HEADER DNA BINDING PROTEIN/DNA 21-MAR-21 7EF8 TITLE CRYSTAL STRUCTURE OF MOUSE MUTYH IN COMPLEX WITH DNA CONTAINING AP TITLE 2 SITE ANALOGUE:8-OXOG (FORM I) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENINE DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MUTY HOMOLOG,MMYH; COMPND 5 EC: 3.2.2.31; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*TP*GP*AP*GP*AP*CP*(8OG)P*GP*GP*GP*AP*CP*T)-3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(*TP*AP*GP*TP*CP*CP*CP*(3DR)P*GP*TP*CP*TP*C)-3'); COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: MUTYH, MYH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_TAXID: 9606 KEYWDS DNA REPAIR, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.NAKAMURA,Y.NAKABEPPU,Y.YAMAGATA REVDAT 4 29-NOV-23 7EF8 1 REMARK REVDAT 3 21-JUL-21 7EF8 1 JRNL REVDAT 2 07-JUL-21 7EF8 1 JRNL REVDAT 1 23-JUN-21 7EF8 0 JRNL AUTH T.NAKAMURA,K.OKABE,S.HIRAYAMA,M.CHIRIFU,S.IKEMIZU,H.MORIOKA, JRNL AUTH 2 Y.NAKABEPPU,Y.YAMAGATA JRNL TITL STRUCTURE OF THE MAMMALIAN ADENINE DNA GLYCOSYLASE MUTYH: JRNL TITL 2 INSIGHTS INTO THE BASE EXCISION REPAIR PATHWAY AND CANCER. JRNL REF NUCLEIC ACIDS RES. V. 49 7154 2021 JRNL REFN ESSN 1362-4962 JRNL PMID 34142156 JRNL DOI 10.1093/NAR/GKAB492 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : GEOSTD + MONOMER LIBRARY REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.89 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 23315 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1186 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 46.8900 - 4.9000 1.00 2907 164 0.1690 0.1859 REMARK 3 2 4.9000 - 3.8900 1.00 2799 150 0.1650 0.1850 REMARK 3 3 3.8900 - 3.4000 1.00 2774 129 0.1956 0.2445 REMARK 3 4 3.4000 - 3.0900 1.00 2748 158 0.2322 0.2342 REMARK 3 5 3.0900 - 2.8700 1.00 2751 151 0.2600 0.2852 REMARK 3 6 2.8700 - 2.7000 1.00 2769 132 0.2573 0.2673 REMARK 3 7 2.7000 - 2.5600 1.00 2710 152 0.2583 0.2741 REMARK 3 8 2.5600 - 2.4500 0.98 2671 150 0.2745 0.3567 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) : 0.297 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.517 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 58.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.38 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 : 0.003 3879 REMARK 3 ANGLE : 0.585 5398 REMARK 3 CHIRALITY : 0.036 586 REMARK 3 PLANARITY : 0.003 607 REMARK 3 DIHEDRAL : 18.332 1436 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 86:200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 76.8236 15.6991 31.2388 REMARK 3 T TENSOR REMARK 3 T11: 0.4188 T22: 0.3727 REMARK 3 T33: 0.3138 T12: -0.0080 REMARK 3 T13: 0.0564 T23: -0.0377 REMARK 3 L TENSOR REMARK 3 L11: 2.6717 L22: 3.9603 REMARK 3 L33: 1.1286 L12: 0.3120 REMARK 3 L13: 0.2375 L23: -1.0299 REMARK 3 S TENSOR REMARK 3 S11: 0.1889 S12: -0.0500 S13: -0.0687 REMARK 3 S21: 0.0789 S22: -0.0279 S23: 0.0536 REMARK 3 S31: -0.0341 S32: -0.0121 S33: -0.1320 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 52:79) OR (RESID 201:331)) REMARK 3 ORIGIN FOR THE GROUP (A): 102.9335 16.6993 20.6177 REMARK 3 T TENSOR REMARK 3 T11: 0.5477 T22: 0.7286 REMARK 3 T33: 0.7389 T12: 0.0791 REMARK 3 T13: 0.2373 T23: -0.0234 REMARK 3 L TENSOR REMARK 3 L11: 2.4967 L22: 4.1785 REMARK 3 L33: 3.3735 L12: 1.2123 REMARK 3 L13: 0.5495 L23: -0.0040 REMARK 3 S TENSOR REMARK 3 S11: 0.0239 S12: 0.7775 S13: -0.1784 REMARK 3 S21: -0.7126 S22: -0.0014 S23: -1.0334 REMARK 3 S31: 0.1067 S32: 0.7766 S33: -0.0152 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 332:470) REMARK 3 ORIGIN FOR THE GROUP (A): 63.3578 40.7914 16.8255 REMARK 3 T TENSOR REMARK 3 T11: 0.5657 T22: 0.3925 REMARK 3 T33: 0.4975 T12: 0.0862 REMARK 3 T13: 0.0386 T23: 0.0874 REMARK 3 L TENSOR REMARK 3 L11: 3.1094 L22: 2.5249 REMARK 3 L33: 6.6206 L12: 0.2732 REMARK 3 L13: -1.4259 L23: -0.0625 REMARK 3 S TENSOR REMARK 3 S11: 0.1072 S12: 0.2526 S13: 0.1842 REMARK 3 S21: -0.2266 S22: 0.1330 S23: 0.3607 REMARK 3 S31: -0.5373 S32: -0.4167 S33: -0.2154 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): 84.6733 27.3833 15.1039 REMARK 3 T TENSOR REMARK 3 T11: 0.6952 T22: 0.6402 REMARK 3 T33: 0.6050 T12: -0.0107 REMARK 3 T13: 0.2271 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 7.4975 L22: 5.6661 REMARK 3 L33: 6.2847 L12: 0.3940 REMARK 3 L13: 0.8482 L23: -1.0531 REMARK 3 S TENSOR REMARK 3 S11: 0.2812 S12: 0.7076 S13: 0.2080 REMARK 3 S21: -0.9537 S22: 0.0724 S23: -1.3325 REMARK 3 S31: 0.3109 S32: 0.8728 S33: -0.4252 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 13 ) REMARK 3 ORIGIN FOR THE GROUP (A): 86.5818 28.4822 15.9056 REMARK 3 T TENSOR REMARK 3 T11: 0.9480 T22: 0.6262 REMARK 3 T33: 0.9645 T12: 0.0594 REMARK 3 T13: 0.1051 T23: 0.0181 REMARK 3 L TENSOR REMARK 3 L11: 7.2028 L22: 2.4063 REMARK 3 L33: 4.6314 L12: 3.3045 REMARK 3 L13: -0.8044 L23: -0.8590 REMARK 3 S TENSOR REMARK 3 S11: 0.0002 S12: 0.4381 S13: 1.7498 REMARK 3 S21: -1.8809 S22: -0.2275 S23: 0.7593 REMARK 3 S31: -0.5803 S32: 0.1214 S33: 0.3077 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 7EF8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1300021172. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-18 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 : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23331 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 46.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.61900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: MOLREP REMARK 200 STARTING MODEL: 7EF9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, LITHIUM SULFATE, AMMONIUM REMARK 280 SULFATE, BIS-TRIS, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 37.13700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.61800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 78.21600 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.13700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.61800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 78.21600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.13700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.61800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.21600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.13700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 53.61800 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 78.21600 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: 6920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -132.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 30 REMARK 465 PRO A 31 REMARK 465 GLY A 32 REMARK 465 TYR A 33 REMARK 465 GLN A 34 REMARK 465 SER A 35 REMARK 465 LEU A 36 REMARK 465 ASP A 37 REMARK 465 GLY A 38 REMARK 465 LEU A 39 REMARK 465 ALA A 40 REMARK 465 LYS A 41 REMARK 465 GLN A 42 REMARK 465 LYS A 43 REMARK 465 ARG A 44 REMARK 465 GLU A 45 REMARK 465 GLU A 46 REMARK 465 LEU A 47 REMARK 465 LEU A 48 REMARK 465 GLN A 49 REMARK 465 ALA A 50 REMARK 465 ARG A 285 REMARK 465 GLY A 286 REMARK 465 GLN A 287 REMARK 465 LEU A 288 REMARK 465 SER A 289 REMARK 465 ALA A 290 REMARK 465 LEU A 291 REMARK 465 PRO A 292 REMARK 465 GLY A 293 REMARK 465 ARG A 294 REMARK 465 PRO A 295 REMARK 465 ASP A 296 REMARK 465 ILE A 297 REMARK 465 LEU A 302 REMARK 465 ASN A 303 REMARK 465 THR A 304 REMARK 465 ARG A 305 REMARK 465 GLN A 306 REMARK 465 GLY A 471 REMARK 465 THR A 472 REMARK 465 ARG A 473 REMARK 465 LYS A 474 REMARK 465 GLY A 475 REMARK 465 SER A 476 REMARK 465 LYS A 477 REMARK 465 ARG A 478 REMARK 465 SER A 479 REMARK 465 GLN A 480 REMARK 465 VAL A 481 REMARK 465 CYS A 482 REMARK 465 PRO A 483 REMARK 465 PRO A 484 REMARK 465 SER A 485 REMARK 465 SER A 486 REMARK 465 ARG A 487 REMARK 465 DA B 1 REMARK 465 DA C 14 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DT B 2 P OP1 OP2 REMARK 470 DC C 13 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DC C 13 N1 C2 O2 N3 C4 N4 C5 REMARK 470 DC C 13 C6 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 PHE A 58 73.84 -108.22 REMARK 500 ASP A 207 -168.02 -104.17 REMARK 500 VAL A 260 -68.82 -122.95 REMARK 500 LEU A 267 67.01 -110.51 REMARK 500 ALA A 350 -129.78 -119.01 REMARK 500 HIS A 468 38.73 -80.13 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 A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 56 NE2 REMARK 620 2 CYS A 300 SG 91.3 REMARK 620 3 CYS A 307 SG 114.6 122.2 REMARK 620 4 CYS A 310 SG 87.4 82.7 144.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 261 SG REMARK 620 2 SF4 A 501 S1 117.7 REMARK 620 3 SF4 A 501 S3 115.7 104.2 REMARK 620 4 SF4 A 501 S4 109.5 104.1 104.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 268 SG REMARK 620 2 SF4 A 501 S1 139.0 REMARK 620 3 SF4 A 501 S2 99.0 104.3 REMARK 620 4 SF4 A 501 S3 102.2 104.2 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 271 SG REMARK 620 2 SF4 A 501 S2 99.9 REMARK 620 3 SF4 A 501 S3 124.1 104.2 REMARK 620 4 SF4 A 501 S4 117.2 104.3 104.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 277 SG REMARK 620 2 SF4 A 501 S1 105.9 REMARK 620 3 SF4 A 501 S2 118.4 104.3 REMARK 620 4 SF4 A 501 S4 118.1 104.1 104.4 REMARK 620 N 1 2 3 DBREF 7EF8 A 35 487 UNP Q99P21 MUTYH_MOUSE 35 487 DBREF 7EF8 B 1 14 PDB 7EF8 7EF8 1 14 DBREF 7EF8 C 1 14 PDB 7EF8 7EF8 1 14 SEQADV 7EF8 GLY A 30 UNP Q99P21 EXPRESSION TAG SEQADV 7EF8 PRO A 31 UNP Q99P21 EXPRESSION TAG SEQADV 7EF8 GLY A 32 UNP Q99P21 EXPRESSION TAG SEQADV 7EF8 TYR A 33 UNP Q99P21 EXPRESSION TAG SEQADV 7EF8 GLN A 34 UNP Q99P21 EXPRESSION TAG SEQRES 1 A 458 GLY PRO GLY TYR GLN SER LEU ASP GLY LEU ALA LYS GLN SEQRES 2 A 458 LYS ARG GLU GLU LEU LEU GLN ALA SER VAL SER PRO TYR SEQRES 3 A 458 HIS LEU PHE SER ASP VAL ALA ASP VAL THR ALA PHE ARG SEQRES 4 A 458 SER ASN LEU LEU SER TRP TYR ASP GLN GLU LYS ARG ASP SEQRES 5 A 458 LEU PRO TRP ARG ASN LEU ALA LYS GLU GLU ALA ASN SER SEQRES 6 A 458 ASP ARG ARG ALA TYR ALA VAL TRP VAL SER GLU VAL MET SEQRES 7 A 458 LEU GLN GLN THR GLN VAL ALA THR VAL ILE ASP TYR TYR SEQRES 8 A 458 THR ARG TRP MET GLN LYS TRP PRO LYS LEU GLN ASP LEU SEQRES 9 A 458 ALA SER ALA SER LEU GLU GLU VAL ASN GLN LEU TRP SER SEQRES 10 A 458 GLY LEU GLY TYR TYR SER ARG GLY ARG ARG LEU GLN GLU SEQRES 11 A 458 GLY ALA ARG LYS VAL VAL GLU GLU LEU GLY GLY HIS MET SEQRES 12 A 458 PRO ARG THR ALA GLU THR LEU GLN GLN LEU LEU PRO GLY SEQRES 13 A 458 VAL GLY ARG TYR THR ALA GLY ALA ILE ALA SER ILE ALA SEQRES 14 A 458 PHE ASP GLN VAL THR GLY VAL VAL ASP GLY ASN VAL LEU SEQRES 15 A 458 ARG VAL LEU CYS ARG VAL ARG ALA ILE GLY ALA ASP PRO SEQRES 16 A 458 THR SER THR LEU VAL SER HIS HIS LEU TRP ASN LEU ALA SEQRES 17 A 458 GLN GLN LEU VAL ASP PRO ALA ARG PRO GLY ASP PHE ASN SEQRES 18 A 458 GLN ALA ALA MET GLU LEU GLY ALA THR VAL CYS THR PRO SEQRES 19 A 458 GLN ARG PRO LEU CYS SER HIS CYS PRO VAL GLN SER LEU SEQRES 20 A 458 CYS ARG ALA TYR GLN ARG VAL GLN ARG GLY GLN LEU SER SEQRES 21 A 458 ALA LEU PRO GLY ARG PRO ASP ILE GLU GLU CYS ALA LEU SEQRES 22 A 458 ASN THR ARG GLN CYS GLN LEU CYS LEU THR SER SER SER SEQRES 23 A 458 PRO TRP ASP PRO SER MET GLY VAL ALA ASN PHE PRO ARG SEQRES 24 A 458 LYS ALA SER ARG ARG PRO PRO ARG GLU GLU TYR SER ALA SEQRES 25 A 458 THR CYS VAL VAL GLU GLN PRO GLY ALA ILE GLY GLY PRO SEQRES 26 A 458 LEU VAL LEU LEU VAL GLN ARG PRO ASP SER GLY LEU LEU SEQRES 27 A 458 ALA GLY LEU TRP GLU PHE PRO SER VAL THR LEU GLU PRO SEQRES 28 A 458 SER GLU GLN HIS GLN HIS LYS ALA LEU LEU GLN GLU LEU SEQRES 29 A 458 GLN ARG TRP CYS GLY PRO LEU PRO ALA ILE ARG LEU GLN SEQRES 30 A 458 HIS LEU GLY GLU VAL ILE HIS ILE PHE SER HIS ILE LYS SEQRES 31 A 458 LEU THR TYR GLN VAL TYR SER LEU ALA LEU ASP GLN ALA SEQRES 32 A 458 PRO ALA SER THR ALA PRO PRO GLY ALA ARG TRP LEU THR SEQRES 33 A 458 TRP GLU GLU PHE CYS ASN ALA ALA VAL SER THR ALA MET SEQRES 34 A 458 LYS LYS VAL PHE ARG MET TYR GLU ASP HIS ARG GLN GLY SEQRES 35 A 458 THR ARG LYS GLY SER LYS ARG SER GLN VAL CYS PRO PRO SEQRES 36 A 458 SER SER ARG SEQRES 1 B 14 DA DT DG DA DG DA DC 8OG DG DG DG DA DC SEQRES 2 B 14 DT SEQRES 1 C 14 DT DA DG DT DC DC DC 3DR DG DT DC DT DC SEQRES 2 C 14 DA HET 8OG B 8 23 HET 3DR C 8 11 HET SF4 A 501 8 HET ZN A 502 1 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET SO4 A 506 5 HET SO4 A 507 5 HET SO4 A 508 5 HET SO4 A 509 5 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETNAM SF4 IRON/SULFUR CLUSTER HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETSYN 3DR ABASIC DIDEOXYRIBOSE FORMUL 2 8OG C10 H14 N5 O8 P FORMUL 3 3DR C5 H11 O6 P FORMUL 4 SF4 FE4 S4 FORMUL 5 ZN ZN 2+ FORMUL 6 SO4 7(O4 S 2-) FORMUL 13 HOH *66(H2 O) HELIX 1 AA1 SER A 53 LEU A 57 5 5 HELIX 2 AA2 ASP A 60 LYS A 79 1 20 HELIX 3 AA3 LEU A 82 GLU A 91 1 10 HELIX 4 AA4 ASN A 93 GLN A 109 1 17 HELIX 5 AA5 GLN A 112 TRP A 127 1 16 HELIX 6 AA6 LYS A 129 ALA A 136 1 8 HELIX 7 AA7 SER A 137 SER A 146 1 10 HELIX 8 AA8 TYR A 151 LEU A 168 1 18 HELIX 9 AA9 THR A 175 LEU A 183 1 9 HELIX 10 AB1 GLY A 187 ASP A 200 1 14 HELIX 11 AB2 ASP A 207 ARG A 218 1 12 HELIX 12 AB3 SER A 226 VAL A 241 1 16 HELIX 13 AB4 ARG A 245 VAL A 260 1 16 HELIX 14 AB5 LEU A 267 CYS A 271 5 5 HELIX 15 AB6 CYS A 277 GLN A 284 1 8 HELIX 16 AB7 ASP A 318 PHE A 326 5 9 HELIX 17 AB8 GLU A 379 GLN A 383 5 5 HELIX 18 AB9 HIS A 386 GLY A 398 1 13 HELIX 19 AC1 PRO A 401 LEU A 405 5 5 HELIX 20 AC2 THR A 445 ASN A 451 1 7 HELIX 21 AC3 SER A 455 HIS A 468 1 14 SHEET 1 AA1 5 TRP A 371 GLU A 372 0 SHEET 2 AA1 5 LEU A 355 GLN A 360 -1 N VAL A 359 O GLU A 372 SHEET 3 AA1 5 ARG A 336 GLN A 347 -1 N GLN A 347 O LEU A 355 SHEET 4 AA1 5 ILE A 418 ALA A 428 1 O LYS A 419 N ARG A 336 SHEET 5 AA1 5 GLN A 406 ILE A 414 -1 N VAL A 411 O TYR A 422 SHEET 1 AA2 4 SER A 375 LEU A 378 0 SHEET 2 AA2 4 ARG A 336 GLN A 347 -1 N ALA A 341 O VAL A 376 SHEET 3 AA2 4 LEU A 355 GLN A 360 -1 O LEU A 355 N GLN A 347 SHEET 4 AA2 4 ALA A 441 LEU A 444 -1 O ARG A 442 N LEU A 358 LINK O3' DC B 7 P 8OG B 8 1555 1555 1.61 LINK O3' 8OG B 8 P DG B 9 1555 1555 1.61 LINK O3' DC C 7 P 3DR C 8 1555 1555 1.61 LINK O3' 3DR C 8 P DG C 9 1555 1555 1.61 LINK NE2 HIS A 56 ZN ZN A 502 1555 1555 2.58 LINK SG CYS A 261 FE2 SF4 A 501 1555 1555 2.33 LINK SG CYS A 268 FE4 SF4 A 501 1555 1555 2.32 LINK SG CYS A 271 FE1 SF4 A 501 1555 1555 2.29 LINK SG CYS A 277 FE3 SF4 A 501 1555 1555 2.35 LINK SG CYS A 300 ZN ZN A 502 1555 1555 2.98 LINK SG CYS A 307 ZN ZN A 502 1555 1555 2.44 LINK SG CYS A 310 ZN ZN A 502 1555 1555 2.38 CISPEP 1 PHE A 326 PRO A 327 0 -5.27 CISPEP 2 GLY A 353 PRO A 354 0 1.26 CRYST1 74.274 107.236 156.432 90.00 90.00 90.00 I 2 2 2 8 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 0.013464 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009325 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006393 0.00000 CONECT 48 3709 CONECT 1687 3702 CONECT 1742 3704 CONECT 1764 3701 CONECT 1807 3703 CONECT 1895 3709 CONECT 1906 3709 CONECT 1929 3709 CONECT 3306 3317 CONECT 3317 3306 3318 3319 3320 CONECT 3318 3317 CONECT 3319 3317 CONECT 3320 3317 3321 CONECT 3321 3320 3322 CONECT 3322 3321 3323 3324 CONECT 3323 3322 3327 CONECT 3324 3322 3325 3326 CONECT 3325 3324 3340 CONECT 3326 3324 3327 CONECT 3327 3323 3326 3328 CONECT 3328 3327 3329 3338 CONECT 3329 3328 3330 3339 CONECT 3330 3329 3331 CONECT 3331 3330 3332 3338 CONECT 3332 3331 3333 3334 CONECT 3333 3332 CONECT 3334 3332 3335 CONECT 3335 3334 3336 3337 CONECT 3336 3335 CONECT 3337 3335 3338 CONECT 3338 3328 3331 3337 CONECT 3339 3329 CONECT 3340 3325 CONECT 3593 3605 CONECT 3604 3605 3609 CONECT 3605 3593 3604 3606 3607 CONECT 3606 3605 CONECT 3607 3605 CONECT 3608 3612 3613 CONECT 3609 3604 3610 CONECT 3610 3609 3611 3613 CONECT 3611 3610 3612 CONECT 3612 3608 3611 CONECT 3613 3608 3610 3614 CONECT 3614 3613 3615 CONECT 3615 3614 CONECT 3701 1764 3706 3707 3708 CONECT 3702 1687 3705 3707 3708 CONECT 3703 1807 3705 3706 3708 CONECT 3704 1742 3705 3706 3707 CONECT 3705 3702 3703 3704 CONECT 3706 3701 3703 3704 CONECT 3707 3701 3702 3704 CONECT 3708 3701 3702 3703 CONECT 3709 48 1895 1906 1929 CONECT 3710 3711 3712 3713 3714 CONECT 3711 3710 CONECT 3712 3710 CONECT 3713 3710 CONECT 3714 3710 CONECT 3715 3716 3717 3718 3719 CONECT 3716 3715 CONECT 3717 3715 CONECT 3718 3715 CONECT 3719 3715 CONECT 3720 3721 3722 3723 3724 CONECT 3721 3720 CONECT 3722 3720 CONECT 3723 3720 CONECT 3724 3720 CONECT 3725 3726 3727 3728 3729 CONECT 3726 3725 CONECT 3727 3725 CONECT 3728 3725 CONECT 3729 3725 CONECT 3730 3731 3732 3733 3734 CONECT 3731 3730 CONECT 3732 3730 CONECT 3733 3730 CONECT 3734 3730 CONECT 3735 3736 3737 3738 3739 CONECT 3736 3735 CONECT 3737 3735 CONECT 3738 3735 CONECT 3739 3735 CONECT 3740 3741 3742 3743 3744 CONECT 3741 3740 CONECT 3742 3740 CONECT 3743 3740 CONECT 3744 3740 MASTER 438 0 11 21 9 0 0 6 3786 3 90 40 END