PDB Short entry for 5KN8 HEADER HYDROLASE/DNA 27-JUN-16 5KN8 TITLE MUTY N-TERMINAL DOMAIN IN COMPLEX WITH UNDAMAGED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENINE DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-229; COMPND 5 SYNONYM: OXOG:A-SPECIFIC ADENINE GLYCOSYLASE; COMPND 6 EC: 3.2.2.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*AP*TP*CP*CP*TP*GP*TP*GP*CP*T)-3'); COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*AP*GP*CP*AP*CP*AP*GP*GP*AP*T)-3'); COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 GENE: MUTY; 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: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 10 ORGANISM_TAXID: 1422; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 14 ORGANISM_TAXID: 1422 KEYWDS ADENINE GLYCOSYLASE, OXOG, DNA REPAIR PROTEIN, LESION-SCANNING KEYWDS 2 COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.WANG,S.CHAKRAVARTHY,G.L.VERDINE REVDAT 6 27-SEP-23 5KN8 1 LINK REVDAT 5 04-DEC-19 5KN8 1 REMARK REVDAT 4 27-SEP-17 5KN8 1 REMARK REVDAT 3 05-APR-17 5KN8 1 JRNL REVDAT 2 22-FEB-17 5KN8 1 JRNL REVDAT 1 08-FEB-17 5KN8 0 JRNL AUTH L.WANG,S.CHAKRAVARTHY,G.L.VERDINE JRNL TITL STRUCTURAL BASIS FOR THE LESION-SCANNING MECHANISM OF THE JRNL TITL 2 MUTY DNA GLYCOSYLASE. JRNL REF J. BIOL. CHEM. V. 292 5007 2017 JRNL REFN ESSN 1083-351X JRNL PMID 28130451 JRNL DOI 10.1074/JBC.M116.757039 REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 28119 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1414 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 46.3540 - 3.8988 0.99 2770 126 0.1522 0.1998 REMARK 3 2 3.8988 - 3.0948 0.99 2663 162 0.1371 0.1955 REMARK 3 3 3.0948 - 2.7037 1.00 2630 169 0.1570 0.1906 REMARK 3 4 2.7037 - 2.4565 1.00 2704 125 0.1636 0.2422 REMARK 3 5 2.4565 - 2.2804 1.00 2686 132 0.1666 0.2218 REMARK 3 6 2.2804 - 2.1460 1.00 2616 140 0.1666 0.2378 REMARK 3 7 2.1460 - 2.0385 1.00 2676 149 0.1926 0.2501 REMARK 3 8 2.0385 - 1.9498 1.00 2681 127 0.2006 0.2607 REMARK 3 9 1.9498 - 1.8747 1.00 2651 151 0.2277 0.2834 REMARK 3 10 1.8747 - 1.8100 0.99 2628 133 0.2713 0.2942 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.210 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 : 0.009 2347 REMARK 3 ANGLE : 1.474 3281 REMARK 3 CHIRALITY : 0.046 354 REMARK 3 PLANARITY : 0.006 359 REMARK 3 DIHEDRAL : 19.106 910 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 8 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1063 6.3238 -10.2208 REMARK 3 T TENSOR REMARK 3 T11: 0.2483 T22: 0.2071 REMARK 3 T33: 0.3208 T12: 0.0457 REMARK 3 T13: -0.0289 T23: -0.0913 REMARK 3 L TENSOR REMARK 3 L11: 7.6692 L22: 5.0234 REMARK 3 L33: 7.0687 L12: 4.6175 REMARK 3 L13: -3.4874 L23: -5.3556 REMARK 3 S TENSOR REMARK 3 S11: 0.1796 S12: -0.1589 S13: 0.5796 REMARK 3 S21: 0.4267 S22: -0.0755 S23: 0.9853 REMARK 3 S31: -0.6214 S32: -0.5694 S33: -0.1009 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 25 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.9472 4.1935 -29.5589 REMARK 3 T TENSOR REMARK 3 T11: 0.2614 T22: 0.1173 REMARK 3 T33: 0.1723 T12: 0.0003 REMARK 3 T13: -0.0910 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 2.1924 L22: 7.2724 REMARK 3 L33: 5.2300 L12: -1.5252 REMARK 3 L13: -1.5758 L23: 1.5546 REMARK 3 S TENSOR REMARK 3 S11: -0.0286 S12: -0.0009 S13: 0.0174 REMARK 3 S21: -0.2325 S22: -0.0867 S23: 0.0709 REMARK 3 S31: -0.4334 S32: 0.0327 S33: 0.1202 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 51 THROUGH 64 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.7958 7.7462 -34.8197 REMARK 3 T TENSOR REMARK 3 T11: 0.3224 T22: 0.1470 REMARK 3 T33: 0.2485 T12: -0.0398 REMARK 3 T13: 0.0015 T23: 0.0328 REMARK 3 L TENSOR REMARK 3 L11: 7.6475 L22: 5.6004 REMARK 3 L33: 8.6400 L12: -0.2648 REMARK 3 L13: 5.9664 L23: -0.1083 REMARK 3 S TENSOR REMARK 3 S11: -0.4060 S12: 0.3656 S13: 0.7054 REMARK 3 S21: -0.6456 S22: -0.0741 S23: -0.4683 REMARK 3 S31: -0.7133 S32: 0.3215 S33: 0.4995 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 65 THROUGH 88 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.9817 -0.8039 -42.4309 REMARK 3 T TENSOR REMARK 3 T11: 0.3634 T22: 0.2013 REMARK 3 T33: 0.1856 T12: -0.0847 REMARK 3 T13: 0.0057 T23: 0.0300 REMARK 3 L TENSOR REMARK 3 L11: 8.7595 L22: 4.3356 REMARK 3 L33: 7.7186 L12: -3.2625 REMARK 3 L13: 1.5499 L23: -1.6732 REMARK 3 S TENSOR REMARK 3 S11: 0.0819 S12: 0.9681 S13: 0.2943 REMARK 3 S21: -0.7435 S22: -0.0701 S23: -0.1942 REMARK 3 S31: -0.1187 S32: 0.3467 S33: 0.0015 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 89 THROUGH 124 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.8365 -9.9650 -37.2858 REMARK 3 T TENSOR REMARK 3 T11: 0.3252 T22: 0.1018 REMARK 3 T33: 0.2274 T12: -0.0187 REMARK 3 T13: -0.0836 T23: -0.0201 REMARK 3 L TENSOR REMARK 3 L11: 6.0604 L22: 2.3521 REMARK 3 L33: 5.1442 L12: 0.9749 REMARK 3 L13: 1.1754 L23: 1.4116 REMARK 3 S TENSOR REMARK 3 S11: -0.1013 S12: 0.3082 S13: -0.2883 REMARK 3 S21: -0.3131 S22: 0.0052 S23: 0.1837 REMARK 3 S31: 0.2451 S32: -0.1689 S33: 0.1384 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 125 THROUGH 196 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.5411 -5.6623 -16.0799 REMARK 3 T TENSOR REMARK 3 T11: 0.1962 T22: 0.0987 REMARK 3 T33: 0.2148 T12: -0.0465 REMARK 3 T13: -0.0329 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 1.1851 L22: 0.6983 REMARK 3 L33: 2.2065 L12: -0.3483 REMARK 3 L13: 0.6094 L23: 0.6324 REMARK 3 S TENSOR REMARK 3 S11: 0.0558 S12: -0.0517 S13: -0.0952 REMARK 3 S21: 0.0501 S22: -0.0903 S23: 0.2544 REMARK 3 S31: 0.1432 S32: -0.1432 S33: 0.0186 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 197 THROUGH 210 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.1980 6.7835 -6.6117 REMARK 3 T TENSOR REMARK 3 T11: 0.2271 T22: 0.1052 REMARK 3 T33: 0.2121 T12: -0.0349 REMARK 3 T13: -0.0582 T23: 0.0191 REMARK 3 L TENSOR REMARK 3 L11: 4.6613 L22: 2.3487 REMARK 3 L33: 7.6129 L12: -1.6126 REMARK 3 L13: -3.1246 L23: 4.0931 REMARK 3 S TENSOR REMARK 3 S11: -0.0073 S12: -0.0949 S13: 0.5810 REMARK 3 S21: 0.1336 S22: 0.0855 S23: -0.3792 REMARK 3 S31: -0.1789 S32: 0.3433 S33: -0.0824 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 211 THROUGH 229 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.0446 -2.6035 -2.2864 REMARK 3 T TENSOR REMARK 3 T11: 0.2642 T22: 0.0798 REMARK 3 T33: 0.1643 T12: -0.0388 REMARK 3 T13: -0.0222 T23: 0.0346 REMARK 3 L TENSOR REMARK 3 L11: 8.4221 L22: 7.6342 REMARK 3 L33: 4.1292 L12: -5.5130 REMARK 3 L13: -0.3145 L23: 0.5379 REMARK 3 S TENSOR REMARK 3 S11: -0.2265 S12: -0.2587 S13: -0.0458 REMARK 3 S21: 0.7090 S22: 0.0541 S23: -0.1218 REMARK 3 S31: 0.1571 S32: 0.1562 S33: 0.1792 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 3 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4442 -11.2568 -22.4459 REMARK 3 T TENSOR REMARK 3 T11: 0.2142 T22: 0.2902 REMARK 3 T33: 0.3011 T12: -0.0134 REMARK 3 T13: -0.0456 T23: -0.0376 REMARK 3 L TENSOR REMARK 3 L11: 1.9783 L22: 1.2601 REMARK 3 L33: 3.5165 L12: -1.3258 REMARK 3 L13: -0.1363 L23: -0.7121 REMARK 3 S TENSOR REMARK 3 S11: -0.0156 S12: -0.3303 S13: 0.0005 REMARK 3 S21: -0.2240 S22: -0.2770 S23: -0.7271 REMARK 3 S31: 0.1507 S32: 0.8928 S33: -0.0138 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 13 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9264 -11.2570 -21.0946 REMARK 3 T TENSOR REMARK 3 T11: 0.2675 T22: 0.2056 REMARK 3 T33: 0.4575 T12: -0.0145 REMARK 3 T13: -0.0936 T23: 0.0585 REMARK 3 L TENSOR REMARK 3 L11: 4.5979 L22: 2.1245 REMARK 3 L33: 2.6305 L12: -1.8150 REMARK 3 L13: -2.7482 L23: -0.0924 REMARK 3 S TENSOR REMARK 3 S11: 0.2373 S12: -0.8743 S13: -0.1279 REMARK 3 S21: -0.1379 S22: -0.2404 S23: -1.1029 REMARK 3 S31: 0.0958 S32: 0.2779 S33: -0.0501 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 5KN8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28148 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 81.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.11200 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: 1RRQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS PH8.5, 200 MM CA(OAC)2, REMARK 280 18% (WT/VOL) PEG 4000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 19.30900 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ARG A 3 REMARK 465 GLU A 4 REMARK 465 THR A 5 REMARK 465 GLU A 6 REMARK 465 ARG A 7 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 A 479 O HOH A 534 2.08 REMARK 500 O HOH A 477 O HOH A 516 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 433 O HOH C 109 1565 2.08 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 DT C 4 O4' - C1' - N1 ANGL. DEV. = 2.3 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 ASN A 182 73.92 -155.98 REMARK 500 VAL A 197 -58.26 -123.98 REMARK 500 ARG A 202 59.73 39.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 538 DISTANCE = 6.94 ANGSTROMS 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 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 118 O REMARK 620 2 VAL A 123 O 81.4 REMARK 620 3 HOH A 415 O 77.8 94.2 REMARK 620 4 HOH A 499 O 121.0 88.5 161.1 REMARK 620 5 HOH A 507 O 91.3 167.2 94.5 86.3 REMARK 620 6 DA D 21 OP2 146.3 81.9 74.5 87.4 109.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 198 SG REMARK 620 2 SF4 A 301 S1 115.4 REMARK 620 3 SF4 A 301 S3 120.4 99.8 REMARK 620 4 SF4 A 301 S4 115.0 101.8 101.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 205 SG REMARK 620 2 SF4 A 301 S2 113.9 REMARK 620 3 SF4 A 301 S3 115.5 101.6 REMARK 620 4 SF4 A 301 S4 121.2 99.7 102.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 208 SG REMARK 620 2 SF4 A 301 S1 120.5 REMARK 620 3 SF4 A 301 S2 118.8 100.9 REMARK 620 4 SF4 A 301 S4 111.2 102.1 100.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 214 SG REMARK 620 2 SF4 A 301 S1 122.9 REMARK 620 3 SF4 A 301 S2 116.8 102.0 REMARK 620 4 SF4 A 301 S3 110.1 100.4 101.5 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 SF4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KN9 RELATED DB: PDB DBREF 5KN8 A 1 229 UNP P83847 MUTY_GEOSE 1 229 DBREF 5KN8 C 3 12 PDB 5KN8 5KN8 3 12 DBREF 5KN8 D 13 22 PDB 5KN8 5KN8 13 22 SEQADV 5KN8 GLY A -2 UNP P83847 EXPRESSION TAG SEQADV 5KN8 SER A -1 UNP P83847 EXPRESSION TAG SEQADV 5KN8 HIS A 0 UNP P83847 EXPRESSION TAG SEQADV 5KN8 ASN A 144 UNP P83847 ASP 144 ENGINEERED MUTATION SEQADV 5KN8 CYS A 164 UNP P83847 PRO 164 ENGINEERED MUTATION SEQRES 1 A 232 GLY SER HIS MET THR ARG GLU THR GLU ARG PHE PRO ALA SEQRES 2 A 232 ARG GLU PHE GLN ARG ASP LEU LEU ASP TRP PHE ALA ARG SEQRES 3 A 232 GLU ARG ARG ASP LEU PRO TRP ARG LYS ASP ARG ASP PRO SEQRES 4 A 232 TYR LYS VAL TRP VAL SER GLU VAL MET LEU GLN GLN THR SEQRES 5 A 232 ARG VAL GLU THR VAL ILE PRO TYR PHE GLU GLN PHE ILE SEQRES 6 A 232 ASP ARG PHE PRO THR LEU GLU ALA LEU ALA ASP ALA ASP SEQRES 7 A 232 GLU ASP GLU VAL LEU LYS ALA TRP GLU GLY LEU GLY TYR SEQRES 8 A 232 TYR SER ARG VAL ARG ASN LEU HIS ALA ALA VAL LYS GLU SEQRES 9 A 232 VAL LYS THR ARG TYR GLY GLY LYS VAL PRO ASP ASP PRO SEQRES 10 A 232 ASP GLU PHE SER ARG LEU LYS GLY VAL GLY PRO TYR THR SEQRES 11 A 232 VAL GLY ALA VAL LEU SER LEU ALA TYR GLY VAL PRO GLU SEQRES 12 A 232 PRO ALA VAL ASN GLY ASN VAL MET ARG VAL LEU SER ARG SEQRES 13 A 232 LEU PHE LEU VAL THR ASP ASP ILE ALA LYS CYS SER THR SEQRES 14 A 232 ARG LYS ARG PHE GLU GLN ILE VAL ARG GLU ILE MET ALA SEQRES 15 A 232 TYR GLU ASN PRO GLY ALA PHE ASN GLU ALA LEU ILE GLU SEQRES 16 A 232 LEU GLY ALA LEU VAL CYS THR PRO ARG ARG PRO SER CYS SEQRES 17 A 232 LEU LEU CYS PRO VAL GLN ALA TYR CYS GLN ALA PHE ALA SEQRES 18 A 232 GLU GLY VAL ALA GLU GLU LEU PRO VAL LYS MET SEQRES 1 C 10 DA DT DC DC DT DG DT DG DC DT SEQRES 1 D 10 DA DG DC DA DC DA DG DG DA DT HET SF4 A 301 8 HET CA A 302 1 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM CA CALCIUM ION FORMUL 4 SF4 FE4 S4 FORMUL 5 CA CA 2+ FORMUL 6 HOH *182(H2 O) HELIX 1 AA1 PRO A 9 ARG A 25 1 17 HELIX 2 AA2 LEU A 28 LYS A 32 5 5 HELIX 3 AA3 ASP A 35 GLN A 47 1 13 HELIX 4 AA4 ARG A 50 PHE A 65 1 16 HELIX 5 AA5 THR A 67 ALA A 74 1 8 HELIX 6 AA6 ASP A 75 GLU A 84 1 10 HELIX 7 AA7 TYR A 88 TYR A 106 1 19 HELIX 8 AA8 ASP A 113 ARG A 119 1 7 HELIX 9 AA9 GLY A 124 GLY A 137 1 14 HELIX 10 AB1 ASN A 144 LEU A 156 1 13 HELIX 11 AB2 LYS A 163 MET A 178 1 16 HELIX 12 AB3 ASN A 182 VAL A 197 1 16 HELIX 13 AB4 SER A 204 CYS A 208 5 5 HELIX 14 AB5 VAL A 210 TYR A 213 5 4 HELIX 15 AB6 CYS A 214 GLY A 220 1 7 HELIX 16 AB7 VAL A 221 LEU A 225 5 5 LINK O SER A 118 CA CA A 302 1555 1555 2.34 LINK O VAL A 123 CA CA A 302 1555 1555 2.39 LINK SG CYS A 198 FE2 SF4 A 301 1555 1555 2.38 LINK SG CYS A 205 FE1 SF4 A 301 1555 1555 2.35 LINK SG CYS A 208 FE3 SF4 A 301 1555 1555 2.34 LINK SG CYS A 214 FE4 SF4 A 301 1555 1555 2.37 LINK CA CA A 302 O HOH A 415 1555 1555 2.36 LINK CA CA A 302 O HOH A 499 1555 1555 2.41 LINK CA CA A 302 O HOH A 507 1555 1555 2.29 LINK CA CA A 302 OP2 DA D 21 1555 1555 2.81 CISPEP 1 LEU A 225 PRO A 226 0 1.97 SITE 1 AC1 6 ARG A 153 CYS A 198 CYS A 205 CYS A 208 SITE 2 AC1 6 CYS A 214 ALA A 222 SITE 1 AC2 6 SER A 118 VAL A 123 HOH A 415 HOH A 499 SITE 2 AC2 6 HOH A 507 DA D 21 CRYST1 49.200 38.618 83.796 90.00 104.00 90.00 P 1 21 1 2 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.020325 0.000000 0.005068 0.00000 SCALE2 0.000000 0.025895 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012299 0.00000