 15 DC DG DC DT DC DG DC DA DA DC DG DC DA SEQRES 2 C 15 DC DG SEQRES 1 H 6 DC DG DT DG DC DG SEQRES 1 D 350 MET MET ALA SER ALA ALA THR GLU LEU ASP VAL ASP GLY SEQRES 2 D 350 VAL LYS VAL ARG PHE THR ASN PRO ASP LYS VAL TYR PHE SEQRES 3 D 350 PRO LYS LEU GLY LYS ASN GLY THR LYS GLY LYS LEU VAL SEQRES 4 D 350 GLU TYR TYR LEU SER VAL ALA SER GLY PRO MET LEU ALA SEQRES 5 D 350 LEU LEU ARG ASP ARG PRO VAL HIS LEU GLN ARG PHE PRO SEQRES 6 D 350 ASP GLY ILE GLU GLY GLU GLU ILE TYR GLN LYS ARG VAL SEQRES 7 D 350 PRO GLN LYS HIS PRO ASP TYR LEU GLU THR CYS VAL VAL SEQRES 8 D 350 THR PHE PRO SER GLY ARG THR ALA ASP ALA LEU LYS ILE SEQRES 9 D 350 THR HIS PRO SER SER ILE ILE TRP ALA ALA GLN MET GLY SEQRES 10 D 350 THR VAL THR LEU HIS PRO TRP GLN VAL ARG CYS PRO ASP SEQRES 11 D 350 THR GLU HIS PRO ASP GLU LEU ARG VAL ASP LEU ASP PRO SEQRES 12 D 350 GLN PRO GLY THR GLY PHE LYS GLU ALA ARG THR VAL ALA SEQRES 13 D 350 CYS ASP VAL LEU LYS PRO LEU LEU ASP GLU LEU GLY LEU SEQRES 14 D 350 VAL GLY TYR PRO LYS THR SER GLY GLY ARG GLY VAL HIS SEQRES 15 D 350 VAL PHE LEU ARG ILE LYS PRO GLN TRP ASP PHE ILE GLU SEQRES 16 D 350 VAL ARG ARG ALA GLY ILE ALA LEU ALA ARG GLU VAL GLU SEQRES 17 D 350 ARG ARG ALA PRO ASP ALA VAL THR THR SER TRP TRP LYS SEQRES 18 D 350 GLU GLU ARG GLY GLU ARG LEU PHE ILE ASP TYR ASN GLN SEQRES 19 D 350 ASN ALA ARG ASP ARG THR PHE ALA SER ALA TYR SER VAL SEQRES 20 D 350 ARG LYS THR PRO ILE ALA THR VAL SER MET PRO LEU SER SEQRES 21 D 350 TRP ASP GLU LEU ARG ASN ALA ASP PRO ASP ASP TYR THR SEQRES 22 D 350 MET ASN THR VAL PRO ASP LEU LEU ALA GLY ARG ASP ASP SEQRES 23 D 350 PRO TRP ALA ASP ILE ASP SER VAL GLN GLN SER LEU GLY SEQRES 24 D 350 PRO LEU LEU ASP LEU VAL ALA ALA ASP GLU GLU ARG GLY SEQRES 25 D 350 LEU GLY ASP LEU PRO TYR PRO PRO ASN TYR PRO LYS MET SEQRES 26 D 350 PRO GLY GLU PRO PRO ARG VAL GLN PRO SER LYS LYS VAL SEQRES 27 D 350 ALA GLU HIS TRP ASP GLU GLN GLY ASN ARG LYS GLN SEQRES 1 E 7 DG DC DG DA DG DC DG SEQRES 1 F 15 DC DG DC DT DC DG DC DA DA DC DG DC DA SEQRES 2 F 15 DC DG SEQRES 1 G 6 DC DG DT DG DC DG HET 2KH A 401 29 HET MN A 402 1 HET MN A 403 1 HET CAC A 404 11 HET EDO A 405 10 HET EDO A 406 10 HET 2KH D 401 29 HET MN D 402 1 HET MN D 403 1 HET EDO D 404 10 HETNAM 2KH 5'-O-[(S)-HYDROXY{[(S)-HYDROXY(PHOSPHONOOXY) HETNAM 2 2KH PHOSPHORYL]AMINO}PHOSPHORYL]URIDINE HETNAM MN MANGANESE (II) ION HETNAM CAC CACODYLATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN CAC DIMETHYLARSINATE HETSYN EDO ETHYLENE GLYCOL FORMUL 9 2KH 2(C9 H16 N3 O14 P3) FORMUL 10 MN 4(MN 2+) FORMUL 12 CAC C2 H6 AS O2 1- FORMUL 13 EDO 3(C2 H6 O2) FORMUL 19 HOH *458(H2 O) HELIX 1 AA1 PHE A 26 GLY A 33 5 8 HELIX 2 AA2 THR A 34 ALA A 46 1 13 HELIX 3 AA3 GLY A 48 ARG A 55 1 8 HELIX 4 AA4 HIS A 106 MET A 116 1 11 HELIX 5 AA5 GLY A 148 VAL A 159 1 12 HELIX 6 AA6 VAL A 159 GLY A 168 1 10 HELIX 7 AA7 ASP A 192 ALA A 211 1 20 HELIX 8 AA8 TRP A 220 ARG A 224 5 5 HELIX 9 AA9 TYR A 232 ALA A 236 5 5 HELIX 10 AB1 SER A 260 ARG A 265 1 6 HELIX 11 AB2 ASN A 266 ALA A 267 5 2 HELIX 12 AB3 ASP A 268 TYR A 272 5 5 HELIX 13 AB4 THR A 276 ALA A 282 1 7 HELIX 14 AB5 ASP A 290 VAL A 294 5 5 HELIX 15 AB6 LEU A 298 ARG A 311 1 14 HELIX 16 AB7 PHE D 26 GLY D 33 5 8 HELIX 17 AB8 THR D 34 ALA D 46 1 13 HELIX 18 AB9 GLY D 48 ARG D 55 1 8 HELIX 19 AC1 HIS D 106 MET D 116 1 11 HELIX 20 AC2 GLY D 148 VAL D 159 1 12 HELIX 21 AC3 VAL D 159 GLY D 168 1 10 HELIX 22 AC4 ASP D 192 ALA D 211 1 20 HELIX 23 AC5 TRP D 220 ARG D 224 5 5 HELIX 24 AC6 TYR D 232 ALA D 236 5 5 HELIX 25 AC7 SER D 260 ASN D 266 1 7 HELIX 26 AC8 ALA D 267 TYR D 272 5 6 HELIX 27 AC9 THR D 276 ALA D 282 1 7 HELIX 28 AD1 ASP D 290 VAL D 294 5 5 HELIX 29 AD2 LEU D 298 ARG D 311 1 14 SHEET 1 AA1 2 THR A 7 VAL A 11 0 SHEET 2 AA1 2 VAL A 14 PHE A 18 -1 O VAL A 14 N VAL A 11 SHEET 1 AA2 4 ILE A 73 GLN A 75 0 SHEET 2 AA2 4 PRO A 58 ARG A 63 -1 N LEU A 61 O GLN A 75 SHEET 3 AA2 4 THR A 98 LYS A 103 -1 O LEU A 102 N VAL A 59 SHEET 4 AA2 4 GLU A 87 THR A 92 -1 N GLU A 87 O LYS A 103 SHEET 1 AA3 3 ILE A 73 GLN A 75 0 SHEET 2 AA3 3 PRO A 58 ARG A 63 -1 N LEU A 61 O GLN A 75 SHEET 3 AA3 3 THR A 118 PRO A 123 -1 O HIS A 122 N HIS A 60 SHEET 1 AA4 5 TYR A 172 THR A 175 0 SHEET 2 AA4 5 VAL A 181 ARG A 186 -1 O PHE A 184 N TYR A 172 SHEET 3 AA4 5 GLU A 136 PRO A 143 -1 N LEU A 137 O LEU A 185 SHEET 4 AA4 5 LEU A 228 ILE A 230 -1 O PHE A 229 N ASP A 142 SHEET 5 AA4 5 VAL A 215 THR A 216 1 N THR A 216 O LEU A 228 SHEET 1 AA5 2 THR D 7 VAL D 11 0 SHEET 2 AA5 2 VAL D 14 PHE D 18 -1 O VAL D 14 N VAL D 11 SHEET 1 AA6 4 ILE D 73 GLN D 75 0 SHEET 2 AA6 4 PRO D 58 ARG D 63 -1 N ARG D 63 O ILE D 73 SHEET 3 AA6 4 THR D 98 LYS D 103 -1 O LEU D 102 N VAL D 59 SHEET 4 AA6 4 GLU D 87 THR D 92 -1 N GLU D 87 O LYS D 103 SHEET 1 AA7 3 ILE D 73 GLN D 75 0 SHEET 2 AA7 3 PRO D 58 ARG D 63 -1 N ARG D 63 O ILE D 73 SHEET 3 AA7 3 THR D 118 PRO D 123 -1 O HIS D 122 N HIS D 60 SHEET 1 AA8 5 TYR D 172 THR D 175 0 SHEET 2 AA8 5 VAL D 181 ARG D 186 -1 O PHE D 184 N TYR D 172 SHEET 3 AA8 5 GLU D 136 PRO D 143 -1 N VAL D 139 O VAL D 183 SHEET 4 AA8 5 LEU D 228 ILE D 230 -1 O PHE D 229 N ASP D 142 SHEET 5 AA8 5 VAL D 215 THR D 216 1 N THR D 216 O LEU D 228 SSBOND 1 CYS A 89 CYS A 128 1555 1555 2.06 SSBOND 2 CYS D 89 CYS D 128 1555 1555 2.07 LINK OD2 ASP A 140 MN MN A 402 1555 1555 2.34 LINK OD1 ASP A 140 MN MN A 403 1555 1555 2.18 LINK OD2 ASP A 142 MN MN A 402 1555 1555 2.52 LINK OD1 ASP A 142 MN MN A 403 1555 1555 2.15 LINK OD2 ASP A 231 MN MN A 402 1555 1555 2.56 LINK O1A 2KH A 401 MN MN A 402 1555 1555 2.52 LINK O1A 2KH A 401 MN MN A 403 1555 1555 2.10 LINK O1B 2KH A 401 MN MN A 403 1555 1555 2.15 LINK O2G 2KH A 401 MN MN A 403 1555 1555 2.13 LINK MN MN A 402 O3' DG H 6 1555 1555 2.62 LINK MN MN A 403 O HOH A 555 1555 1555 2.15 LINK OD2 ASP D 140 MN MN D 402 1555 1555 2.57 LINK OD1 ASP D 140 MN MN D 403 1555 1555 2.08 LINK OD2 ASP D 142 MN MN D 402 1555 1555 2.49 LINK OD1 ASP D 142 MN MN D 403 1555 1555 2.11 LINK OD2 ASP D 231 MN MN D 402 1555 1555 2.77 LINK O2A 2KH D 401 MN MN D 402 1555 1555 2.31 LINK O2A 2KH D 401 MN MN D 403 1555 1555 2.21 LINK O1B 2KH D 401 MN MN D 403 1555 1555 2.16 LINK O3G 2KH D 401 MN MN D 403 1555 1555 2.22 LINK MN MN D 403 O HOH D 561 1555 1555 2.38 CISPEP 1 CYS A 128 PRO A 129 0 1.17 CISPEP 2 CYS D 128 PRO D 129 0 1.87 SITE 1 AC1 26 TYR A 74 HIS A 122 ASP A 140 ASP A 142 SITE 2 AC1 26 SER A 176 ARG A 179 GLY A 180 HIS A 182 SITE 3 AC1 26 GLN A 234 THR A 240 PHE A 241 ALA A 242 SITE 4 AC1 26 ARG A 248 MN A 402 MN A 403 CAC A 404 SITE 5 AC1 26 EDO A 405 HOH A 533 HOH A 539 HOH A 555 SITE 6 AC1 26 HOH A 572 HOH A 575 HOH A 591 HOH A 613 SITE 7 AC1 26 DA C 9 DG H 6 SITE 1 AC2 6 ASP A 140 ASP A 142 ASP A 231 2KH A 401 SITE 2 AC2 6 MN A 403 DG H 6 SITE 1 AC3 5 ASP A 140 ASP A 142 2KH A 401 MN A 402 SITE 2 AC3 5 HOH A 555 SITE 1 AC4 7 GLN A 62 LYS A 249 2KH A 401 EDO A 405 SITE 2 AC4 7 HOH A 529 HOH A 532 HOH A 539 SITE 1 AC5 6 GLY A 178 ARG A 248 LYS A 249 THR A 250 SITE 2 AC5 6 2KH A 401 CAC A 404 SITE 1 AC6 5 TRP A 261 ASP A 262 HOH A 511 HOH A 512 SITE 2 AC6 5 HOH A 675 SITE 1 AC7 23 TYR D 74 HIS D 122 ASP D 140 ASP D 142 SITE 2 AC7 23 SER D 176 ARG D 179 GLY D 180 HIS D 182 SITE 3 AC7 23 GLN D 234 THR D 240 PHE D 241 ALA D 242 SITE 4 AC7 23 ARG D 248 MN D 402 MN D 403 HOH D 561 SITE 5 AC7 23 HOH D 566 HOH D 573 HOH D 576 HOH D 593 SITE 6 AC7 23 HOH D 601 DA F 9 DG G 6 SITE 1 AC8 6 ASP D 140 ASP D 142 ASP D 231 2KH D 401 SITE 2 AC8 6 MN D 403 DG G 6 SITE 1 AC9 5 ASP D 140 ASP D 142 2KH D 401 MN D 402 SITE 2 AC9 5 HOH D 561 SITE 1 AD1 6 PRO D 94 ASP D 238 ASN D 321 TYR D 322 SITE 2 AD1 6 HOH D 565 DC F 10 CRYST1 136.059 136.059 133.479 90.00 90.00 120.00 P 31 2 1 12 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 0.007350 0.004243 0.000000 0.00000 SCALE2 0.000000 0.008487 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007492 0.00000