HEADER LYASE/DNA 31-MAR-25 9NZD TITLE CRYSTAL STRUCTURE OF AFNTH1-K122A MUTANT BOUND TO TG-DNA DUPLEX TITLE 2 COMPLEX IN AN 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 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*TP*TP*GP*GP*CP*GP*TP*AP*TP*CP*GP*CP*G)-3'); COMPND 10 CHAIN: B, E; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*AP*CP*GP*CP*GP*AP*(CTG)P*AP*CP*GP*CP*CP*A)-3'); COMPND 14 CHAIN: C, F; COMPND 15 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, HYDROLASE, LYASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.HITOMI,A.S.ARVAI,A.SYED,S.PARIKH,J.A.TAINER REVDAT 1 15-APR-26 9NZD 0 JRNL AUTH K.HITOMI,A.SYED,A.S.ARVAI,S.PARIKH,J.A.TAINER JRNL TITL CRYSTAL STRUCTURE OF AFNTH1-K122A MUTANT BOUND TO TG-DNA JRNL TITL 2 DUPLEX COMPLEX IN AN INTERMEDIATE STATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.10 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.030 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 3 NUMBER OF REFLECTIONS : 12018 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 616 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 38.9800 - 4.9200 0.99 3216 175 0.1744 0.2302 REMARK 3 2 4.9200 - 3.9100 0.96 2982 169 0.2335 0.2746 REMARK 3 3 3.9100 - 3.4100 0.92 2829 149 0.2724 0.3259 REMARK 3 4 3.4100 - 3.1000 0.78 2375 123 0.3157 0.3814 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 1.10 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.830 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 : 0.004 4525 REMARK 3 ANGLE : 0.708 6355 REMARK 3 CHIRALITY : 0.043 726 REMARK 3 PLANARITY : 0.018 626 REMARK 3 DIHEDRAL : 21.741 1835 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 9NZD 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_1000292517. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-04 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 : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13134 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 38.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 1.30600 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 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 298K 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 56.43650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.12350 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.12350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.21825 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.12350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.12350 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 84.65475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.12350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.12350 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.21825 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.12350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.12350 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 84.65475 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 56.43650 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: 4590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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: 4420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 GLU A 5 CG CD OE1 OE2 REMARK 470 ILE A 28 CD1 REMARK 470 LYS D 59 CG CD CE NZ REMARK 470 LEU D 67 CD1 CD2 REMARK 470 LEU D 194 CG CD1 CD2 REMARK 470 ARG D 205 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 O LEU A 116 O HOH A 401 2.17 REMARK 500 OG1 THR A 154 OG1 THR A 160 2.17 REMARK 500 OH TYR A 102 OE1 GLU A 112 2.18 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 DC B 312 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT E 309 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC E 310 O4' - C1' - N1 ANGL. DEV. = 2.1 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 ALA A 26 -158.00 -80.19 REMARK 500 GLU A 27 54.82 -91.06 REMARK 500 LYS A 29 -79.34 -112.37 REMARK 500 TYR A 102 19.43 -140.64 REMARK 500 ASP A 139 -161.09 -102.10 REMARK 500 GLU A 171 11.48 -67.16 REMARK 500 GLU A 174 4.52 -66.12 REMARK 500 THR A 186 -63.79 -138.38 REMARK 500 GLN A 191 -70.86 -90.95 REMARK 500 PRO A 199 -154.26 -56.69 REMARK 500 CYS A 203 71.88 -111.77 REMARK 500 LEU D 24 57.08 -92.05 REMARK 500 ALA D 26 -160.74 -79.63 REMARK 500 GLU D 27 56.17 -92.20 REMARK 500 LYS D 29 -77.56 -111.57 REMARK 500 ASP D 139 -160.36 -100.54 REMARK 500 GLU D 171 13.35 -68.24 REMARK 500 GLU D 174 6.71 -66.59 REMARK 500 THR D 186 -65.43 -137.51 REMARK 500 GLN D 191 -74.10 -85.32 REMARK 500 CYS D 203 71.95 59.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO A 199 ILE A 200 -135.89 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 118.6 REMARK 620 3 SF4 A 300 S2 116.6 103.9 REMARK 620 4 SF4 A 300 S4 107.6 104.2 104.3 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 111.8 REMARK 620 3 SF4 A 300 S3 113.0 104.1 REMARK 620 4 SF4 A 300 S4 118.2 104.2 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 300 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 198 SG REMARK 620 2 SF4 A 300 S1 132.3 REMARK 620 3 SF4 A 300 S2 108.0 103.9 REMARK 620 4 SF4 A 300 S3 101.2 104.2 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 300 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 203 SG REMARK 620 2 SF4 A 300 S1 92.8 REMARK 620 3 SF4 A 300 S3 97.5 104.2 REMARK 620 4 SF4 A 300 S4 147.9 104.2 104.3 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 121.4 REMARK 620 3 SF4 D 300 S2 110.2 104.1 REMARK 620 4 SF4 D 300 S4 111.2 104.2 104.3 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 110.3 REMARK 620 3 SF4 D 300 S3 112.5 104.2 REMARK 620 4 SF4 D 300 S4 120.3 104.1 104.0 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 123.8 REMARK 620 3 SF4 D 300 S2 100.0 104.0 REMARK 620 4 SF4 D 300 S3 117.9 104.1 104.3 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 104.6 REMARK 620 3 SF4 D 300 S3 110.4 104.1 REMARK 620 4 SF4 D 300 S4 127.4 104.2 104.0 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9NZC RELATED DB: PDB DBREF 9NZD A 1 209 UNP O28581 O28581_ARCFU 1 209 DBREF 9NZD B 301 313 PDB 9NZD 9NZD 301 313 DBREF 9NZD C 315 327 PDB 9NZD 9NZD 315 327 DBREF 9NZD D 1 209 UNP O28581 O28581_ARCFU 1 209 DBREF 9NZD E 301 313 PDB 9NZD 9NZD 301 313 DBREF 9NZD F 315 327 PDB 9NZD 9NZD 315 327 SEQADV 9NZD ALA A 122 UNP O28581 LYS 122 ENGINEERED MUTATION SEQADV 9NZD ALA D 122 UNP O28581 LYS 122 ENGINEERED MUTATION 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 ALA 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 ALA 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) FORMUL 9 HOH *15(H2 O) 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 VAL A 60 1 16 HELIX 5 AA5 LYS A 62 LYS A 68 1 7 HELIX 6 AA6 SER A 70 ILE A 78 1 9 HELIX 7 AA7 PHE A 83 TYR A 102 1 20 HELIX 8 AA8 SER A 109 VAL A 114 1 6 HELIX 9 AA9 GLY A 120 TYR A 130 1 11 HELIX 10 AB1 ASP A 139 LEU A 149 1 11 HELIX 11 AB2 LYS A 156 PHE A 168 1 13 HELIX 12 AB3 PRO A 169 GLU A 171 5 3 HELIX 13 AB4 PHE A 172 GLN A 185 1 14 HELIX 14 AB5 PRO D 3 ARG D 17 1 15 HELIX 15 AB6 ALA D 19 LEU D 24 1 6 HELIX 16 AB7 THR D 30 SER D 41 1 12 HELIX 17 AB8 ARG D 45 ALA D 58 1 14 HELIX 18 AB9 LYS D 62 LYS D 68 1 7 HELIX 19 AC1 SER D 70 ILE D 78 1 9 HELIX 20 AC2 PHE D 83 TYR D 102 1 20 HELIX 21 AC3 SER D 109 VAL D 114 1 6 HELIX 22 AC4 GLY D 120 TYR D 130 1 11 HELIX 23 AC5 ASP D 139 GLY D 150 1 12 HELIX 24 AC6 LYS D 156 PHE D 168 1 13 HELIX 25 AC7 PRO D 169 GLU D 171 5 3 HELIX 26 AC8 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 1.60 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 2.26 LINK SG CYS A 203 FE2 SF4 A 300 1555 1555 2.26 LINK SG CYS D 188 FE3 SF4 D 300 1555 1555 2.27 LINK SG CYS D 195 FE1 SF4 D 300 1555 1555 2.27 LINK SG CYS D 198 FE4 SF4 D 300 1555 1555 2.26 LINK SG CYS D 203 FE2 SF4 D 300 1555 1555 2.28 CRYST1 110.247 110.247 112.873 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 0.009071 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009071 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008860 0.00000 CONECT 1490 4320 CONECT 1545 4318 CONECT 1568 4321 CONECT 1602 4319 CONECT 2007 2020 CONECT 2020 2007 2021 2022 2023 CONECT 2021 2020 CONECT 2022 2020 CONECT 2023 2020 2024 CONECT 2024 2023 2025 CONECT 2025 2024 2026 2040 CONECT 2026 2025 2027 CONECT 2027 2026 2028 2039 CONECT 2028 2027 2029 2031 CONECT 2029 2028 2030 2036 CONECT 2030 2029 CONECT 2031 2028 2032 2033 CONECT 2032 2031 CONECT 2033 2031 2034 CONECT 2034 2033 2035 2036 CONECT 2035 2034 CONECT 2036 2029 2034 2037 2038 CONECT 2037 2036 CONECT 2038 2036 CONECT 2039 2027 2040 CONECT 2040 2025 2039 2041 CONECT 2041 2040 2042 CONECT 2042 2041 CONECT 3652 4328 CONECT 3704 4326 CONECT 3727 4329 CONECT 3761 4327 CONECT 4161 4174 CONECT 4174 4161 4175 4176 4177 CONECT 4175 4174 CONECT 4176 4174 CONECT 4177 4174 4178 CONECT 4178 4177 4179 CONECT 4179 4178 4180 4194 CONECT 4180 4179 4181 CONECT 4181 4180 4182 4193 CONECT 4182 4181 4183 4185 CONECT 4183 4182 4184 4190 CONECT 4184 4183 CONECT 4185 4182 4186 4187 CONECT 4186 4185 CONECT 4187 4185 4188 CONECT 4188 4187 4189 4190 CONECT 4189 4188 CONECT 4190 4183 4188 4191 4192 CONECT 4191 4190 CONECT 4192 4190 CONECT 4193 4181 4194 CONECT 4194 4179 4193 4195 CONECT 4195 4194 4196 CONECT 4196 4195 CONECT 4318 1545 4323 4324 4325 CONECT 4319 1602 4322 4324 4325 CONECT 4320 1490 4322 4323 4325 CONECT 4321 1568 4322 4323 4324 CONECT 4322 4319 4320 4321 CONECT 4323 4318 4320 4321 CONECT 4324 4318 4319 4321 CONECT 4325 4318 4319 4320 CONECT 4326 3704 4331 4332 4333 CONECT 4327 3761 4330 4332 4333 CONECT 4328 3652 4330 4331 4333 CONECT 4329 3727 4330 4331 4332 CONECT 4330 4327 4328 4329 CONECT 4331 4326 4328 4329 CONECT 4332 4326 4327 4329 CONECT 4333 4326 4327 4328 MASTER 411 0 4 26 0 0 0 6 4342 6 72 38 END