HEADER TOXIN/DNA 21-AUG-22 8E5E TITLE CRYSTAL STRUCTURE OF DOUBLE-STRANDED DNA DEAMINASE TOXIN DDDA IN TITLE 2 COMPLEX WITH DNA WITH THE TARGET CYTOSINE FLIPPED INTO THE ACTIVE TITLE 3 SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DOUBLE-STRANDED DNA DEAMINASE TOXIN A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DDDA,CYTIDINE DEAMINASE,CD; COMPND 5 EC: 3.5.4.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*GP*TP*AP*CP*CP*GP*GP*AP*CP*GP*TP*TP*GP*C)-3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*GP*CP*AP*AP*CP*GP*TP*CP*CP*GP*GP*TP*AP*C)-3'); COMPND 14 CHAIN: B; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA CENOCEPACIA; SOURCE 3 ORGANISM_TAXID: 95486; SOURCE 4 GENE: DDDA; 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: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS TOXIN, DNA BINDING, DEAMINASE, TOXIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.YIN,K.SHI,H.AIHARA REVDAT 6 18-SEP-24 8E5E 1 AUTHOR REVDAT 5 25-OCT-23 8E5E 1 REMARK REVDAT 4 30-AUG-23 8E5E 1 JRNL REVDAT 3 02-AUG-23 8E5E 1 JRNL REVDAT 2 19-JUL-23 8E5E 1 JRNL REVDAT 1 24-MAY-23 8E5E 0 JRNL AUTH L.YIN,K.SHI,H.AIHARA JRNL TITL STRUCTURAL BASIS OF SEQUENCE-SPECIFIC CYTOSINE DEAMINATION JRNL TITL 2 BY DOUBLE-STRANDED DNA DEAMINASE TOXIN DDDA. JRNL REF NAT.STRUCT.MOL.BIOL. V. 30 1153 2023 JRNL REFN ESSN 1545-9985 JRNL PMID 37460895 JRNL DOI 10.1038/S41594-023-01034-3 REMARK 2 REMARK 2 RESOLUTION. 2.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 2.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 8851 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.190 REMARK 3 FREE R VALUE TEST SET COUNT : 459 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 35.7800 - 5.6400 0.88 865 47 0.1932 0.2171 REMARK 3 2 5.6400 - 4.4800 0.95 852 40 0.2007 0.2258 REMARK 3 3 4.4800 - 3.9100 0.97 829 55 0.2154 0.2025 REMARK 3 4 3.9100 - 3.5500 0.98 841 50 0.2616 0.2640 REMARK 3 5 3.5500 - 3.3000 1.00 838 49 0.2600 0.3335 REMARK 3 6 3.3000 - 3.1100 1.00 857 38 0.3093 0.3071 REMARK 3 7 3.1000 - 2.9500 1.00 845 38 0.3785 0.3601 REMARK 3 8 2.9500 - 2.8200 1.00 823 52 0.3676 0.4409 REMARK 3 9 2.8200 - 2.7100 1.00 828 44 0.3829 0.4660 REMARK 3 10 2.7100 - 2.6200 1.00 814 46 0.4113 0.3993 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) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.210 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 : 0.035 256 REMARK 3 PLANARITY : 0.003 216 REMARK 3 DIHEDRAL : 23.112 633 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1290 THROUGH 1299 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.5665 1.5178 -5.2966 REMARK 3 T TENSOR REMARK 3 T11: 0.5383 T22: 0.9844 REMARK 3 T33: 1.1040 T12: -0.0193 REMARK 3 T13: 0.1172 T23: -0.0718 REMARK 3 L TENSOR REMARK 3 L11: 1.6898 L22: 3.9708 REMARK 3 L33: 3.8618 L12: -1.8375 REMARK 3 L13: 0.0143 L23: 2.7426 REMARK 3 S TENSOR REMARK 3 S11: 0.2290 S12: -0.0011 S13: -1.5110 REMARK 3 S21: -1.1019 S22: -1.4370 S23: 1.2720 REMARK 3 S31: -0.1562 S32: -0.9291 S33: 0.3181 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1300 THROUGH 1311 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.8464 15.2391 8.4337 REMARK 3 T TENSOR REMARK 3 T11: 1.0970 T22: 0.8901 REMARK 3 T33: 0.7413 T12: -0.0833 REMARK 3 T13: -0.0535 T23: -0.0946 REMARK 3 L TENSOR REMARK 3 L11: 6.2972 L22: 2.3823 REMARK 3 L33: 2.8228 L12: 2.1309 REMARK 3 L13: -0.1708 L23: -1.8939 REMARK 3 S TENSOR REMARK 3 S11: 0.4924 S12: -0.7816 S13: -0.2281 REMARK 3 S21: 2.1173 S22: -0.2838 S23: -0.7256 REMARK 3 S31: -0.9203 S32: 0.2626 S33: 0.4647 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1312 THROUGH 1393 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.8975 17.1158 -4.8875 REMARK 3 T TENSOR REMARK 3 T11: 0.5539 T22: 0.8897 REMARK 3 T33: 0.9232 T12: -0.1040 REMARK 3 T13: -0.1303 T23: 0.0516 REMARK 3 L TENSOR REMARK 3 L11: 3.6336 L22: 8.6979 REMARK 3 L33: 5.8615 L12: 1.0778 REMARK 3 L13: -0.1895 L23: -2.7259 REMARK 3 S TENSOR REMARK 3 S11: 0.0673 S12: -0.5674 S13: -0.2712 REMARK 3 S21: 0.1222 S22: -0.8228 S23: -1.2972 REMARK 3 S31: -0.6425 S32: 0.9157 S33: 0.5726 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1394 THROUGH 1403 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.9260 20.8386 -0.1335 REMARK 3 T TENSOR REMARK 3 T11: 0.7609 T22: 0.9341 REMARK 3 T33: 0.9765 T12: 0.1679 REMARK 3 T13: 0.1997 T23: -0.3709 REMARK 3 L TENSOR REMARK 3 L11: 7.4969 L22: 0.6641 REMARK 3 L33: 4.4223 L12: -1.7145 REMARK 3 L13: 4.9169 L23: -0.5510 REMARK 3 S TENSOR REMARK 3 S11: 0.0774 S12: -0.8483 S13: -0.6699 REMARK 3 S21: 0.4683 S22: 0.5442 S23: 0.8466 REMARK 3 S31: -1.1469 S32: -1.5364 S33: -0.1548 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1404 THROUGH 1413 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.4383 17.1377 -8.7396 REMARK 3 T TENSOR REMARK 3 T11: 0.9192 T22: 1.0648 REMARK 3 T33: 0.9534 T12: 0.0701 REMARK 3 T13: -0.2659 T23: -0.0933 REMARK 3 L TENSOR REMARK 3 L11: 7.1668 L22: 7.0093 REMARK 3 L33: 1.8313 L12: 1.5379 REMARK 3 L13: -2.2567 L23: -1.4637 REMARK 3 S TENSOR REMARK 3 S11: -0.2190 S12: 0.7291 S13: -0.0023 REMARK 3 S21: -1.0046 S22: -0.1177 S23: 1.1358 REMARK 3 S31: -0.9378 S32: -2.0608 S33: -0.0334 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1414 THROUGH 1423 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.6931 27.5832 -14.7895 REMARK 3 T TENSOR REMARK 3 T11: 1.1073 T22: 1.3432 REMARK 3 T33: 1.3402 T12: -0.0209 REMARK 3 T13: -0.0625 T23: 0.1717 REMARK 3 L TENSOR REMARK 3 L11: 5.8096 L22: 7.6612 REMARK 3 L33: 8.1584 L12: 0.2818 REMARK 3 L13: -0.5087 L23: -2.6610 REMARK 3 S TENSOR REMARK 3 S11: -0.9829 S12: 1.1597 S13: 0.6560 REMARK 3 S21: -1.6421 S22: 0.9882 S23: -1.6091 REMARK 3 S31: -0.3273 S32: 1.4184 S33: 0.5245 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.4782 37.0125 -6.0945 REMARK 3 T TENSOR REMARK 3 T11: 1.6681 T22: 1.1231 REMARK 3 T33: 1.3866 T12: 0.0587 REMARK 3 T13: -0.3661 T23: -0.1743 REMARK 3 L TENSOR REMARK 3 L11: 7.1714 L22: 4.4255 REMARK 3 L33: 5.0389 L12: -0.0828 REMARK 3 L13: -1.2040 L23: 4.6616 REMARK 3 S TENSOR REMARK 3 S11: 0.3399 S12: -0.9420 S13: 1.2602 REMARK 3 S21: -0.5348 S22: -0.4800 S23: 0.9787 REMARK 3 S31: -1.8338 S32: -0.8773 S33: -0.0594 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.9883 38.2550 -3.2658 REMARK 3 T TENSOR REMARK 3 T11: 1.4922 T22: 1.0331 REMARK 3 T33: 1.1473 T12: 0.1073 REMARK 3 T13: -0.3071 T23: -0.3657 REMARK 3 L TENSOR REMARK 3 L11: 6.1553 L22: 8.8174 REMARK 3 L33: 3.8669 L12: 4.8461 REMARK 3 L13: 3.1126 L23: 5.7931 REMARK 3 S TENSOR REMARK 3 S11: -0.0573 S12: 0.5645 S13: 0.9769 REMARK 3 S21: -0.5012 S22: -0.5963 S23: 0.4617 REMARK 3 S31: -2.5041 S32: 0.5227 S33: 0.0840 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 8E5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1000267878. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-21 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 : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979180 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8887 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.620 REMARK 200 RESOLUTION RANGE LOW (A) : 44.870 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 45.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 1.76200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6U08 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 0.1 M TRIS REMARK 280 -HCL, PH 8.5, 25 % POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 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 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 79.02600 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 158.05200 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 118.53900 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 197.56500 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 39.51300 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 79.02600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 158.05200 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 197.56500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 118.53900 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 39.51300 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 HIS A 1424 REMARK 465 HIS A 1425 REMARK 465 HIS A 1426 REMARK 465 HIS A 1427 REMARK 465 HIS A 1428 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 TYR A1307 100.72 -59.48 REMARK 500 ASP A1320 37.37 -75.85 REMARK 500 ALA A1321 -34.81 -145.51 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 A1501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1345 ND1 REMARK 620 2 CYS A1373 SG 100.7 REMARK 620 3 CYS A1376 SG 96.2 108.4 REMARK 620 4 DC B 8 N4 116.2 110.1 122.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1381 O REMARK 620 2 THR A1382 O 86.8 REMARK 620 3 LEU A1384 O 82.5 84.2 REMARK 620 4 ASN A1415 O 115.9 157.2 100.7 REMARK 620 5 ASN A1415 OD1 74.9 114.6 149.2 71.8 REMARK 620 6 ASN A1417 O 146.2 72.9 120.6 85.7 89.2 REMARK 620 N 1 2 3 4 5 DBREF 8E5E A 1290 1422 UNP P0DUH5 DDDA_BURC1 1290 1422 DBREF 8E5E C 1 14 PDB 8E5E 8E5E 1 14 DBREF 8E5E B 1 14 PDB 8E5E 8E5E 1 14 SEQADV 8E5E ALA A 1347 UNP P0DUH5 GLU 1347 ENGINEERED MUTATION SEQADV 8E5E HIS A 1423 UNP P0DUH5 EXPRESSION TAG SEQADV 8E5E HIS A 1424 UNP P0DUH5 EXPRESSION TAG SEQADV 8E5E HIS A 1425 UNP P0DUH5 EXPRESSION TAG SEQADV 8E5E HIS A 1426 UNP P0DUH5 EXPRESSION TAG SEQADV 8E5E HIS A 1427 UNP P0DUH5 EXPRESSION TAG SEQADV 8E5E HIS A 1428 UNP P0DUH5 EXPRESSION TAG SEQRES 1 A 139 GLY SER TYR ALA LEU GLY PRO TYR GLN ILE SER ALA PRO SEQRES 2 A 139 GLN LEU PRO ALA TYR ASN GLY GLN THR VAL GLY THR PHE SEQRES 3 A 139 TYR TYR VAL ASN ASP ALA GLY GLY LEU GLU SER LYS VAL SEQRES 4 A 139 PHE SER SER GLY GLY PRO THR PRO TYR PRO ASN TYR ALA SEQRES 5 A 139 ASN ALA GLY HIS VAL ALA GLY GLN SER ALA LEU PHE MET SEQRES 6 A 139 ARG ASP ASN GLY ILE SER GLU GLY LEU VAL PHE HIS ASN SEQRES 7 A 139 ASN PRO GLU GLY THR CYS GLY PHE CYS VAL ASN MET THR SEQRES 8 A 139 GLU THR LEU LEU PRO GLU ASN ALA LYS MET THR VAL VAL SEQRES 9 A 139 PRO PRO GLU GLY ALA ILE PRO VAL LYS ARG GLY ALA THR SEQRES 10 A 139 GLY GLU THR LYS VAL PHE THR GLY ASN SER ASN SER PRO SEQRES 11 A 139 LYS SER PRO HIS HIS HIS HIS HIS HIS SEQRES 1 C 14 DG DT DA DC DC DG DG DA DC DG DT DT DG SEQRES 2 C 14 DC SEQRES 1 B 14 DG DC DA DA DC DG DT DC DC DG DG DT DA SEQRES 2 B 14 DC HET ZN A1501 1 HET MG A1502 1 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION FORMUL 4 ZN ZN 2+ FORMUL 5 MG MG 2+ FORMUL 6 HOH *2(H2 O) HELIX 1 AA1 HIS A 1345 GLY A 1358 1 14 HELIX 2 AA2 CYS A 1373 LEU A 1384 1 12 SHEET 1 AA1 2 TYR A1292 LEU A1294 0 SHEET 2 AA1 2 TYR A1297 ILE A1299 -1 O ILE A1299 N TYR A1292 SHEET 1 AA2 5 LEU A1324 SER A1330 0 SHEET 2 AA2 5 VAL A1312 VAL A1318 -1 N TYR A1317 O GLU A1325 SHEET 3 AA2 5 GLU A1361 HIS A1366 -1 O LEU A1363 N TYR A1316 SHEET 4 AA2 5 LYS A1389 VAL A1393 1 O VAL A1393 N VAL A1364 SHEET 5 AA2 5 LYS A1410 THR A1413 -1 O LYS A1410 N VAL A1392 LINK ND1 HIS A1345 ZN ZN A1501 1555 1555 2.02 LINK SG CYS A1373 ZN ZN A1501 1555 1555 2.10 LINK SG CYS A1376 ZN ZN A1501 1555 1555 2.20 LINK O GLU A1381 MG MG A1502 1555 1555 2.25 LINK O THR A1382 MG MG A1502 1555 1555 2.32 LINK O LEU A1384 MG MG A1502 1555 1555 2.50 LINK O ASN A1415 MG MG A1502 1555 1555 2.30 LINK OD1 ASN A1415 MG MG A1502 1555 1555 2.17 LINK O ASN A1417 MG MG A1502 1555 1555 2.23 LINK ZN ZN A1501 N4 DC B 8 1555 1555 2.44 CRYST1 62.950 62.950 237.078 90.00 90.00 120.00 P 61 2 2 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 0.015886 0.009172 0.000000 0.00000 SCALE2 0.000000 0.018343 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004218 0.00000