HEADER HYDROLASE/DNA 02-AUG-23 8KA3 TITLE ARABIDOPSIS AP ENDONUCLEASE ARP COMPLEX WITH 22BP THF-CONTAINING DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-(APURINIC OR APYRIMIDINIC SITE) ENDONUCLEASE, COMPND 3 CHLOROPLASTIC; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: APURINIC ENDONUCLEASE-REDOX PROTEIN; COMPND 6 EC: 3.1.11.2; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (43-MER); COMPND 10 CHAIN: D, C, F; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: ARP, REF, AT2G41460, T26J13.5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630 KEYWDS AP, ABASIC SITE, ENDONUCLEASE, ARABIDOPSIS, HYDROLASE/DNA, HYDROLASE- KEYWDS 2 DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.T.GUO,B.X.WU REVDAT 4 19-JUN-24 8KA3 1 JRNL REVDAT 3 03-APR-24 8KA3 1 JRNL REVDAT 2 27-MAR-24 8KA3 1 TITLE JRNL REVDAT 1 21-FEB-24 8KA3 0 JRNL AUTH W.GUO,W.WU,Y.WEN,Y.GAO,S.ZHUANG,C.MENG,H.CHEN,Z.ZHAO,K.HU, JRNL AUTH 2 B.WU JRNL TITL STRUCTURAL INSIGHTS INTO THE CATALYTIC MECHANISM OF THE AP JRNL TITL 2 ENDONUCLEASE ATARP. JRNL REF STRUCTURE V. 32 780 2024 JRNL REFN ISSN 0969-2126 JRNL PMID 38503293 JRNL DOI 10.1016/J.STR.2024.02.014 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 8687 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.245 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.302 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 439 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 29.7000 - 4.3200 0.99 2951 118 0.2028 0.2707 REMARK 3 2 4.3200 - 3.4500 0.88 2485 157 0.2668 0.3208 REMARK 3 3 3.4200 - 3.0000 1.00 2812 164 0.3391 0.3369 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.374 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.619 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 74.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 89.72 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 3308 REMARK 3 ANGLE : 0.533 4681 REMARK 3 CHIRALITY : 0.038 519 REMARK 3 PLANARITY : 0.003 449 REMARK 3 DIHEDRAL : 30.175 743 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -34.5354 12.7758 20.7378 REMARK 3 T TENSOR REMARK 3 T11: 0.8632 T22: 0.4831 REMARK 3 T33: 0.5480 T12: -0.0312 REMARK 3 T13: -0.1892 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 2.5336 L22: 1.6969 REMARK 3 L33: 3.6437 L12: 0.2508 REMARK 3 L13: -0.6422 L23: -0.4308 REMARK 3 S TENSOR REMARK 3 S11: 0.0810 S12: -0.4011 S13: -0.2174 REMARK 3 S21: 0.2542 S22: -0.1379 S23: 0.2627 REMARK 3 S31: 0.0336 S32: -0.1447 S33: 0.0489 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 8KA3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 11-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1300039936. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-22 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 : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8713 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.13700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.18200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 20.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% (W/V) PEG 1500, 0.1M PCB/SODIUM REMARK 280 HYDROXIDE PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 68.36550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.14750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.36550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.14750 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, C, F 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 GLN A 240 REMARK 465 LEU A 366 REMARK 465 SER A 367 REMARK 465 GLY A 368 REMARK 465 HIS A 369 REMARK 465 ASP A 370 REMARK 465 DG D 2 REMARK 465 DC D 3 REMARK 465 DT D 4 REMARK 465 DG D 5 REMARK 465 DA D 6 REMARK 465 DT D 7 REMARK 465 DG D 8 REMARK 465 DC D 9 REMARK 465 DG D 10 REMARK 465 DC D 11 REMARK 465 DC D 23 REMARK 465 DG D 24 REMARK 465 DG D 25 REMARK 465 DA D 26 REMARK 465 DT D 27 REMARK 465 DC D 28 REMARK 465 DC D 29 REMARK 465 DG D 30 REMARK 465 DT D 31 REMARK 465 DC D 32 REMARK 465 DG D 33 REMARK 465 DG D 34 REMARK 465 DG D 35 REMARK 465 DC D 36 REMARK 465 DG D 37 REMARK 465 DC D 38 REMARK 465 DA D 39 REMARK 465 DT D 40 REMARK 465 DC D 41 REMARK 465 DA D 42 REMARK 465 DG D 43 REMARK 465 DC D 44 REMARK 465 DC C 11 REMARK 465 DG C 12 REMARK 465 DA C 13 REMARK 465 DC C 14 REMARK 465 DG C 15 REMARK 465 DG C 16 REMARK 465 DA C 17 REMARK 465 DT C 18 REMARK 465 DC C 19 REMARK 465 DC C 20 REMARK 465 DG C 21 REMARK 465 DC C 22 REMARK 465 DG C 23 REMARK 465 DG C 24 REMARK 465 DA C 25 REMARK 465 DT C 26 REMARK 465 DC C 27 REMARK 465 DC C 28 REMARK 465 DG C 29 REMARK 465 DT C 30 REMARK 465 DC C 31 REMARK 465 DG C 32 REMARK 465 DG C 33 REMARK 465 DG C 34 REMARK 465 DC C 35 REMARK 465 DG C 36 REMARK 465 DC C 37 REMARK 465 DA C 38 REMARK 465 DT C 39 REMARK 465 DC C 40 REMARK 465 DA C 41 REMARK 465 DG C 42 REMARK 465 DC C 43 REMARK 465 DG F -20 REMARK 465 DC F -19 REMARK 465 DT F -18 REMARK 465 DG F -17 REMARK 465 DA F -16 REMARK 465 DT F -15 REMARK 465 DG F -14 REMARK 465 DC F -13 REMARK 465 DG F -12 REMARK 465 DC F -11 REMARK 465 DC F -10 REMARK 465 DG F -9 REMARK 465 DA F -8 REMARK 465 DC F -7 REMARK 465 DG F -6 REMARK 465 DG F -5 REMARK 465 DA F -4 REMARK 465 DT F -3 REMARK 465 DC F -2 REMARK 465 DC F -1 REMARK 465 DG F 0 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 LYS A 251 CG CD CE NZ REMARK 470 LYS A 254 CG CD CE NZ REMARK 470 LYS A 257 CG CD CE NZ REMARK 470 GLU A 271 CG CD OE1 OE2 REMARK 470 LYS A 274 CG CD CE NZ REMARK 470 LYS A 343 CG CD CE NZ REMARK 470 LYS A 356 CG CD CE NZ REMARK 470 ARG A 361 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 395 CG OD1 OD2 REMARK 470 LYS A 398 CG CD CE NZ REMARK 470 GLU A 406 CG CD OE1 OE2 REMARK 470 ARG A 409 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 447 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 466 CG CD CE NZ REMARK 470 LYS A 474 CG CD CE NZ REMARK 470 LYS A 493 CG CD CE NZ REMARK 470 LYS A 496 CG CD CE NZ REMARK 470 LYS A 535 CG CD CE NZ REMARK 470 DC F 1 P OP1 OP2 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 DG F 8 O4' - C1' - N9 ANGL. DEV. = 1.9 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 PHE A 295 33.58 -97.30 REMARK 500 SER A 342 -71.21 -70.03 REMARK 500 SER A 347 -142.97 58.79 REMARK 500 SER A 382 -1.93 -142.55 REMARK 500 GLU A 406 -56.29 -120.68 REMARK 500 LEU A 463 -72.68 -118.16 REMARK 500 ASN A 495 19.76 59.97 REMARK 500 LEU A 519 79.24 -117.07 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 NI A 601 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 313 OE1 REMARK 620 2 GLU A 313 OE2 49.5 REMARK 620 3 3DR D 101 OP1 70.4 119.4 REMARK 620 4 HOH D 201 O 67.3 84.4 79.7 REMARK 620 N 1 2 3 DBREF 8KA3 A 240 536 UNP P45951 ARP_ARATH 240 536 DBREF 8KA3 D 2 44 PDB 8KA3 8KA3 2 44 DBREF 8KA3 C 1 43 PDB 8KA3 8KA3 1 43 DBREF 8KA3 F -20 22 PDB 8KA3 8KA3 -20 22 SEQRES 1 A 297 GLN SER GLU PRO TRP THR VAL LEU ALA HIS LYS LYS PRO SEQRES 2 A 297 GLN LYS ASP TRP LYS ALA TYR ASN PRO LYS THR MET ARG SEQRES 3 A 297 PRO PRO PRO LEU PRO GLU GLY THR LYS CYS VAL LYS VAL SEQRES 4 A 297 MET THR TRP ASN VAL ASN GLY LEU ARG GLY LEU LEU LYS SEQRES 5 A 297 PHE GLU SER PHE SER ALA LEU GLN LEU ALA GLN ARG GLU SEQRES 6 A 297 ASN PHE ASP ILE LEU CYS LEU GLN GLU THR LYS LEU GLN SEQRES 7 A 297 VAL LYS ASP VAL GLU GLU ILE LYS LYS THR LEU ILE ASP SEQRES 8 A 297 GLY TYR ASP HIS SER PHE TRP SER CYS SER VAL SER LYS SEQRES 9 A 297 LEU GLY TYR SER GLY THR ALA ILE ILE SER ARG ILE LYS SEQRES 10 A 297 PRO LEU SER VAL ARG TYR GLY THR GLY LEU SER GLY HIS SEQRES 11 A 297 ASP THR GLU GLY ARG ILE VAL THR ALA GLU PHE ASP SER SEQRES 12 A 297 PHE TYR LEU ILE ASN THR TYR VAL PRO ASN SER GLY ASP SEQRES 13 A 297 GLY LEU LYS ARG LEU SER TYR ARG ILE GLU GLU TRP ASP SEQRES 14 A 297 ARG THR LEU SER ASN HIS ILE LYS GLU LEU GLU LYS SER SEQRES 15 A 297 LYS PRO VAL VAL LEU THR GLY ASP LEU ASN CYS ALA HIS SEQRES 16 A 297 GLU GLU ILE ASP ILE PHE ASN PRO ALA GLY ASN LYS ARG SEQRES 17 A 297 SER ALA GLY PHE THR ILE GLU GLU ARG GLN SER PHE GLY SEQRES 18 A 297 ALA ASN LEU LEU ASP LYS GLY PHE VAL ASP THR PHE ARG SEQRES 19 A 297 LYS GLN HIS PRO GLY VAL VAL GLY TYR THR TYR TRP GLY SEQRES 20 A 297 TYR ARG HIS GLY GLY ARG LYS THR ASN LYS GLY TRP ARG SEQRES 21 A 297 LEU ASP TYR PHE LEU VAL SER GLN SER ILE ALA ALA ASN SEQRES 22 A 297 VAL HIS ASP SER TYR ILE LEU PRO ASP ILE ASN GLY SER SEQRES 23 A 297 ASP HIS CYS PRO ILE GLY LEU ILE LEU LYS LEU SEQRES 1 D 43 DG DC DT DG DA DT DG DC DG DC DC DG DA SEQRES 2 D 43 DC DG DG DA DT DC DC DG DC DG DG DA DT SEQRES 3 D 43 DC DC DG DT DC DG DG DG DC DG DC DA DT SEQRES 4 D 43 DC DA DG DC SEQRES 1 C 43 DG DC DT DG DA DT DG DC DG DC DC DG DA SEQRES 2 C 43 DC DG DG DA DT DC DC DG DC DG DG DA DT SEQRES 3 C 43 DC DC DG DT DC DG DG DG DC DG DC DA DT SEQRES 4 C 43 DC DA DG DC SEQRES 1 F 43 DG DC DT DG DA DT DG DC DG DC DC DG DA SEQRES 2 F 43 DC DG DG DA DT DC DC DG DC DG DG DA DT SEQRES 3 F 43 DC DC DG DT DC DG DG DG DC DG DC DA DT SEQRES 4 F 43 DC DA DG DC HET NI A 601 1 HET 3DR D 101 12 HETNAM NI NICKEL (II) ION HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETSYN 3DR ABASIC DIDEOXYRIBOSE FORMUL 5 NI NI 2+ FORMUL 6 3DR C5 H11 O6 P FORMUL 7 HOH *3(H2 O) HELIX 1 AA1 GLU A 242 VAL A 246 5 5 HELIX 2 AA2 GLY A 285 GLU A 293 1 9 HELIX 3 AA3 ALA A 297 GLU A 304 1 8 HELIX 4 AA4 GLN A 317 LYS A 319 5 3 HELIX 5 AA5 ASP A 320 LEU A 328 1 9 HELIX 6 AA6 ARG A 399 GLU A 406 1 8 HELIX 7 AA7 GLU A 406 LYS A 420 1 15 HELIX 8 AA8 GLU A 435 ILE A 439 5 5 HELIX 9 AA9 PRO A 442 LYS A 446 5 5 HELIX 10 AB1 THR A 452 ASN A 462 1 11 HELIX 11 AB2 LEU A 463 LYS A 466 5 4 HELIX 12 AB3 THR A 471 HIS A 476 1 6 HELIX 13 AB4 GLY A 486 HIS A 489 5 4 HELIX 14 AB5 GLY A 490 ASN A 495 1 6 SHEET 1 AA1 2 LYS A 257 ALA A 258 0 SHEET 2 AA1 2 VAL A 479 VAL A 480 1 O VAL A 480 N LYS A 257 SHEET 1 AA2 6 HIS A 334 SER A 338 0 SHEET 2 AA2 6 THR A 349 SER A 353 -1 O SER A 353 N HIS A 334 SHEET 3 AA2 6 ILE A 308 GLN A 312 -1 N LEU A 309 O ILE A 352 SHEET 4 AA2 6 CYS A 275 ASN A 282 1 N MET A 279 O CYS A 310 SHEET 5 AA2 6 ILE A 530 LYS A 535 -1 O ILE A 530 N THR A 280 SHEET 6 AA2 6 VAL A 513 ILE A 518 -1 N HIS A 514 O ILE A 533 SHEET 1 AA3 6 SER A 359 TYR A 362 0 SHEET 2 AA3 6 ILE A 375 GLU A 379 -1 O GLU A 379 N SER A 359 SHEET 3 AA3 6 TYR A 384 TYR A 389 -1 O ASN A 387 N VAL A 376 SHEET 4 AA3 6 VAL A 424 ASP A 429 1 O THR A 427 N ILE A 386 SHEET 5 AA3 6 ASP A 501 SER A 506 -1 O LEU A 504 N LEU A 426 SHEET 6 AA3 6 PHE A 468 ASP A 470 -1 N VAL A 469 O VAL A 505 LINK P DC D 12 O3' 3DR D 101 1555 1555 1.61 LINK OE1 GLU A 313 NI NI A 601 1555 1555 2.72 LINK OE2 GLU A 313 NI NI A 601 1555 1555 2.50 LINK NI NI A 601 OP1 3DR D 101 1555 1555 1.93 LINK NI NI A 601 O HOH D 201 1555 1555 2.07 CRYST1 136.731 52.295 71.095 90.00 117.03 90.00 C 1 2 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007314 0.000000 0.003731 0.00000 SCALE2 0.000000 0.019122 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015791 0.00000