HEADER HYDROLASE 19-MAY-20 6X1Y TITLE MRE11 DIMER IN COMPLEX WITH SMALL MOLECULE MODULATOR PFMI COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEASE SBCCD SUBUNIT D; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: SBCD, TM_1635; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA REPAIR MRE11 THERMOPHILIC NUCLEASE, DNA DOUBLE-STRAND BREAK KEYWDS 2 REPAIR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.S.ARVAI,D.MOIANI,J.A.TAINER REVDAT 4 18-OCT-23 6X1Y 1 REMARK REVDAT 3 16-JUN-21 6X1Y 1 JRNL REVDAT 2 23-DEC-20 6X1Y 1 JRNL REVDAT 1 10-JUN-20 6X1Y 0 JRNL AUTH D.M.WILSON 3RD,A.M.DEACON,M.A.J.DUNCTON,P.PELLICENA, JRNL AUTH 2 M.M.GEORGIADIS,A.P.YEH,A.S.ARVAI,D.MOIANI,J.A.TAINER,D.DAS JRNL TITL FRAGMENT- AND STRUCTURE-BASED DRUG DISCOVERY FOR DEVELOPING JRNL TITL 2 THERAPEUTIC AGENTS TARGETING THE DNA DAMAGE RESPONSE. JRNL REF PROG.BIOPHYS.MOL.BIOL. V. 163 130 2021 JRNL REFN ISSN 0079-6107 JRNL PMID 33115610 JRNL DOI 10.1016/J.PBIOMOLBIO.2020.10.005 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 83.3 REMARK 3 NUMBER OF REFLECTIONS : 51691 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 2561 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 44.1000 - 6.1600 0.90 2962 151 0.1683 0.1846 REMARK 3 2 6.1600 - 4.8900 0.91 2974 158 0.1624 0.1795 REMARK 3 3 4.8900 - 4.2700 0.89 2899 147 0.1434 0.1853 REMARK 3 4 4.2700 - 3.8800 0.86 2853 151 0.1746 0.2047 REMARK 3 5 3.8800 - 3.6000 0.82 2662 145 0.2200 0.2311 REMARK 3 6 3.6000 - 3.3900 0.82 2700 143 0.2257 0.2789 REMARK 3 7 3.3900 - 3.2200 0.89 2941 159 0.2205 0.2265 REMARK 3 8 3.2200 - 3.0800 0.92 3024 159 0.2294 0.2798 REMARK 3 9 3.0800 - 2.9600 0.91 2947 159 0.2290 0.2786 REMARK 3 10 2.9600 - 2.8600 0.89 2979 154 0.2376 0.3183 REMARK 3 11 2.8600 - 2.7700 0.86 2790 139 0.2622 0.3678 REMARK 3 12 2.7700 - 2.6900 0.78 2574 137 0.2721 0.3043 REMARK 3 13 2.6900 - 2.6200 0.73 2354 126 0.3379 0.3433 REMARK 3 14 2.6200 - 2.5600 0.78 2632 129 0.3013 0.3275 REMARK 3 15 2.5600 - 2.5000 0.80 2611 129 0.2905 0.3409 REMARK 3 16 2.5000 - 2.4500 0.77 2544 144 0.3153 0.3274 REMARK 3 17 2.4500 - 2.4000 0.76 2485 125 0.3128 0.3115 REMARK 3 18 2.4000 - 2.3500 0.68 2199 106 0.3210 0.3248 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.293 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.297 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.72 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.50 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 5426 REMARK 3 ANGLE : 0.657 7346 REMARK 3 CHIRALITY : 0.043 804 REMARK 3 PLANARITY : 0.003 944 REMARK 3 DIHEDRAL : 18.836 2044 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -2 THROUGH 30 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.3034 450.9774-112.9103 REMARK 3 T TENSOR REMARK 3 T11: 0.3937 T22: 0.3637 REMARK 3 T33: 0.3142 T12: 0.1459 REMARK 3 T13: 0.0492 T23: 0.0417 REMARK 3 L TENSOR REMARK 3 L11: 0.6658 L22: 0.1701 REMARK 3 L33: 0.5016 L12: 0.0267 REMARK 3 L13: -0.5317 L23: -0.3615 REMARK 3 S TENSOR REMARK 3 S11: -0.0721 S12: 0.2227 S13: -0.2227 REMARK 3 S21: -0.0794 S22: 0.1155 S23: 0.4495 REMARK 3 S31: -0.0300 S32: -0.2048 S33: 0.0748 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 31 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.1301 451.6783-106.4931 REMARK 3 T TENSOR REMARK 3 T11: 0.3455 T22: 0.3361 REMARK 3 T33: 0.3522 T12: 0.1051 REMARK 3 T13: 0.0231 T23: 0.0224 REMARK 3 L TENSOR REMARK 3 L11: 0.7810 L22: 0.8745 REMARK 3 L33: 1.6831 L12: -0.2647 REMARK 3 L13: -0.1629 L23: -1.2699 REMARK 3 S TENSOR REMARK 3 S11: -0.0068 S12: 0.0314 S13: -0.1965 REMARK 3 S21: -0.0324 S22: 0.0907 S23: 0.1215 REMARK 3 S31: 0.0025 S32: 0.1089 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 110 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.9299 451.9980-106.7477 REMARK 3 T TENSOR REMARK 3 T11: 0.3234 T22: 0.6107 REMARK 3 T33: 0.3348 T12: 0.0888 REMARK 3 T13: -0.0001 T23: 0.0878 REMARK 3 L TENSOR REMARK 3 L11: 1.0575 L22: 0.8030 REMARK 3 L33: 1.9535 L12: -0.1126 REMARK 3 L13: -0.1612 L23: 0.3156 REMARK 3 S TENSOR REMARK 3 S11: 0.1060 S12: -0.2642 S13: -0.0246 REMARK 3 S21: 0.1840 S22: -0.1852 S23: -0.1211 REMARK 3 S31: 0.0382 S32: 0.7981 S33: -0.0006 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.3880 463.0916-126.9383 REMARK 3 T TENSOR REMARK 3 T11: 0.4480 T22: 0.4689 REMARK 3 T33: 0.3242 T12: 0.0931 REMARK 3 T13: -0.0320 T23: 0.0685 REMARK 3 L TENSOR REMARK 3 L11: 1.7885 L22: 0.7068 REMARK 3 L33: 0.8431 L12: -0.0704 REMARK 3 L13: 0.2727 L23: 0.2100 REMARK 3 S TENSOR REMARK 3 S11: 0.0925 S12: 0.2582 S13: 0.2766 REMARK 3 S21: -0.5647 S22: -0.2518 S23: 0.0151 REMARK 3 S31: 0.0620 S32: 0.3368 S33: 0.0007 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID -2 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.0915 506.0257 -69.9632 REMARK 3 T TENSOR REMARK 3 T11: 0.2461 T22: 0.2121 REMARK 3 T33: 0.2893 T12: -0.0561 REMARK 3 T13: -0.0110 T23: -0.0231 REMARK 3 L TENSOR REMARK 3 L11: 0.2101 L22: 1.3986 REMARK 3 L33: 0.8899 L12: -0.8495 REMARK 3 L13: -0.0016 L23: -1.1806 REMARK 3 S TENSOR REMARK 3 S11: -0.0215 S12: -0.0998 S13: 0.0935 REMARK 3 S21: 0.0983 S22: 0.1282 S23: 0.1094 REMARK 3 S31: -0.1399 S32: -0.1425 S33: -0.0004 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 110 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.5393 506.8734 -68.1635 REMARK 3 T TENSOR REMARK 3 T11: 0.2446 T22: 0.3667 REMARK 3 T33: 0.3761 T12: -0.0440 REMARK 3 T13: -0.0221 T23: 0.0410 REMARK 3 L TENSOR REMARK 3 L11: 1.3998 L22: 1.1147 REMARK 3 L33: 1.7304 L12: -0.2696 REMARK 3 L13: -0.4988 L23: 0.4851 REMARK 3 S TENSOR REMARK 3 S11: 0.0380 S12: -0.1344 S13: 0.1258 REMARK 3 S21: 0.0300 S22: -0.1402 S23: -0.2824 REMARK 3 S31: 0.0255 S32: 0.4674 S33: -0.0010 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 216 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.0474 517.7100 -88.4824 REMARK 3 T TENSOR REMARK 3 T11: 0.4155 T22: 0.3058 REMARK 3 T33: 0.3682 T12: 0.0033 REMARK 3 T13: -0.0209 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 0.8873 L22: 1.1675 REMARK 3 L33: 0.5643 L12: -0.9036 REMARK 3 L13: -0.0421 L23: -0.7271 REMARK 3 S TENSOR REMARK 3 S11: 0.2113 S12: 0.1952 S13: 0.1477 REMARK 3 S21: -0.4638 S22: -0.2569 S23: -0.1235 REMARK 3 S31: 0.2081 S32: 0.2974 S33: -0.0004 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN 'A' AND (RESID -2 THROUGH 158 OR REMARK 3 RESID 160 THROUGH 801 OR RESID 501)) REMARK 3 SELECTION : (CHAIN 'B' AND (RESID -2 THROUGH 158 OR REMARK 3 RESID 160 THROUGH 801 OR RESID 501)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6X1Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1000248252. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 12.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.115850 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58497 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 44.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.39 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: 4NZV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.5, 0.01 M CACL2, 1% PEG REMARK 280 2000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 54.57350 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -68.17731 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -54.57350 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -149.71320 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 -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 MET B -11 REMARK 465 GLY B -10 REMARK 465 SER B -9 REMARK 465 ASP B -8 REMARK 465 LYS B -7 REMARK 465 ILE B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 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 LEU A 146 CG CD1 CD2 REMARK 470 ARG A 147 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 148 CG CD CE NZ REMARK 470 ILE A 192 CG1 CG2 CD1 REMARK 470 GLN A 194 CG CD OE1 NE2 REMARK 470 ARG A 196 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 279 NZ REMARK 470 LEU B 146 CG CD1 CD2 REMARK 470 ARG B 147 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 148 CG CD CE NZ REMARK 470 ILE B 192 CG1 CG2 CD1 REMARK 470 GLN B 194 CG CD OE1 NE2 REMARK 470 ARG B 196 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 279 NZ 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 HIS A 0 61.11 -111.35 REMARK 500 SER A 25 -64.04 -127.85 REMARK 500 ASN A 64 -79.57 -99.58 REMARK 500 PRO A 140 -97.94 -69.01 REMARK 500 LYS A 148 -3.80 67.90 REMARK 500 ALA A 187 109.34 -56.03 REMARK 500 HIS A 216 -19.37 108.53 REMARK 500 ASP A 312 79.64 -65.70 REMARK 500 HIS B 0 68.15 -119.44 REMARK 500 SER B 25 -65.03 -130.98 REMARK 500 ASN B 64 -80.47 -98.61 REMARK 500 PRO B 140 -108.09 -64.69 REMARK 500 LYS B 148 -5.76 65.69 REMARK 500 GLU B 172 -70.82 -117.36 REMARK 500 ALA B 187 108.49 -56.23 REMARK 500 HIS B 216 -22.30 109.06 REMARK 500 ASP B 312 79.24 -66.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UKV A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UKV B 802 DBREF 6X1Y A 2 324 UNP Q9X1X0 Q9X1X0_THEMA 2 324 DBREF 6X1Y B 2 324 UNP Q9X1X0 Q9X1X0_THEMA 2 324 SEQADV 6X1Y MET A -11 UNP Q9X1X0 INITIATING METHIONINE SEQADV 6X1Y GLY A -10 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y SER A -9 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y ASP A -8 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y LYS A -7 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y ILE A -6 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A -5 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A -4 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A -3 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A -2 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A -1 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS A 0 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y VAL A 1 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y MET B -11 UNP Q9X1X0 INITIATING METHIONINE SEQADV 6X1Y GLY B -10 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y SER B -9 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y ASP B -8 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y LYS B -7 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y ILE B -6 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B -5 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B -4 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B -3 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B -2 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B -1 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y HIS B 0 UNP Q9X1X0 EXPRESSION TAG SEQADV 6X1Y VAL B 1 UNP Q9X1X0 EXPRESSION TAG SEQRES 1 A 336 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS VAL SEQRES 2 A 336 ILE ASN LEU LYS GLU LEU LYS ILE LEU HIS THR SER ASP SEQRES 3 A 336 TRP HIS LEU GLY VAL THR SER TRP THR SER SER ARG PRO SEQRES 4 A 336 VAL ASP ARG ARG GLU GLU LEU LYS LYS ALA LEU ASP LYS SEQRES 5 A 336 VAL VAL GLU GLU ALA GLU LYS ARG GLU VAL ASP LEU ILE SEQRES 6 A 336 LEU LEU THR GLY ASP LEU LEU HIS SER ARG ASN ASN PRO SEQRES 7 A 336 SER VAL VAL ALA LEU HIS ASP LEU LEU ASP TYR LEU LYS SEQRES 8 A 336 ARG MET MET ARG THR ALA PRO VAL VAL VAL LEU PRO GLY SEQRES 9 A 336 ASN HIS ASP TRP LYS GLY LEU LYS LEU PHE GLY ASN PHE SEQRES 10 A 336 VAL THR SER ILE SER SER ASP ILE THR PHE VAL MET SER SEQRES 11 A 336 PHE GLU PRO VAL ASP VAL GLU ALA LYS ARG GLY GLN LYS SEQRES 12 A 336 VAL ARG ILE LEU PRO PHE PRO TYR PRO ASP GLU SER GLU SEQRES 13 A 336 ALA LEU ARG LYS ASN GLU GLY ASP PHE ARG PHE PHE LEU SEQRES 14 A 336 GLU SER ARG LEU ASN LYS LEU TYR GLU GLU ALA LEU LYS SEQRES 15 A 336 LYS GLU ASP PHE ALA ILE PHE MET GLY HIS PHE THR VAL SEQRES 16 A 336 GLU GLY LEU ALA GLY TYR ALA GLY ILE GLU GLN GLY ARG SEQRES 17 A 336 GLU ILE ILE ILE ASN ARG ALA LEU ILE PRO SER VAL VAL SEQRES 18 A 336 ASP TYR ALA ALA LEU GLY HIS ILE HIS SER PHE ARG GLU SEQRES 19 A 336 ILE GLN LYS GLN PRO LEU THR ILE TYR PRO GLY SER LEU SEQRES 20 A 336 ILE ARG ILE ASP PHE GLY GLU GLU ALA ASP GLU LYS GLY SEQRES 21 A 336 ALA VAL PHE VAL GLU LEU LYS ARG GLY GLU PRO PRO ARG SEQRES 22 A 336 TYR GLU ARG ILE ASP ALA SER PRO LEU PRO LEU LYS THR SEQRES 23 A 336 LEU TYR TYR LYS LYS ILE ASP THR SER ALA LEU LYS SER SEQRES 24 A 336 ILE ARG ASP PHE CYS ARG ASN PHE PRO GLY TYR VAL ARG SEQRES 25 A 336 VAL VAL TYR GLU GLU ASP SER GLY ILE LEU PRO ASP LEU SEQRES 26 A 336 MET GLY GLU ILE ASP ASN LEU VAL LYS ILE GLU SEQRES 1 B 336 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS VAL SEQRES 2 B 336 ILE ASN LEU LYS GLU LEU LYS ILE LEU HIS THR SER ASP SEQRES 3 B 336 TRP HIS LEU GLY VAL THR SER TRP THR SER SER ARG PRO SEQRES 4 B 336 VAL ASP ARG ARG GLU GLU LEU LYS LYS ALA LEU ASP LYS SEQRES 5 B 336 VAL VAL GLU GLU ALA GLU LYS ARG GLU VAL ASP LEU ILE SEQRES 6 B 336 LEU LEU THR GLY ASP LEU LEU HIS SER ARG ASN ASN PRO SEQRES 7 B 336 SER VAL VAL ALA LEU HIS ASP LEU LEU ASP TYR LEU LYS SEQRES 8 B 336 ARG MET MET ARG THR ALA PRO VAL VAL VAL LEU PRO GLY SEQRES 9 B 336 ASN HIS ASP TRP LYS GLY LEU LYS LEU PHE GLY ASN PHE SEQRES 10 B 336 VAL THR SER ILE SER SER ASP ILE THR PHE VAL MET SER SEQRES 11 B 336 PHE GLU PRO VAL ASP VAL GLU ALA LYS ARG GLY GLN LYS SEQRES 12 B 336 VAL ARG ILE LEU PRO PHE PRO TYR PRO ASP GLU SER GLU SEQRES 13 B 336 ALA LEU ARG LYS ASN GLU GLY ASP PHE ARG PHE PHE LEU SEQRES 14 B 336 GLU SER ARG LEU ASN LYS LEU TYR GLU GLU ALA LEU LYS SEQRES 15 B 336 LYS GLU ASP PHE ALA ILE PHE MET GLY HIS PHE THR VAL SEQRES 16 B 336 GLU GLY LEU ALA GLY TYR ALA GLY ILE GLU GLN GLY ARG SEQRES 17 B 336 GLU ILE ILE ILE ASN ARG ALA LEU ILE PRO SER VAL VAL SEQRES 18 B 336 ASP TYR ALA ALA LEU GLY HIS ILE HIS SER PHE ARG GLU SEQRES 19 B 336 ILE GLN LYS GLN PRO LEU THR ILE TYR PRO GLY SER LEU SEQRES 20 B 336 ILE ARG ILE ASP PHE GLY GLU GLU ALA ASP GLU LYS GLY SEQRES 21 B 336 ALA VAL PHE VAL GLU LEU LYS ARG GLY GLU PRO PRO ARG SEQRES 22 B 336 TYR GLU ARG ILE ASP ALA SER PRO LEU PRO LEU LYS THR SEQRES 23 B 336 LEU TYR TYR LYS LYS ILE ASP THR SER ALA LEU LYS SER SEQRES 24 B 336 ILE ARG ASP PHE CYS ARG ASN PHE PRO GLY TYR VAL ARG SEQRES 25 B 336 VAL VAL TYR GLU GLU ASP SER GLY ILE LEU PRO ASP LEU SEQRES 26 B 336 MET GLY GLU ILE ASP ASN LEU VAL LYS ILE GLU HET MES A 801 12 HET UKV A 802 16 HET MES B 801 12 HET UKV B 802 16 HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM UKV (5Z)-5-[(3-METHOXYPHENYL)METHYLIDENE]-2-SULFANYLIDENE- HETNAM 2 UKV 1,3-THIAZOLIDIN-4-ONE FORMUL 3 MES 2(C6 H13 N O4 S) FORMUL 4 UKV 2(C11 H9 N O2 S2) FORMUL 7 HOH *87(H2 O) HELIX 1 AA1 ARG A 30 GLU A 49 1 20 HELIX 2 AA2 SER A 67 ALA A 85 1 19 HELIX 3 AA3 LYS A 97 SER A 110 1 14 HELIX 4 AA4 ASP A 141 LEU A 146 1 6 HELIX 5 AA5 ASN A 149 LYS A 170 1 22 HELIX 6 AA6 ASN A 201 ILE A 205 5 5 HELIX 7 AA7 ASP A 281 PHE A 295 1 15 HELIX 8 AA8 ASP A 312 ILE A 317 1 6 HELIX 9 AA9 ARG B 30 GLU B 49 1 20 HELIX 10 AB1 SER B 67 ALA B 85 1 19 HELIX 11 AB2 LYS B 97 SER B 110 1 14 HELIX 12 AB3 ASP B 141 LEU B 146 1 6 HELIX 13 AB4 ASN B 149 LYS B 170 1 22 HELIX 14 AB5 ASN B 201 ILE B 205 5 5 HELIX 15 AB6 ASP B 281 PHE B 295 1 15 SHEET 1 AA1 6 ILE A 113 PHE A 115 0 SHEET 2 AA1 6 VAL A 87 VAL A 89 1 N VAL A 89 O THR A 114 SHEET 3 AA1 6 LEU A 52 LEU A 55 1 N ILE A 53 O VAL A 88 SHEET 4 AA1 6 GLU A 6 THR A 12 1 N LEU A 10 O LEU A 54 SHEET 5 AA1 6 GLY A 248 LYS A 255 -1 O VAL A 252 N ILE A 9 SHEET 6 AA1 6 ARG A 261 ASP A 266 -1 O GLU A 263 N PHE A 251 SHEET 1 AA2 2 THR A 20 SER A 21 0 SHEET 2 AA2 2 VAL A 28 ASP A 29 -1 O VAL A 28 N SER A 21 SHEET 1 AA3 6 VAL A 122 GLU A 125 0 SHEET 2 AA3 6 LYS A 131 PHE A 137 -1 O ILE A 134 N VAL A 122 SHEET 3 AA3 6 PHE A 174 HIS A 180 1 O ILE A 176 N LEU A 135 SHEET 4 AA3 6 TYR A 211 GLY A 215 1 O ALA A 213 N PHE A 177 SHEET 5 AA3 6 THR A 229 TYR A 231 1 O ILE A 230 N LEU A 214 SHEET 6 AA3 6 ARG A 221 GLN A 224 -1 N ARG A 221 O TYR A 231 SHEET 1 AA4 2 THR A 182 VAL A 183 0 SHEET 2 AA4 2 ILE A 199 ILE A 200 1 O ILE A 200 N THR A 182 SHEET 1 AA5 3 LEU A 272 LYS A 279 0 SHEET 2 AA5 3 TYR A 298 GLU A 305 1 O ARG A 300 N LEU A 275 SHEET 3 AA5 3 LEU A 320 ILE A 323 1 O LYS A 322 N VAL A 301 SHEET 1 AA6 6 ILE B 113 PHE B 115 0 SHEET 2 AA6 6 VAL B 87 VAL B 89 1 N VAL B 89 O THR B 114 SHEET 3 AA6 6 LEU B 52 LEU B 55 1 N ILE B 53 O VAL B 88 SHEET 4 AA6 6 GLU B 6 THR B 12 1 N LEU B 10 O LEU B 54 SHEET 5 AA6 6 GLY B 248 LYS B 255 -1 O VAL B 252 N ILE B 9 SHEET 6 AA6 6 ARG B 261 ASP B 266 -1 O ILE B 265 N ALA B 249 SHEET 1 AA7 2 THR B 20 SER B 21 0 SHEET 2 AA7 2 VAL B 28 ASP B 29 -1 O VAL B 28 N SER B 21 SHEET 1 AA8 6 VAL B 122 GLU B 125 0 SHEET 2 AA8 6 LYS B 131 PHE B 137 -1 O ILE B 134 N VAL B 122 SHEET 3 AA8 6 PHE B 174 HIS B 180 1 O ILE B 176 N LEU B 135 SHEET 4 AA8 6 TYR B 211 GLY B 215 1 O ALA B 213 N PHE B 177 SHEET 5 AA8 6 THR B 229 TYR B 231 1 O ILE B 230 N LEU B 214 SHEET 6 AA8 6 ARG B 221 GLN B 224 -1 N ARG B 221 O TYR B 231 SHEET 1 AA9 2 THR B 182 VAL B 183 0 SHEET 2 AA9 2 ILE B 199 ILE B 200 1 O ILE B 200 N THR B 182 SHEET 1 AB1 3 LEU B 272 LYS B 279 0 SHEET 2 AB1 3 TYR B 298 GLU B 305 1 O ARG B 300 N LEU B 275 SHEET 3 AB1 3 LEU B 320 GLU B 324 1 O GLU B 324 N VAL B 301 CISPEP 1 GLN A 226 PRO A 227 0 -3.26 CISPEP 2 GLN B 226 PRO B 227 0 -1.33 SITE 1 AC1 9 HIS A 16 ASP A 58 LEU A 60 HIS A 61 SITE 2 AC1 9 ARG A 63 ASN A 93 GLU A 193 HIS A 216 SITE 3 AC1 9 HIS A 218 SITE 1 AC2 11 ASP A 58 LEU A 59 LEU A 60 LEU A 74 SITE 2 AC2 11 PRO A 91 GLY A 92 HIS A 94 TRP A 96 SITE 3 AC2 11 LEU A 99 PHE A 102 PHE A 115 SITE 1 AC3 9 HIS B 16 ASP B 58 LEU B 60 ARG B 63 SITE 2 AC3 9 ASN B 93 GLU B 193 HIS B 216 HIS B 218 SITE 3 AC3 9 HOH B 901 SITE 1 AC4 12 ASP B 58 LEU B 59 LEU B 60 LEU B 74 SITE 2 AC4 12 PRO B 91 GLY B 92 HIS B 94 TRP B 96 SITE 3 AC4 12 LEU B 99 PHE B 102 PHE B 115 HOH B 909 CRYST1 47.199 109.147 75.996 90.00 99.93 90.00 P 1 21 1 4 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 0.021187 0.000000 0.003711 0.00000 SCALE2 0.000000 0.009162 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013359 0.00000