HEADER LYASE/DNA 31-MAR-25 9NZC TITLE CRYSTAL STRUCTURE OF AFNTH1:TG-DNA DUPLEX COMPLEX IN A PRE- TITLE 2 INTERMEDIATE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDONUCLEASE III; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE; COMPND 5 EC: 4.2.99.18; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*TP*TP*GP*GP*CP*GP*TP*AP*TP*CP*GP*CP*G)-3'); COMPND 9 CHAIN: B, E; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(*AP*CP*GP*CP*GP*AP*(CTG)P*AP*CP*GP*CP*CP*A)-3'); COMPND 13 CHAIN: C, F; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 2234; SOURCE 4 GENE: NTH, AF_1692; 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: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS DNA-GLYCOSYLASE, AP-LYASE, LYASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.SYED,A.S.ARVAI,C.L.TSAI,J.A.TAINER REVDAT 1 15-APR-26 9NZC 0 JRNL AUTH A.SYED,A.S.ARVAI,C.L.TSAI,J.A.TAINER JRNL TITL CRYSTAL STRUCTURE OF AFNTH1:TG-DNA DUPLEX COMPLEX IN A JRNL TITL 2 PRE-INTERMEDIATE STATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.21_5207: ???) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.050 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 8586 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 431 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 35.2900 - 5.0500 0.98 2990 159 0.1952 0.2380 REMARK 3 2 5.0400 - 4.0100 0.96 2768 148 0.3061 0.3384 REMARK 3 3 4.0100 - 3.5000 0.84 2397 124 0.3670 0.4500 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.60 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.660 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 41.550 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 : 0.002 4528 REMARK 3 ANGLE : 0.711 6356 REMARK 3 CHIRALITY : 0.081 723 REMARK 3 PLANARITY : 0.015 627 REMARK 3 DIHEDRAL : 19.209 1840 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 9NZC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-APR-25. REMARK 100 THE DEPOSITION ID IS D_1000292515. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-24 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 : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9283 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 37.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.93600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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 (%): 54.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-30% PEG8000, 100 MM REMARK 280 IMIDAZOLE/MALONATE, PH 4.5-5.5, 5 MM DTT, 10% GLYCEROL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 59.79350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.66450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.66450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 29.89675 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.66450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.66450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 89.69025 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.66450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.66450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 29.89675 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.66450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.66450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 89.69025 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.79350 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 4060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, 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 MET A 1 REMARK 465 VAL A 208 REMARK 465 LYS A 209 REMARK 465 MET D 1 REMARK 465 VAL D 208 REMARK 465 LYS D 209 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 24 CD1 CD2 REMARK 470 ARG A 45 CD NE CZ NH1 NH2 REMARK 470 LYS A 62 CD CE NZ REMARK 470 LEU A 67 CD1 CD2 REMARK 470 LEU A 194 CG CD1 CD2 REMARK 470 ILE A 200 CD1 REMARK 470 LYS D 59 CG CD CE NZ REMARK 470 LEU D 67 CD1 REMARK 470 LEU D 194 CG CD1 CD2 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 C 319 O3' - P - OP2 ANGL. DEV. = -21.2 DEGREES REMARK 500 DG C 319 O3' - P - OP1 ANGL. DEV. = -23.7 DEGREES REMARK 500 DG C 319 OP1 - P - OP2 ANGL. DEV. = 10.7 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 LYS A 18 71.56 60.77 REMARK 500 LYS A 29 -78.99 -100.98 REMARK 500 ASP A 139 -155.24 -108.43 REMARK 500 THR A 186 -50.80 -128.85 REMARK 500 VAL A 187 -59.05 -126.76 REMARK 500 CYS A 203 64.18 66.30 REMARK 500 LYS D 18 72.70 58.01 REMARK 500 LYS D 29 -73.55 -106.77 REMARK 500 ASP D 139 -154.62 -108.44 REMARK 500 THR D 186 -50.96 -128.37 REMARK 500 VAL D 187 -59.37 -126.92 REMARK 500 LEU D 194 73.32 54.63 REMARK 500 CYS D 203 106.55 65.80 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 SF4 A 300 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 188 SG REMARK 620 2 SF4 A 300 S1 113.2 REMARK 620 3 SF4 A 300 S2 123.9 104.0 REMARK 620 4 SF4 A 300 S4 105.5 104.1 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 300 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 SF4 A 300 S2 119.2 REMARK 620 3 SF4 A 300 S3 111.9 104.1 REMARK 620 4 SF4 A 300 S4 112.0 104.2 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 300 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 198 SG REMARK 620 2 SF4 A 300 S1 116.8 REMARK 620 3 SF4 A 300 S2 124.2 104.0 REMARK 620 4 SF4 A 300 S3 101.2 104.2 104.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 300 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 203 SG REMARK 620 2 SF4 A 300 S1 125.0 REMARK 620 3 SF4 A 300 S3 76.9 104.1 REMARK 620 4 SF4 A 300 S4 129.4 104.1 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 D 300 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 188 SG REMARK 620 2 SF4 D 300 S1 124.5 REMARK 620 3 SF4 D 300 S2 103.1 104.1 REMARK 620 4 SF4 D 300 S4 114.8 104.1 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 D 300 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 195 SG REMARK 620 2 SF4 D 300 S2 118.3 REMARK 620 3 SF4 D 300 S3 103.1 104.1 REMARK 620 4 SF4 D 300 S4 121.1 104.0 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 D 300 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 198 SG REMARK 620 2 SF4 D 300 S1 127.6 REMARK 620 3 SF4 D 300 S2 110.4 104.1 REMARK 620 4 SF4 D 300 S3 104.3 104.1 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 D 300 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 203 SG REMARK 620 2 SF4 D 300 S1 125.2 REMARK 620 3 SF4 D 300 S3 100.6 104.1 REMARK 620 4 SF4 D 300 S4 116.2 104.1 104.1 REMARK 620 N 1 2 3 DBREF 9NZC A 1 209 UNP O28581 O28581_ARCFU 1 209 DBREF 9NZC B 301 313 PDB 9NZC 9NZC 301 313 DBREF 9NZC C 315 327 PDB 9NZC 9NZC 315 327 DBREF 9NZC D 1 209 UNP O28581 O28581_ARCFU 1 209 DBREF 9NZC E 301 313 PDB 9NZC 9NZC 301 313 DBREF 9NZC F 315 327 PDB 9NZC 9NZC 315 327 SEQRES 1 A 209 MET ASP PRO ILE GLU VAL ILE GLU VAL MET GLU ARG GLU SEQRES 2 A 209 ALA ILE LYS ARG LYS ALA PRO VAL TYR HIS LEU LYS ALA SEQRES 3 A 209 GLU ILE LYS THR PRO PHE GLN HIS LEU VAL ALA ALA LEU SEQRES 4 A 209 LEU SER SER ARG THR ARG ASP GLU ALA THR VAL ARG ALA SEQRES 5 A 209 ALA GLN ASN LEU PHE ALA LYS VAL LYS LYS PRO GLU ASP SEQRES 6 A 209 LEU LEU LYS LEU SER GLU GLU GLU ILE ALA GLU LEU ILE SEQRES 7 A 209 LYS GLY VAL GLY PHE TYR ARG VAL LYS ALA LYS ARG LEU SEQRES 8 A 209 LYS GLU LEU ALA LYS LYS LEU VAL GLU ASP TYR SER SER SEQRES 9 A 209 GLU VAL PRO LEU SER PHE GLU GLU LEU VAL LYS LEU PRO SEQRES 10 A 209 GLY ILE GLY ARG LYS SER ALA ASN VAL VAL LEU ALA TYR SEQRES 11 A 209 SER ASP ILE PRO ALA ILE PRO VAL ASP THR HIS VAL HIS SEQRES 12 A 209 ARG ILE ALA ASN ARG LEU GLY TRP ALA ARG THR THR LYS SEQRES 13 A 209 PRO GLU GLU THR GLU GLU VAL LEU LYS ARG LEU PHE PRO SEQRES 14 A 209 LEU GLU PHE TRP GLU LYS VAL ASN ARG ALA MET VAL GLY SEQRES 15 A 209 PHE GLY GLN THR VAL CYS LYS PRO GLN LYS PRO LEU CYS SEQRES 16 A 209 ASP GLU CYS PRO ILE LYS GLY CYS PRO ARG VAL GLY VAL SEQRES 17 A 209 LYS SEQRES 1 B 13 DT DT DG DG DC DG DT DA DT DC DG DC DG SEQRES 1 C 13 DA DC DG DC DG DA CTG DA DC DG DC DC DA SEQRES 1 D 209 MET ASP PRO ILE GLU VAL ILE GLU VAL MET GLU ARG GLU SEQRES 2 D 209 ALA ILE LYS ARG LYS ALA PRO VAL TYR HIS LEU LYS ALA SEQRES 3 D 209 GLU ILE LYS THR PRO PHE GLN HIS LEU VAL ALA ALA LEU SEQRES 4 D 209 LEU SER SER ARG THR ARG ASP GLU ALA THR VAL ARG ALA SEQRES 5 D 209 ALA GLN ASN LEU PHE ALA LYS VAL LYS LYS PRO GLU ASP SEQRES 6 D 209 LEU LEU LYS LEU SER GLU GLU GLU ILE ALA GLU LEU ILE SEQRES 7 D 209 LYS GLY VAL GLY PHE TYR ARG VAL LYS ALA LYS ARG LEU SEQRES 8 D 209 LYS GLU LEU ALA LYS LYS LEU VAL GLU ASP TYR SER SER SEQRES 9 D 209 GLU VAL PRO LEU SER PHE GLU GLU LEU VAL LYS LEU PRO SEQRES 10 D 209 GLY ILE GLY ARG LYS SER ALA ASN VAL VAL LEU ALA TYR SEQRES 11 D 209 SER ASP ILE PRO ALA ILE PRO VAL ASP THR HIS VAL HIS SEQRES 12 D 209 ARG ILE ALA ASN ARG LEU GLY TRP ALA ARG THR THR LYS SEQRES 13 D 209 PRO GLU GLU THR GLU GLU VAL LEU LYS ARG LEU PHE PRO SEQRES 14 D 209 LEU GLU PHE TRP GLU LYS VAL ASN ARG ALA MET VAL GLY SEQRES 15 D 209 PHE GLY GLN THR VAL CYS LYS PRO GLN LYS PRO LEU CYS SEQRES 16 D 209 ASP GLU CYS PRO ILE LYS GLY CYS PRO ARG VAL GLY VAL SEQRES 17 D 209 LYS SEQRES 1 E 13 DT DT DG DG DC DG DT DA DT DC DG DC DG SEQRES 1 F 13 DA DC DG DC DG DA CTG DA DC DG DC DC DA HET CTG C 321 22 HET CTG F 321 22 HET SF4 A 300 8 HET SF4 D 300 8 HETNAM CTG (5R,6S)-5,6-DIHYDRO-5,6-DIHYDROXYTHYMIDINE-5'- HETNAM 2 CTG MONOPHOSPHATE HETNAM SF4 IRON/SULFUR CLUSTER FORMUL 3 CTG 2(C10 H17 N2 O10 P) FORMUL 7 SF4 2(FE4 S4) HELIX 1 AA1 ASP A 2 ARG A 17 1 16 HELIX 2 AA2 ALA A 19 LEU A 24 1 6 HELIX 3 AA3 THR A 30 SER A 41 1 12 HELIX 4 AA4 ARG A 45 ALA A 58 1 14 HELIX 5 AA5 PRO A 63 LYS A 68 1 6 HELIX 6 AA6 SER A 70 ILE A 78 1 9 HELIX 7 AA7 LYS A 79 GLY A 82 5 4 HELIX 8 AA8 PHE A 83 TYR A 102 1 20 HELIX 9 AA9 SER A 109 LYS A 115 1 7 HELIX 10 AB1 GLY A 120 SER A 131 1 12 HELIX 11 AB2 HIS A 141 GLY A 150 1 10 HELIX 12 AB3 GLU A 159 LEU A 167 1 9 HELIX 13 AB4 PRO A 169 GLU A 171 5 3 HELIX 14 AB5 PHE A 172 GLN A 185 1 14 HELIX 15 AB6 PRO D 3 ARG D 17 1 15 HELIX 16 AB7 ALA D 19 LEU D 24 1 6 HELIX 17 AB8 THR D 30 SER D 41 1 12 HELIX 18 AB9 ARG D 45 ALA D 58 1 14 HELIX 19 AC1 PRO D 63 LYS D 68 1 6 HELIX 20 AC2 SER D 70 ILE D 78 1 9 HELIX 21 AC3 LYS D 79 GLY D 82 5 4 HELIX 22 AC4 PHE D 83 TYR D 102 1 20 HELIX 23 AC5 SER D 109 LYS D 115 1 7 HELIX 24 AC6 GLY D 120 SER D 131 1 12 HELIX 25 AC7 HIS D 141 GLY D 150 1 10 HELIX 26 AC8 LYS D 156 LEU D 167 1 12 HELIX 27 AC9 PRO D 169 GLU D 171 5 3 HELIX 28 AD1 PHE D 172 GLN D 185 1 14 LINK O3' DA C 320 P CTG C 321 1555 1555 1.61 LINK O3' CTG C 321 P DA C 322 1555 1555 1.61 LINK O3' DA F 320 P CTG F 321 1555 1555 1.61 LINK O3' CTG F 321 P DA F 322 1555 1555 1.61 LINK SG CYS A 188 FE3 SF4 A 300 1555 1555 2.27 LINK SG CYS A 195 FE1 SF4 A 300 1555 1555 2.27 LINK SG CYS A 198 FE4 SF4 A 300 1555 1555 2.28 LINK SG CYS A 203 FE2 SF4 A 300 1555 1555 2.27 LINK SG CYS D 188 FE3 SF4 D 300 1555 1555 2.28 LINK SG CYS D 195 FE1 SF4 D 300 1555 1555 2.27 LINK SG CYS D 198 FE4 SF4 D 300 1555 1555 2.27 LINK SG CYS D 203 FE2 SF4 D 300 1555 1555 2.27 CRYST1 107.329 107.329 119.587 90.00 90.00 90.00 P 41 21 2 16 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 0.009317 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009317 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008362 0.00000 CONECT 1487 4323 CONECT 1539 4321 CONECT 1562 4324 CONECT 1595 4322 CONECT 2000 2013 CONECT 2013 2000 2014 2015 2016 CONECT 2014 2013 CONECT 2015 2013 CONECT 2016 2013 2017 CONECT 2017 2016 2018 CONECT 2018 2017 2019 2033 CONECT 2019 2018 2020 CONECT 2020 2019 2021 2032 CONECT 2021 2020 2022 2024 CONECT 2022 2021 2023 2029 CONECT 2023 2022 CONECT 2024 2021 2025 2026 CONECT 2025 2024 CONECT 2026 2024 2027 CONECT 2027 2026 2028 2029 CONECT 2028 2027 CONECT 2029 2022 2027 2030 2031 CONECT 2030 2029 CONECT 2031 2029 CONECT 2032 2020 2033 CONECT 2033 2018 2032 2034 CONECT 2034 2033 2035 CONECT 2035 2034 CONECT 3650 4331 CONECT 3702 4329 CONECT 3725 4332 CONECT 3759 4330 CONECT 4164 4177 CONECT 4177 4164 4178 4179 4180 CONECT 4178 4177 CONECT 4179 4177 CONECT 4180 4177 4181 CONECT 4181 4180 4182 CONECT 4182 4181 4183 4197 CONECT 4183 4182 4184 CONECT 4184 4183 4185 4196 CONECT 4185 4184 4186 4188 CONECT 4186 4185 4187 4193 CONECT 4187 4186 CONECT 4188 4185 4189 4190 CONECT 4189 4188 CONECT 4190 4188 4191 CONECT 4191 4190 4192 4193 CONECT 4192 4191 CONECT 4193 4186 4191 4194 4195 CONECT 4194 4193 CONECT 4195 4193 CONECT 4196 4184 4197 CONECT 4197 4182 4196 4198 CONECT 4198 4197 4199 CONECT 4199 4198 CONECT 4321 1539 4326 4327 4328 CONECT 4322 1595 4325 4327 4328 CONECT 4323 1487 4325 4326 4328 CONECT 4324 1562 4325 4326 4327 CONECT 4325 4322 4323 4324 CONECT 4326 4321 4323 4324 CONECT 4327 4321 4322 4324 CONECT 4328 4321 4322 4323 CONECT 4329 3702 4334 4335 4336 CONECT 4330 3759 4333 4335 4336 CONECT 4331 3650 4333 4334 4336 CONECT 4332 3725 4333 4334 4335 CONECT 4333 4330 4331 4332 CONECT 4334 4329 4331 4332 CONECT 4335 4329 4330 4332 CONECT 4336 4329 4330 4331 MASTER 378 0 4 28 0 0 0 6 4330 6 72 38 END