HEADER LYASE 02-JUN-14 4UOB TITLE CRYSTAL STRUCTURE OF DEINOCOCCUS RADIODURANS ENDONUCLEASE III-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDONUCLEASE III-3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 76-338; COMPND 5 EC: 4.2.99.18; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 3 ORGANISM_TAXID: 243230; SOURCE 4 STRAIN: R1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PDEST14 KEYWDS LYASE, ENDONUCLEASE III, FES CLUSTER, BASE EXCISION REPAIR, DNA KEYWDS 2 GLYCOSYLASE, DEINOCOCCUS RADIODURANS EXPDTA X-RAY DIFFRACTION AUTHOR A.SARRE,M.OKVIST,T.KLAR,D.HALL,A.O.SMALAS,S.MCSWEENEY,J.TIMMINS, AUTHOR 2 E.MOE REVDAT 3 12-AUG-15 4UOB 1 JRNL REVDAT 2 29-JUL-15 4UOB 1 JRNL REVDAT 1 10-JUN-15 4UOB 0 JRNL AUTH A.SARRE,M.OKVIST,T.KLAR,D.R.HALL,A.O.SMALAS,S.MCSWEENEY, JRNL AUTH 2 J.TIMMINS,E.MOE JRNL TITL STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF TWO UNUSUAL JRNL TITL 2 ENDONUCLEASE III ENZYMES FROM DEINOCOCCUS RADIODURANS. JRNL REF J.STRUCT.BIOL. V. 191 87 2015 JRNL REFN ISSN 1047-8477 JRNL PMID 26172070 JRNL DOI 10.1016/J.JSB.2015.05.009 REMARK 2 REMARK 2 RESOLUTION. 1.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.932 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.99 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.18 REMARK 3 NUMBER OF REFLECTIONS : 60998 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.1348 REMARK 3 R VALUE (WORKING SET) : 0.1335 REMARK 3 FREE R VALUE : 0.1593 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 3081 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 41.9533 - 3.6699 1.00 2809 141 0.1222 0.1406 REMARK 3 2 3.6699 - 2.9131 1.00 2708 142 0.1278 0.1529 REMARK 3 3 2.9131 - 2.5449 1.00 2717 147 0.1342 0.1523 REMARK 3 4 2.5449 - 2.3123 1.00 2693 146 0.1287 0.1519 REMARK 3 5 2.3123 - 2.1466 0.95 2570 126 0.1520 0.1855 REMARK 3 6 2.1466 - 2.0200 1.00 2663 143 0.1248 0.1397 REMARK 3 7 2.0200 - 1.9188 0.98 2625 134 0.1435 0.1647 REMARK 3 8 1.9188 - 1.8353 0.96 2605 141 0.1738 0.1960 REMARK 3 9 1.8353 - 1.7647 1.00 2644 139 0.1211 0.1547 REMARK 3 10 1.7647 - 1.7038 1.00 2690 157 0.1148 0.1457 REMARK 3 11 1.7038 - 1.6505 1.00 2640 145 0.1106 0.1298 REMARK 3 12 1.6505 - 1.6033 0.99 2664 141 0.1130 0.1499 REMARK 3 13 1.6033 - 1.5611 0.99 2603 144 0.1120 0.1524 REMARK 3 14 1.5611 - 1.5230 0.99 2680 146 0.1153 0.1464 REMARK 3 15 1.5230 - 1.4884 0.99 2642 141 0.1192 0.1441 REMARK 3 16 1.4884 - 1.4567 0.99 2638 142 0.1400 0.2126 REMARK 3 17 1.4567 - 1.4276 0.99 2591 131 0.1427 0.1856 REMARK 3 18 1.4276 - 1.4006 0.99 2660 144 0.1523 0.1988 REMARK 3 19 1.4006 - 1.3756 0.98 2623 158 0.1545 0.2061 REMARK 3 20 1.3756 - 1.3523 0.97 2575 110 0.1830 0.1956 REMARK 3 21 1.3523 - 1.3305 0.96 2594 149 0.2027 0.2503 REMARK 3 22 1.3305 - 1.3100 0.87 2283 114 0.2308 0.2705 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) : 0.11 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.70 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 : 0.010 2071 REMARK 3 ANGLE : 1.257 2835 REMARK 3 CHIRALITY : 0.069 290 REMARK 3 PLANARITY : 0.007 377 REMARK 3 DIHEDRAL : 14.268 789 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4UOB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-DEC-14. REMARK 100 THE PDBE ID CODE IS EBI-60734. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07812, 1.735 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61009 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.31 REMARK 200 RESOLUTION RANGE LOW (A) : 50.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 6.8 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.40 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.2 REMARK 200 DATA REDUNDANCY IN SHELL : 1.87 REMARK 200 R MERGE FOR SHELL (I) : 0.30 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.10 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: AUTORICKSHAW REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.5 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH6.5, 1.4M AMMONIUM SULPHATE REMARK 280 AND 0.01M COBALT (II) CHLORIDE HEXAHYDRATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 45.62000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.25500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.62000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 20.25500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2124 LIES ON A SPECIAL POSITION. 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 61 REMARK 465 HIS A 62 REMARK 465 HIS A 63 REMARK 465 HIS A 64 REMARK 465 HIS A 65 REMARK 465 HIS A 66 REMARK 465 HIS A 67 REMARK 465 GLU A 68 REMARK 465 ASN A 69 REMARK 465 LEU A 70 REMARK 465 TYR A 71 REMARK 465 PHE A 72 REMARK 465 GLN A 73 REMARK 465 GLY A 74 REMARK 465 ALA A 75 REMARK 465 VAL A 76 REMARK 465 PRO A 77 REMARK 465 SER A 78 REMARK 465 ARG A 79 REMARK 465 SER A 80 REMARK 465 PRO A 81 REMARK 465 GLN A 82 REMARK 465 ALA A 83 REMARK 465 SER A 84 REMARK 465 SER A 85 REMARK 465 LYS A 86 REMARK 465 GLY A 329 REMARK 465 GLU A 330 REMARK 465 ARG A 331 REMARK 465 GLU A 332 REMARK 465 PRO A 333 REMARK 465 SER A 334 REMARK 465 GLU A 335 REMARK 465 LEU A 336 REMARK 465 GLU A 337 REMARK 465 TRP A 338 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 ARG A 140 CG CD NE CZ NH1 NH2 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 OE1B GLN A 135 O HOH A 2112 2.19 REMARK 500 OE1A GLU A 207 O HOH A 2261 2.12 REMARK 500 HZ2A LYS A 231 O HOH A 2304 1.55 REMARK 500 HH22B ARG A 242 O HOH A 2312 1.60 REMARK 500 ND2 ASN A 251 O HOH A 2320 2.18 REMARK 500 O HOH A 2082 O HOH A 2083 2.12 REMARK 500 O HOH A 2100 O HOH A 2319 2.15 REMARK 500 O HOH A 2127 O HOH A 2392 2.19 REMARK 500 O HOH A 2154 O HOH A 2155 2.18 REMARK 500 O HOH A 2168 O HOH A 2272 2.19 REMARK 500 O HOH A 2284 O HOH A 2286 2.01 REMARK 500 O HOH A 2308 O HOH A 2309 2.19 REMARK 500 O HOH A 2327 O HOH A 2328 2.03 REMARK 500 O HOH A 2328 O HOH A 2391 2.03 REMARK 500 O HOH A 2398 O HOH A 2401 2.05 REMARK 500 O HOH A 2432 O HOH A 2433 2.13 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 HE2 HIS A 192 CO CO A 1330 3545 1.28 REMARK 500 O HOH A 2053 O HOH A 2133 4545 2.14 REMARK 500 O HOH A 2056 O HOH A 2073 4556 2.15 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 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 ALA A 112 58.42 -145.96 REMARK 500 HIS A 305 65.71 62.18 REMARK 500 LEU A 307 53.11 -103.09 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 A2055 DISTANCE = 5.73 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 SF4 A1329 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 301 SG REMARK 620 2 SF4 A1329 S1 113.3 REMARK 620 3 SF4 A1329 S3 116.7 104.7 REMARK 620 4 SF4 A1329 S4 112.6 104.4 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1329 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 308 SG REMARK 620 2 SF4 A1329 S1 118.4 REMARK 620 3 SF4 A1329 S2 110.9 103.7 REMARK 620 4 SF4 A1329 S4 113.1 103.8 105.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1329 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 311 SG REMARK 620 2 SF4 A1329 S1 110.7 REMARK 620 3 SF4 A1329 S2 114.1 104.4 REMARK 620 4 SF4 A1329 S3 116.5 105.3 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1329 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 317 SG REMARK 620 2 SF4 A1329 S2 111.7 REMARK 620 3 SF4 A1329 S3 121.2 103.8 REMARK 620 4 SF4 A1329 S4 109.3 105.3 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A1330 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 327 OE2 REMARK 620 2 HOH A2404 O 87.5 REMARK 620 3 HOH A2436 O 85.5 87.8 REMARK 620 4 HIS A 305 NE2 89.9 86.0 172.4 REMARK 620 5 HIS A 197 NE2 175.9 88.9 92.5 91.7 REMARK 620 6 HIS A 192 NE2 87.7 173.9 88.1 97.8 95.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A1329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A1330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1332 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1333 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1334 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1335 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1336 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4UNF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DEINOCOCCUS RADIODURANS ENDONUCLEASE REMARK 900 III-1 REMARK 999 REMARK 999 SEQUENCE REMARK 999 OUR CLONE IS N-TERMINALLY TRUNCATED - WE DELETED THE FIRST REMARK 999 75 AMINO ACIDS AND ADDED AN N-TERMINAL HIS-TAG AND TEV REMARK 999 CLEAVAGE SITE. DBREF 4UOB A 76 338 UNP Q9RVU4 Q9RVU4_DEIRA 76 338 SEQADV 4UOB MET A 61 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 62 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 63 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 64 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 65 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 66 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB HIS A 67 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB GLU A 68 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB ASN A 69 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB LEU A 70 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB TYR A 71 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB PHE A 72 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB GLN A 73 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB GLY A 74 UNP Q9RVU4 EXPRESSION TAG SEQADV 4UOB ALA A 75 UNP Q9RVU4 EXPRESSION TAG SEQRES 1 A 278 MET HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SEQRES 2 A 278 GLY ALA VAL PRO SER ARG SER PRO GLN ALA SER SER LYS SEQRES 3 A 278 SER ARG PRO LEU SER GLU GLN ASN PRO PRO PRO VAL TRP SEQRES 4 A 278 PHE GLY GLU TYR LEU SER ARG LEU ARG ASP THR TYR ALA SEQRES 5 A 278 PRO GLU LEU PRO PRO PRO ARG GLN PHE PRO ASP PRO LEU SEQRES 6 A 278 GLY GLY LEU ILE ARG THR ILE LEU SER GLN GLN ASN THR SEQRES 7 A 278 ARG ARG VAL ALA GLN ARG GLN TRP GLU VAL LEU THR ALA SEQRES 8 A 278 THR TYR PRO GLN TRP GLU ALA ALA LEU LEU ASP GLY PRO SEQRES 9 A 278 ASP GLY ILE GLU ALA THR LEU LYS SER ALA GLY GLY GLY SEQRES 10 A 278 LEU SER ARG MET LYS ALA ASP TYR ILE TYR GLY ILE LEU SEQRES 11 A 278 ALA HIS LEU GLN GLU HIS HIS GLY GLY LEU SER LEU ARG SEQRES 12 A 278 PHE LEU ARG GLU PHE PRO HIS THR PRO GLU GLY HIS GLU SEQRES 13 A 278 GLN ALA ARG GLN ALA LEU ALA ALA LEU PRO GLY VAL GLY SEQRES 14 A 278 HIS LYS THR VAL ALA LEU VAL LEU LEU PHE ASP LEU ARG SEQRES 15 A 278 ARG PRO ALA MET PRO VAL ASP GLY ASN MET GLU ARG ALA SEQRES 16 A 278 ALA LYS ARG LEU GLU LEU VAL PRO ALA ALA TRP ASN SER SEQRES 17 A 278 HIS LYS VAL GLU ARG TRP TYR ALA GLU VAL MET PRO ALA SEQRES 18 A 278 ASP TRP GLU THR ARG PHE ALA LEU HIS ILE SER GLY VAL SEQRES 19 A 278 ARG HIS GLY ARG ASP THR CYS ARG SER LYS HIS PRO LEU SEQRES 20 A 278 CYS PRO GLN CYS PRO LEU ARG GLU PHE CYS PRO SER ALA SEQRES 21 A 278 SER ILE PHE GLU LEU GLY GLU ALA GLY GLU ARG GLU PRO SEQRES 22 A 278 SER GLU LEU GLU TRP HET SF4 A1329 8 HET CO A1330 1 HET SO4 A1331 5 HET SO4 A1332 5 HET ACT A1333 7 HET ACT A1334 7 HET ACT A1335 7 HET ACT A1336 7 HETNAM CO COBALT (II) ION HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETNAM SF4 IRON/SULFUR CLUSTER FORMUL 2 CO CO 2+ FORMUL 3 SO4 2(O4 S 2-) FORMUL 4 ACT 4(C2 H3 O2 1-) FORMUL 5 SF4 FE4 S4 FORMUL 6 HOH *442(H2 O) HELIX 1 1 PRO A 89 ASN A 94 1 6 HELIX 2 2 TRP A 99 ALA A 112 1 14 HELIX 3 3 ASP A 123 GLN A 135 1 13 HELIX 4 4 THR A 138 TYR A 153 1 16 HELIX 5 5 GLN A 155 ALA A 174 1 20 HELIX 6 6 LEU A 178 HIS A 197 1 20 HELIX 7 7 LEU A 202 PHE A 208 5 7 HELIX 8 8 THR A 211 ALA A 224 1 14 HELIX 9 9 GLY A 229 LEU A 241 1 13 HELIX 10 10 ASP A 249 LEU A 259 1 11 HELIX 11 11 ASN A 267 MET A 279 1 13 HELIX 12 12 ASP A 282 THR A 300 1 19 HELIX 13 13 LEU A 307 CYS A 311 5 5 HELIX 14 14 LEU A 313 CYS A 317 5 5 HELIX 15 15 SER A 319 ALA A 328 1 10 LINK SG CYS A 301 FE2 SF4 A1329 1555 1555 2.26 LINK SG CYS A 308 FE3 SF4 A1329 1555 1555 2.28 LINK SG CYS A 311 FE4 SF4 A1329 1555 1555 2.31 LINK SG CYS A 317 FE1 SF4 A1329 1555 1555 2.29 LINK CO CO A1330 OE2 GLU A 327 1555 1555 1.88 LINK CO CO A1330 O HOH A2404 1555 1555 2.20 LINK CO CO A1330 O HOH A2436 1555 1555 1.98 LINK CO CO A1330 NE2 HIS A 305 1555 1555 2.05 LINK CO CO A1330 NE2 HIS A 197 1555 3455 2.07 LINK CO CO A1330 NE2 HIS A 192 1555 3455 2.14 SITE 1 AC1 5 CYS A 301 CYS A 308 CYS A 311 CYS A 317 SITE 2 AC1 5 ALA A 320 SITE 1 AC2 6 HIS A 192 HIS A 197 HIS A 305 GLU A 327 SITE 2 AC2 6 HOH A2404 HOH A2436 SITE 1 AC3 8 THR A 138 ARG A 139 HOH A2116 HOH A2125 SITE 2 AC3 8 HOH A2437 HOH A2439 HOH A2440 HOH A2441 SITE 1 AC4 7 ARG A 139 ARG A 295 ARG A 298 HOH A2384 SITE 2 AC4 7 HOH A2386 HOH A2388 HOH A2442 SITE 1 AC5 5 PRO A 122 ASP A 123 GLY A 126 TRP A 156 SITE 2 AC5 5 HOH A2154 SITE 1 AC6 5 ARG A 108 PRO A 113 GLU A 114 LEU A 115 SITE 2 AC6 5 HOH A2049 SITE 1 AC7 5 TYR A 185 GLY A 227 GLY A 229 THR A 232 SITE 2 AC7 5 HOH A2297 SITE 1 AC8 4 LYS A 270 ARG A 273 HOH A2012 HOH A2354 CRYST1 91.240 40.510 72.150 90.00 102.34 90.00 C 1 2 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 0.010960 0.000000 0.002398 0.00000 SCALE2 0.000000 0.024685 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014188 0.00000