HEADER GENE REGULATION/DNA 04-AUG-25 9PW0 TITLE CRYSTAL STRUCTURE OF TAYLORELLA EQUIGENITALIS BADTF3 DEAMINASE TOXIN TITLE 2 DDDB BOUND TO DOUBLE-STRANDED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: YD REPEAT PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA SUBSTRATE; COMPND 7 CHAIN: E, C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA SUBSTRATE; COMPND 11 CHAIN: F, D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TAYLORELLA EQUIGENITALIS; SOURCE 3 ORGANISM_TAXID: 29575; SOURCE 4 GENE: TEQUI_0434; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: TAYLORELLA EQUIGENITALIS; SOURCE 10 ORGANISM_TAXID: 29575; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: TAYLORELLA EQUIGENITALIS; SOURCE 14 ORGANISM_TAXID: 29575 KEYWDS DEAMINASE, GENE REGULATION, GENE REGULATION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.YIN,K.SHI,H.AIHARA REVDAT 1 05-AUG-26 9PW0 0 JRNL AUTH L.YIN,K.SHI,H.AIHARA JRNL TITL STRUCTURAL BASIS OF DOUBLE-STRANDED DNA CYTOSINE DEAMINATION JRNL TITL 2 WITH RELAXED SEQUENCE DEPENDENCE BY A BADTF3 TOXIN DDDB JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.21.1_5286: ???) 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 75.6 REMARK 3 NUMBER OF REFLECTIONS : 16240 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 809 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 44.3000 - 4.3500 1.00 3480 165 0.1786 0.2486 REMARK 3 2 4.3500 - 3.4500 1.00 3421 179 0.2273 0.2714 REMARK 3 3 3.4500 - 3.0200 1.00 3385 171 0.2569 0.3083 REMARK 3 4 3.0200 - 2.7400 0.95 3179 184 0.3617 0.3815 REMARK 3 5 2.7400 - 2.5500 0.46 1544 89 0.3304 0.4089 REMARK 3 6 2.5400 - 2.3900 0.12 422 21 0.4010 0.6416 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 40.850 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : 0.063 479 REMARK 3 PLANARITY : 0.010 367 REMARK 3 DIHEDRAL : 25.231 1282 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1943 THROUGH 1972 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.1562 35.6294 2.9529 REMARK 3 T TENSOR REMARK 3 T11: 0.0646 T22: 0.0494 REMARK 3 T33: 0.7186 T12: -0.5109 REMARK 3 T13: 0.3677 T23: 0.1584 REMARK 3 L TENSOR REMARK 3 L11: 4.1460 L22: 5.2846 REMARK 3 L33: 4.0005 L12: 2.7921 REMARK 3 L13: 2.9850 L23: 2.1629 REMARK 3 S TENSOR REMARK 3 S11: 0.9864 S12: -0.0047 S13: -0.1033 REMARK 3 S21: -0.3249 S22: 0.0693 S23: -0.4262 REMARK 3 S31: 0.0629 S32: 0.9764 S33: -0.4736 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1973 THROUGH 2001 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.4432 36.2067 -9.8901 REMARK 3 T TENSOR REMARK 3 T11: 0.5780 T22: 0.2022 REMARK 3 T33: 0.7724 T12: -0.1403 REMARK 3 T13: -0.1786 T23: 0.2080 REMARK 3 L TENSOR REMARK 3 L11: 2.4316 L22: 4.6273 REMARK 3 L33: 0.8451 L12: 1.6945 REMARK 3 L13: -1.3986 L23: -1.1685 REMARK 3 S TENSOR REMARK 3 S11: -0.2411 S12: 0.9340 S13: 0.5791 REMARK 3 S21: -0.9018 S22: 0.2051 S23: 0.7312 REMARK 3 S31: -0.3075 S32: -0.0226 S33: -0.0491 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2002 THROUGH 2033 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.4105 42.4179 -2.8152 REMARK 3 T TENSOR REMARK 3 T11: 0.2638 T22: 0.3513 REMARK 3 T33: 0.6708 T12: -0.0691 REMARK 3 T13: -0.0517 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 5.5768 L22: 6.9703 REMARK 3 L33: 8.4077 L12: 5.4410 REMARK 3 L13: 2.5065 L23: 1.0529 REMARK 3 S TENSOR REMARK 3 S11: -0.4686 S12: -0.1525 S13: 0.5938 REMARK 3 S21: -0.0686 S22: -0.0881 S23: 0.5943 REMARK 3 S31: -0.8090 S32: 0.0727 S33: 0.5545 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2034 THROUGH 2056 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.7955 38.6328 -0.3228 REMARK 3 T TENSOR REMARK 3 T11: 0.2423 T22: 0.5333 REMARK 3 T33: 0.6896 T12: -0.2099 REMARK 3 T13: 0.1448 T23: 0.0227 REMARK 3 L TENSOR REMARK 3 L11: 5.6128 L22: 4.8090 REMARK 3 L33: 8.0674 L12: 4.3450 REMARK 3 L13: 1.4269 L23: 0.7931 REMARK 3 S TENSOR REMARK 3 S11: 0.6153 S12: -0.5263 S13: -0.0712 REMARK 3 S21: 0.7442 S22: -0.3862 S23: -1.9183 REMARK 3 S31: -0.0139 S32: 1.4982 S33: -0.0084 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.2259 28.7269 -18.7520 REMARK 3 T TENSOR REMARK 3 T11: 1.0022 T22: 0.3394 REMARK 3 T33: 0.7955 T12: -0.4757 REMARK 3 T13: -0.1533 T23: 0.0727 REMARK 3 L TENSOR REMARK 3 L11: 3.9345 L22: 2.3296 REMARK 3 L33: 2.9135 L12: -2.3509 REMARK 3 L13: 1.3586 L23: 0.7429 REMARK 3 S TENSOR REMARK 3 S11: -0.1659 S12: 1.4822 S13: -0.0052 REMARK 3 S21: -1.5947 S22: 0.2867 S23: 0.2753 REMARK 3 S31: 1.2064 S32: 0.5691 S33: 0.0655 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'F' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.1304 29.8581 -19.3061 REMARK 3 T TENSOR REMARK 3 T11: 1.2860 T22: 0.9256 REMARK 3 T33: 0.6818 T12: -0.3899 REMARK 3 T13: 0.0741 T23: 0.2050 REMARK 3 L TENSOR REMARK 3 L11: 7.7459 L22: 2.7764 REMARK 3 L33: 1.9730 L12: -0.9413 REMARK 3 L13: 0.7789 L23: 1.8389 REMARK 3 S TENSOR REMARK 3 S11: -0.3831 S12: 0.5998 S13: -0.6345 REMARK 3 S21: -1.0100 S22: 0.2374 S23: -0.2645 REMARK 3 S31: 1.2110 S32: 0.1477 S33: 0.1367 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1943 THROUGH 1972 ) REMARK 3 ORIGIN FOR THE GROUP (A): -45.0896 21.3250 1.5874 REMARK 3 T TENSOR REMARK 3 T11: 0.4644 T22: 0.0657 REMARK 3 T33: 0.5613 T12: -0.0180 REMARK 3 T13: -0.0792 T23: 0.1309 REMARK 3 L TENSOR REMARK 3 L11: 3.8130 L22: 7.3758 REMARK 3 L33: 4.3147 L12: 2.0400 REMARK 3 L13: -1.4867 L23: 0.2079 REMARK 3 S TENSOR REMARK 3 S11: 0.3982 S12: 0.1367 S13: 0.5117 REMARK 3 S21: -0.0497 S22: -0.1530 S23: 0.2638 REMARK 3 S31: 1.1996 S32: -0.5065 S33: -0.2086 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1973 THROUGH 2019 ) REMARK 3 ORIGIN FOR THE GROUP (A): -48.0261 24.6623 10.0361 REMARK 3 T TENSOR REMARK 3 T11: 0.4014 T22: 0.1068 REMARK 3 T33: 0.6772 T12: -0.3198 REMARK 3 T13: 0.0973 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 3.1035 L22: 6.1917 REMARK 3 L33: 3.4884 L12: 1.4312 REMARK 3 L13: 0.0401 L23: 0.1230 REMARK 3 S TENSOR REMARK 3 S11: 0.3034 S12: 0.4837 S13: 1.2851 REMARK 3 S21: -0.1866 S22: -0.6756 S23: 0.5990 REMARK 3 S31: -0.1050 S32: -0.6752 S33: 0.2262 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2020 THROUGH 2033 ) REMARK 3 ORIGIN FOR THE GROUP (A): -53.6732 16.0740 12.6983 REMARK 3 T TENSOR REMARK 3 T11: 0.4937 T22: 0.2049 REMARK 3 T33: 0.4783 T12: -0.1800 REMARK 3 T13: 0.0123 T23: 0.0407 REMARK 3 L TENSOR REMARK 3 L11: 6.0679 L22: 6.9631 REMARK 3 L33: 7.9606 L12: -2.8877 REMARK 3 L13: 4.5114 L23: 1.7718 REMARK 3 S TENSOR REMARK 3 S11: 0.6182 S12: -0.5694 S13: -0.3248 REMARK 3 S21: 0.2526 S22: -0.5098 S23: 1.0575 REMARK 3 S31: -0.3414 S32: -0.6386 S33: -0.0413 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2034 THROUGH 2057 ) REMARK 3 ORIGIN FOR THE GROUP (A): -47.0839 9.5846 5.9515 REMARK 3 T TENSOR REMARK 3 T11: 0.7693 T22: 0.2150 REMARK 3 T33: 0.7554 T12: -0.0419 REMARK 3 T13: 0.1058 T23: 0.1263 REMARK 3 L TENSOR REMARK 3 L11: 3.6827 L22: 6.5103 REMARK 3 L33: 5.0635 L12: 0.6671 REMARK 3 L13: 0.3369 L23: 0.8992 REMARK 3 S TENSOR REMARK 3 S11: -0.2565 S12: 0.1379 S13: -2.3153 REMARK 3 S21: 0.2413 S22: -0.1191 S23: -0.0785 REMARK 3 S31: 0.9721 S32: 0.0731 S33: 0.3257 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.1957 23.6710 23.2442 REMARK 3 T TENSOR REMARK 3 T11: 1.1875 T22: 0.8741 REMARK 3 T33: 0.8053 T12: -0.7022 REMARK 3 T13: -0.0614 T23: 0.3029 REMARK 3 L TENSOR REMARK 3 L11: 3.5075 L22: 0.7177 REMARK 3 L33: 1.9896 L12: -1.5160 REMARK 3 L13: -1.0100 L23: 0.8222 REMARK 3 S TENSOR REMARK 3 S11: 0.7336 S12: -1.3506 S13: -0.0534 REMARK 3 S21: 1.8288 S22: -0.9083 S23: -0.4133 REMARK 3 S31: 1.0668 S32: 1.1596 S33: 0.0756 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.5645 21.7194 23.7373 REMARK 3 T TENSOR REMARK 3 T11: 1.2736 T22: 1.0591 REMARK 3 T33: 0.6097 T12: -0.3275 REMARK 3 T13: 0.1457 T23: 0.1365 REMARK 3 L TENSOR REMARK 3 L11: 4.7168 L22: 6.3301 REMARK 3 L33: 5.2677 L12: 0.9919 REMARK 3 L13: 2.1146 L23: 1.7314 REMARK 3 S TENSOR REMARK 3 S11: 0.3250 S12: -0.4070 S13: -0.0344 REMARK 3 S21: 0.3967 S22: -0.4993 S23: -0.2260 REMARK 3 S31: 1.1301 S32: 1.6071 S33: 0.1423 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 9PW0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-AUG-25. REMARK 100 THE DEPOSITION ID IS D_1000290263. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-24 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 : NSLS-II REMARK 200 BEAMLINE : 17-ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979880 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16244 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 REMARK 200 RESOLUTION RANGE LOW (A) : 104.405 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.15400 REMARK 200 R SYM (I) : 0.15400 REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.35000 REMARK 200 R SYM FOR SHELL (I) : 1.35000 REMARK 200 FOR SHELL : 1.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: J000878, C09_00 0.1 M SODIUM CHLORIDE, REMARK 280 25 % V/V PENTAERYTHRITOL PROPOXYLATE (5/4 PO/OH), 10 % V/V REMARK 280 DIMETHYL SULFOXIDE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 21.77800 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 43.55600 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 32.66700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 54.44500 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 10.88900 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -125.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E, F, B, C, D 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 1937 REMARK 465 PRO A 1938 REMARK 465 LEU A 1939 REMARK 465 GLY A 1940 REMARK 465 TRP A 1941 REMARK 465 LYS A 1942 REMARK 465 SER A 1944 REMARK 465 ASN A 1945 REMARK 465 GLY A 1946 REMARK 465 CYS A 2057 REMARK 465 ASP A 2058 REMARK 465 LYS A 2059 REMARK 465 LYS A 2060 REMARK 465 HIS A 2061 REMARK 465 HIS A 2062 REMARK 465 HIS A 2063 REMARK 465 HIS A 2064 REMARK 465 HIS A 2065 REMARK 465 HIS A 2066 REMARK 465 MET B 1937 REMARK 465 PRO B 1938 REMARK 465 LEU B 1939 REMARK 465 GLY B 1940 REMARK 465 TRP B 1941 REMARK 465 LYS B 1942 REMARK 465 SER B 1944 REMARK 465 ASN B 1945 REMARK 465 GLY B 1946 REMARK 465 ASP B 2058 REMARK 465 LYS B 2059 REMARK 465 LYS B 2060 REMARK 465 HIS B 2061 REMARK 465 HIS B 2062 REMARK 465 HIS B 2063 REMARK 465 HIS B 2064 REMARK 465 HIS B 2065 REMARK 465 HIS B 2066 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 CL CL B 2102 O HOH B 2201 1.96 REMARK 500 OD1 ASN B 1996 NH1 ARG B 2000 2.09 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 F 7 O3' DG F 7 C3' -0.063 REMARK 500 DA D 3 O3' DA D 3 C3' -0.041 REMARK 500 DA D 9 O3' DA D 9 C3' -0.044 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 DG E 9 O5' - P - OP1 ANGL. DEV. = -5.9 DEGREES REMARK 500 DA E 13 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA F 9 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DC F 10 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC C 2 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC C 14 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT D 2 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA D 9 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DA D 9 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC D 10 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC D 14 O4' - C1' - N1 ANGL. DEV. = 1.9 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 LYS A1961 7.26 -67.50 REMARK 500 ASP A2008 174.99 -58.85 REMARK 500 LYS B1961 7.19 -68.97 REMARK 500 ASP B2008 171.61 -58.05 REMARK 500 PRO B2056 106.53 -58.95 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 A2101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1993 ND1 REMARK 620 2 CYS A2019 SG 98.4 REMARK 620 3 CYS A2022 SG 100.0 116.3 REMARK 620 4 HOH E 101 O 115.3 134.4 88.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B1993 ND1 REMARK 620 2 CYS B2019 SG 97.4 REMARK 620 3 CYS B2022 SG 104.5 117.1 REMARK 620 4 HOH C 101 O 119.5 121.6 96.7 REMARK 620 N 1 2 3 DBREF1 9PW0 A 1938 2060 UNP A0A654KG07_TAYEM DBREF2 9PW0 A A0A654KG07 1938 2060 DBREF 9PW0 E 1 14 PDB 9PW0 9PW0 1 14 DBREF 9PW0 F 1 14 PDB 9PW0 9PW0 1 14 DBREF1 9PW0 B 1938 2060 UNP A0A654KG07_TAYEM DBREF2 9PW0 B A0A654KG07 1938 2060 DBREF 9PW0 C 1 14 PDB 9PW0 9PW0 1 14 DBREF 9PW0 D 1 14 PDB 9PW0 9PW0 1 14 SEQADV 9PW0 MET A 1937 UNP A0A654KG0 INITIATING METHIONINE SEQADV 9PW0 ALA A 1995 UNP A0A654KG0 GLU 1995 CONFLICT SEQADV 9PW0 HIS A 2061 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS A 2062 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS A 2063 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS A 2064 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS A 2065 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS A 2066 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 MET B 1937 UNP A0A654KG0 INITIATING METHIONINE SEQADV 9PW0 ALA B 1995 UNP A0A654KG0 GLU 1995 CONFLICT SEQADV 9PW0 HIS B 2061 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS B 2062 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS B 2063 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS B 2064 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS B 2065 UNP A0A654KG0 EXPRESSION TAG SEQADV 9PW0 HIS B 2066 UNP A0A654KG0 EXPRESSION TAG SEQRES 1 A 130 MET PRO LEU GLY TRP LYS PHE SER ASN GLY LYS ARG ARG SEQRES 2 A 130 PRO PRO HIS LYS ALA THR VAL THR VAL THR ASP LYS ASN SEQRES 3 A 130 GLY VAL VAL LYS HIS LYS SER ASN LEU VAL SER GLY ASN SEQRES 4 A 130 MET THR GLU ALA GLU LYS LYS LEU GLY PHE PRO ASN ASN SEQRES 5 A 130 SER LEU ALA THR HIS THR ALA ASN ARG ALA THR ARG LEU SEQRES 6 A 130 ILE ASP LEU ASN GLN GLY ASP THR MET LEU ILE GLU GLY SEQRES 7 A 130 GLN TYR ARG PRO CYS PRO ARG CYS LYS GLY ALA MET ARG SEQRES 8 A 130 VAL LYS ALA GLU GLU SER GLY ALA LYS VAL ILE TYR THR SEQRES 9 A 130 TRP PRO GLU ASP GLY ASP LEU LYS LYS ARG GLU TRP GLU SEQRES 10 A 130 GLY THR PRO CYS ASP LYS LYS HIS HIS HIS HIS HIS HIS SEQRES 1 E 14 DG DC DA DA DG DT DT DC DG DG DC DT DA SEQRES 2 E 14 DC SEQRES 1 F 14 DG DT DA DG DC DC DG DA DA DC DT DT DG SEQRES 2 F 14 DC SEQRES 1 B 130 MET PRO LEU GLY TRP LYS PHE SER ASN GLY LYS ARG ARG SEQRES 2 B 130 PRO PRO HIS LYS ALA THR VAL THR VAL THR ASP LYS ASN SEQRES 3 B 130 GLY VAL VAL LYS HIS LYS SER ASN LEU VAL SER GLY ASN SEQRES 4 B 130 MET THR GLU ALA GLU LYS LYS LEU GLY PHE PRO ASN ASN SEQRES 5 B 130 SER LEU ALA THR HIS THR ALA ASN ARG ALA THR ARG LEU SEQRES 6 B 130 ILE ASP LEU ASN GLN GLY ASP THR MET LEU ILE GLU GLY SEQRES 7 B 130 GLN TYR ARG PRO CYS PRO ARG CYS LYS GLY ALA MET ARG SEQRES 8 B 130 VAL LYS ALA GLU GLU SER GLY ALA LYS VAL ILE TYR THR SEQRES 9 B 130 TRP PRO GLU ASP GLY ASP LEU LYS LYS ARG GLU TRP GLU SEQRES 10 B 130 GLY THR PRO CYS ASP LYS LYS HIS HIS HIS HIS HIS HIS SEQRES 1 C 14 DG DC DA DA DG DT DT DC DG DG DC DT DA SEQRES 2 C 14 DC SEQRES 1 D 14 DG DT DA DG DC DC DG DA DA DC DT DT DG SEQRES 2 D 14 DC HET ZN A2101 1 HET ZN B2101 1 HET CL B2102 1 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 7 ZN 2(ZN 2+) FORMUL 9 CL CL 1- FORMUL 10 HOH *5(H2 O) HELIX 1 AA1 THR A 1977 LYS A 1982 1 6 HELIX 2 AA2 PRO A 1986 HIS A 1993 1 8 HELIX 3 AA3 HIS A 1993 LEU A 2001 1 9 HELIX 4 AA4 CYS A 2019 GLY A 2034 1 16 HELIX 5 AA5 THR B 1977 LYS B 1982 1 6 HELIX 6 AA6 PRO B 1986 THR B 1992 1 7 HELIX 7 AA7 HIS B 1993 LEU B 2001 1 9 HELIX 8 AA8 CYS B 2019 GLY B 2034 1 16 SHEET 1 AA1 5 VAL A1965 VAL A1972 0 SHEET 2 AA1 5 LYS A1953 THR A1959 -1 N VAL A1956 O SER A1969 SHEET 3 AA1 5 THR A2009 GLU A2013 -1 O LEU A2011 N THR A1957 SHEET 4 AA1 5 LYS A2036 GLU A2043 1 O ILE A2038 N ILE A2012 SHEET 5 AA1 5 ASP A2046 GLU A2053 -1 O ARG A2050 N TYR A2039 SHEET 1 AA2 5 VAL B1965 VAL B1972 0 SHEET 2 AA2 5 LYS B1953 THR B1959 -1 N VAL B1958 O HIS B1967 SHEET 3 AA2 5 THR B2009 GLU B2013 -1 O GLU B2013 N THR B1955 SHEET 4 AA2 5 LYS B2036 GLU B2043 1 O THR B2040 N ILE B2012 SHEET 5 AA2 5 ASP B2046 GLU B2053 -1 O TRP B2052 N VAL B2037 LINK ND1 HIS A1993 ZN ZN A2101 1555 1555 2.21 LINK SG CYS A2019 ZN ZN A2101 1555 1555 2.19 LINK SG CYS A2022 ZN ZN A2101 1555 1555 2.26 LINK ZN ZN A2101 O HOH E 101 1555 1555 1.87 LINK ND1 HIS B1993 ZN ZN B2101 1555 1555 2.23 LINK SG CYS B2019 ZN ZN B2101 1555 1555 2.18 LINK SG CYS B2022 ZN ZN B2101 1555 1555 2.25 LINK ZN ZN B2101 O HOH C 101 1555 1555 2.01 CISPEP 1 PHE A 1985 PRO A 1986 0 2.06 CISPEP 2 PHE B 1985 PRO B 1986 0 2.39 CRYST1 120.557 120.557 65.334 90.00 90.00 120.00 P 61 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 0.008295 0.004789 0.000000 0.00000 SCALE2 0.000000 0.009578 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015306 0.00000 CONECT 368 2889 CONECT 575 2889 CONECT 599 2889 CONECT 1809 2890 CONECT 2016 2890 CONECT 2040 2890 CONECT 2889 368 575 599 2893 CONECT 2890 1809 2016 2040 2896 CONECT 2893 2889 CONECT 2896 2890 MASTER 536 0 3 8 10 0 0 6 2890 6 10 28 END