HEADER DNA BINDING PROTEIN 16-DEC-22 8FII TITLE WILD TYPE APOBEC3A IN COMPLEX WITH TT(FDZ)-HAIRPIN INHIBITOR (CRYSTAL TITLE 2 FORM 1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA DC->DU-EDITING ENZYME APOBEC-3A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: A3A,PHORBOLIN-1; COMPND 5 EC: 3.5.4.38; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(P*GP*CP*GP*CP*TP*TP*(UFP)P*GP*CP*GP*C)-3'); COMPND 9 CHAIN: E, F; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: APOBEC3A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PETITE; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS APOBEC, APOBEC3A, A3A, CANCER, DNA, CYTIDINE DEAMINASE, HAIRPIN DNA KEYWDS 2 INHIBITOR, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.HARJES,G.B.JAMESON,E.HARJES,V.V.FILICHEV,H.M.KURUP REVDAT 2 18-SEP-24 8FII 1 JRNL REVDAT 1 06-SEP-23 8FII 0 JRNL AUTH S.HARJES,H.M.KURUP,A.E.RIEFFER,M.BAYARJARGAL,J.FILITCHEVA, JRNL AUTH 2 Y.SU,T.K.HALE,V.V.FILICHEV,E.HARJES,R.S.HARRIS,G.B.JAMESON JRNL TITL STRUCTURE-GUIDED INHIBITION OF THE CANCER DNA-MUTATING JRNL TITL 2 ENZYME APOBEC3A. JRNL REF NAT COMMUN V. 14 6382 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37821454 JRNL DOI 10.1038/S41467-023-42174-W REMARK 2 REMARK 2 RESOLUTION. 2.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 11041 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.254 REMARK 3 R VALUE (WORKING SET) : 0.251 REMARK 3 FREE R VALUE : 0.310 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 567 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.02 REMARK 3 REFLECTION IN BIN (WORKING SET) : 754 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3760 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2890 REMARK 3 NUCLEIC ACID ATOMS : 448 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.43000 REMARK 3 B22 (A**2) : -5.56000 REMARK 3 B33 (A**2) : -3.76000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 6.32000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.515 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.589 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 64.922 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.851 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3504 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2891 ; 0.003 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4847 ; 1.780 ; 1.656 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6595 ; 1.400 ; 1.586 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 352 ; 6.361 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 185 ;33.431 ;20.973 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 446 ;17.638 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;20.662 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 452 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3715 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 885 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 2 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 10 196 B 10 196 5265 0.160 0.050 REMARK 3 2 E -6 4 F -6 4 769 0.240 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 10 A 196 REMARK 3 ORIGIN FOR THE GROUP (A): 4.8090 -0.2360 41.6700 REMARK 3 T TENSOR REMARK 3 T11: 0.2213 T22: 0.0213 REMARK 3 T33: 0.0749 T12: -0.0074 REMARK 3 T13: 0.1182 T23: -0.0109 REMARK 3 L TENSOR REMARK 3 L11: 1.0442 L22: 0.6625 REMARK 3 L33: 1.1782 L12: -0.2029 REMARK 3 L13: 0.2864 L23: -0.1521 REMARK 3 S TENSOR REMARK 3 S11: -0.0476 S12: 0.0617 S13: 0.0452 REMARK 3 S21: 0.0353 S22: 0.0769 S23: -0.0488 REMARK 3 S31: -0.0141 S32: 0.0738 S33: -0.0294 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 10 B 196 REMARK 3 ORIGIN FOR THE GROUP (A): 26.5910 -13.6140 12.8990 REMARK 3 T TENSOR REMARK 3 T11: 0.2142 T22: 0.0212 REMARK 3 T33: 0.0645 T12: -0.0044 REMARK 3 T13: 0.1169 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 0.7355 L22: 0.9245 REMARK 3 L33: 1.0825 L12: 0.1665 REMARK 3 L13: 0.2193 L23: 0.2423 REMARK 3 S TENSOR REMARK 3 S11: -0.0219 S12: -0.0917 S13: -0.0352 REMARK 3 S21: 0.0012 S22: 0.0084 S23: -0.0055 REMARK 3 S31: 0.0494 S32: -0.0461 S33: 0.0135 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D -6 D 4 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9230 -6.7980 28.0030 REMARK 3 T TENSOR REMARK 3 T11: 0.0896 T22: 0.0275 REMARK 3 T33: 0.0968 T12: 0.0271 REMARK 3 T13: -0.0356 T23: -0.0450 REMARK 3 L TENSOR REMARK 3 L11: 0.2171 L22: 3.3975 REMARK 3 L33: 1.7494 L12: 0.7250 REMARK 3 L13: -0.6119 L23: -2.1778 REMARK 3 S TENSOR REMARK 3 S11: 0.0112 S12: -0.0146 S13: -0.0213 REMARK 3 S21: 0.0582 S22: -0.0378 S23: -0.0158 REMARK 3 S31: -0.0576 S32: 0.0466 S33: 0.0265 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E -6 E 4 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6040 -24.5050 15.9900 REMARK 3 T TENSOR REMARK 3 T11: 0.1484 T22: 0.1233 REMARK 3 T33: 0.0865 T12: -0.0343 REMARK 3 T13: 0.0507 T23: 0.0508 REMARK 3 L TENSOR REMARK 3 L11: 2.1407 L22: 4.8231 REMARK 3 L33: 0.6395 L12: 1.7590 REMARK 3 L13: 0.6719 L23: 0.3645 REMARK 3 S TENSOR REMARK 3 S11: -0.0792 S12: -0.2703 S13: 0.0013 REMARK 3 S21: -0.0431 S22: 0.1195 S23: 0.1773 REMARK 3 S31: 0.1370 S32: -0.2268 S33: -0.0402 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITION REMARK 4 REMARK 4 8FII COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-DEC-22. REMARK 100 THE DEPOSITION ID IS D_1000269074. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.953739 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : 1 VERTICAL AND 2 HORIZONTAL REMARK 200 FOCUSSING MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS, POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11619 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.940 REMARK 200 RESOLUTION RANGE LOW (A) : 49.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.16600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.58300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5KEGF REMARK 200 REMARK 200 REMARK: FLATTENED NEEDLE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: A3A (50 MM MES PH 6.0, 100 MM NACL, 1 REMARK 280 MM TCEP, 0.2 MM EDTA) WAS MIXED WITH OLIGONUCLEOTIDES (10 MM REMARK 280 TRIS/HCL PH 7.9, 1 MM EDTA) AT 0.85 MM AND 1.7 MM RESPECTIVELY. REMARK 280 DILUTION WAS DONE WITH PROTEIN BUFFER. THE MIXTURE WAS ADDED TO REMARK 280 CRYSTALLIZATION LIQUID 1 TO 1 AND THE MIXTURE WAS PIPETTED ON REMARK 280 SILICONIZED GLASS DISKS AND SEALED ON TOP OF A RESERVOIR OF REMARK 280 CRYSTALLIZATION LIQUID FOR HANGING DROP CRYSTALLIZATION AT 12 REMARK 280 DEGREES CELSIUS. THE CRYSTALLIZATION LIQUID HAS THE FOLLOWING REMARK 280 COMPOSITION: 100 MM BICINE AT PH 6.6, 200 MM NACL, 20 MM REMARK 280 PUTRESCINE, 1 MM TCEP, 1 MM INOSITOL HEXA PHOSPHATE (PHYTIC ACID) REMARK 280 AND 45 % PENTAERYTHRITOL PROPOXYLATE (5/4 PO/OH), VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 285K 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 28.59850 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 2240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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 GLU A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 ALA A 6 REMARK 465 SER A 7 REMARK 465 GLY A 8 REMARK 465 PRO A 9 REMARK 465 ASN A 42 REMARK 465 GLY A 43 REMARK 465 THR A 44 REMARK 465 SER A 45 REMARK 465 VAL A 46 REMARK 465 LYS A 47 REMARK 465 MET A 48 REMARK 465 CYS A 64 REMARK 465 GLY A 65 REMARK 465 GLN A 197 REMARK 465 GLY A 198 REMARK 465 ASN A 199 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 ALA B 3 REMARK 465 SER B 4 REMARK 465 PRO B 5 REMARK 465 ALA B 6 REMARK 465 SER B 7 REMARK 465 GLY B 8 REMARK 465 PRO B 9 REMARK 465 ASN B 42 REMARK 465 GLY B 43 REMARK 465 THR B 44 REMARK 465 SER B 45 REMARK 465 VAL B 46 REMARK 465 LYS B 47 REMARK 465 MET B 48 REMARK 465 ASP B 49 REMARK 465 GLN B 197 REMARK 465 GLY B 198 REMARK 465 ASN B 199 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 10 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 11 CG ND1 CD2 CE1 NE2 REMARK 470 HIS A 16 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 26 CG1 CG2 CD1 REMARK 470 GLU A 38 CG CD OE1 OE2 REMARK 470 ASP A 49 CG OD1 OD2 REMARK 470 GLN A 50 CG CD OE1 NE2 REMARK 470 ARG A 52 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 62 CG CD1 CD2 REMARK 470 LEU A 63 CG CD1 CD2 REMARK 470 GLU A 116 CG CD OE1 OE2 REMARK 470 GLU A 181 CG CD OE1 OE2 REMARK 470 ARG B 10 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 16 CG ND1 CD2 CE1 NE2 REMARK 470 ILE B 26 CG1 CG2 CD1 REMARK 470 ASP B 41 CG OD1 OD2 REMARK 470 LEU B 63 CG CD1 CD2 REMARK 470 GLN B 88 CG CD OE1 NE2 REMARK 470 GLU B 116 CG CD OE1 OE2 REMARK 470 GLU B 181 CG CD OE1 OE2 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 CE1 PHE B 113 ND2 ASN B 117 2.04 REMARK 500 NH1 ARG B 144 O LEU B 194 2.12 REMARK 500 O6 DG E -6 N3 DC E 4 2.19 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 E -3 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 UFP E 0 C3' - O3' - P ANGL. DEV. = 11.2 DEGREES REMARK 500 DG E 1 O5' - P - OP2 ANGL. DEV. = -7.9 DEGREES REMARK 500 DG E 3 C3' - C2' - C1' ANGL. DEV. = -6.1 DEGREES REMARK 500 DG E 3 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC F -3 O4' - C1' - N1 ANGL. DEV. = 2.3 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 ASN A 117 -69.83 -102.41 REMARK 500 HIS B 29 49.56 -90.04 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 ZN A 204 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 70 ND1 REMARK 620 2 CYS A 101 SG 109.0 REMARK 620 3 CYS A 106 SG 106.1 107.0 REMARK 620 4 UFP F 0 O4 94.0 106.2 132.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 205 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 70 ND1 REMARK 620 2 GLU B 72 OE2 117.3 REMARK 620 3 CYS B 101 SG 104.6 134.8 REMARK 620 4 CYS B 106 SG 110.4 70.0 111.5 REMARK 620 5 UFP E 0 O4 96.1 60.6 100.6 130.4 REMARK 620 N 1 2 3 4 DBREF 8FII A 1 199 UNP P31941 ABC3A_HUMAN 1 199 DBREF 8FII B 1 199 UNP P31941 ABC3A_HUMAN 1 199 DBREF 8FII E -6 4 PDB 8FII 8FII -6 4 DBREF 8FII F -6 4 PDB 8FII 8FII -6 4 SEQRES 1 A 199 MET GLU ALA SER PRO ALA SER GLY PRO ARG HIS LEU MET SEQRES 2 A 199 ASP PRO HIS ILE PHE THR SER ASN PHE ASN ASN GLY ILE SEQRES 3 A 199 GLY ARG HIS LYS THR TYR LEU CYS TYR GLU VAL GLU ARG SEQRES 4 A 199 LEU ASP ASN GLY THR SER VAL LYS MET ASP GLN HIS ARG SEQRES 5 A 199 GLY PHE LEU HIS ASN GLN ALA LYS ASN LEU LEU CYS GLY SEQRES 6 A 199 PHE TYR GLY ARG HIS ALA GLU LEU ARG PHE LEU ASP LEU SEQRES 7 A 199 VAL PRO SER LEU GLN LEU ASP PRO ALA GLN ILE TYR ARG SEQRES 8 A 199 VAL THR TRP PHE ILE SER TRP SER PRO CYS PHE SER TRP SEQRES 9 A 199 GLY CYS ALA GLY GLU VAL ARG ALA PHE LEU GLN GLU ASN SEQRES 10 A 199 THR HIS VAL ARG LEU ARG ILE PHE ALA ALA ARG ILE TYR SEQRES 11 A 199 ASP TYR ASP PRO LEU TYR LYS GLU ALA LEU GLN MET LEU SEQRES 12 A 199 ARG ASP ALA GLY ALA GLN VAL SER ILE MET THR TYR ASP SEQRES 13 A 199 GLU PHE LYS HIS CYS TRP ASP THR PHE VAL ASP HIS GLN SEQRES 14 A 199 GLY CYS PRO PHE GLN PRO TRP ASP GLY LEU ASP GLU HIS SEQRES 15 A 199 SER GLN ALA LEU SER GLY ARG LEU ARG ALA ILE LEU GLN SEQRES 16 A 199 ASN GLN GLY ASN SEQRES 1 B 199 MET GLU ALA SER PRO ALA SER GLY PRO ARG HIS LEU MET SEQRES 2 B 199 ASP PRO HIS ILE PHE THR SER ASN PHE ASN ASN GLY ILE SEQRES 3 B 199 GLY ARG HIS LYS THR TYR LEU CYS TYR GLU VAL GLU ARG SEQRES 4 B 199 LEU ASP ASN GLY THR SER VAL LYS MET ASP GLN HIS ARG SEQRES 5 B 199 GLY PHE LEU HIS ASN GLN ALA LYS ASN LEU LEU CYS GLY SEQRES 6 B 199 PHE TYR GLY ARG HIS ALA GLU LEU ARG PHE LEU ASP LEU SEQRES 7 B 199 VAL PRO SER LEU GLN LEU ASP PRO ALA GLN ILE TYR ARG SEQRES 8 B 199 VAL THR TRP PHE ILE SER TRP SER PRO CYS PHE SER TRP SEQRES 9 B 199 GLY CYS ALA GLY GLU VAL ARG ALA PHE LEU GLN GLU ASN SEQRES 10 B 199 THR HIS VAL ARG LEU ARG ILE PHE ALA ALA ARG ILE TYR SEQRES 11 B 199 ASP TYR ASP PRO LEU TYR LYS GLU ALA LEU GLN MET LEU SEQRES 12 B 199 ARG ASP ALA GLY ALA GLN VAL SER ILE MET THR TYR ASP SEQRES 13 B 199 GLU PHE LYS HIS CYS TRP ASP THR PHE VAL ASP HIS GLN SEQRES 14 B 199 GLY CYS PRO PHE GLN PRO TRP ASP GLY LEU ASP GLU HIS SEQRES 15 B 199 SER GLN ALA LEU SER GLY ARG LEU ARG ALA ILE LEU GLN SEQRES 16 B 199 ASN GLN GLY ASN SEQRES 1 E 11 DG DC DG DC DT DT UFP DG DC DG DC SEQRES 1 F 11 DG DC DG DC DT DT UFP DG DC DG DC HET UFP E 0 20 HET UFP F 0 20 HET PO4 A 201 5 HET PO4 A 202 5 HET PO4 A 203 5 HET ZN A 204 1 HET PO4 B 201 5 HET PO4 B 202 5 HET PO4 B 203 5 HET PO4 B 204 5 HET ZN B 205 1 HETNAM UFP 5-FLUORO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE HETNAM PO4 PHOSPHATE ION HETNAM ZN ZINC ION FORMUL 3 UFP 2(C9 H12 F N2 O8 P) FORMUL 5 PO4 7(O4 P 3-) FORMUL 8 ZN 2(ZN 2+) HELIX 1 AA1 ASP A 14 PHE A 22 1 9 HELIX 2 AA2 HIS A 70 VAL A 79 1 10 HELIX 3 AA3 PRO A 80 GLN A 83 5 4 HELIX 4 AA4 GLY A 105 THR A 118 1 14 HELIX 5 AA5 LEU A 135 ALA A 146 1 12 HELIX 6 AA6 THR A 154 VAL A 166 1 13 HELIX 7 AA7 GLY A 178 GLN A 195 1 18 HELIX 8 AA8 ASP B 14 PHE B 22 1 9 HELIX 9 AA9 HIS B 70 GLN B 83 1 14 HELIX 10 AB1 GLY B 105 THR B 118 1 14 HELIX 11 AB2 LEU B 135 ALA B 146 1 12 HELIX 12 AB3 THR B 154 VAL B 166 1 13 HELIX 13 AB4 GLY B 178 ASN B 196 1 19 SHEET 1 AA1 5 HIS A 51 HIS A 56 0 SHEET 2 AA1 5 TYR A 32 LEU A 40 -1 N LEU A 33 O LEU A 55 SHEET 3 AA1 5 ILE A 89 TRP A 98 -1 O ARG A 91 N GLU A 38 SHEET 4 AA1 5 VAL A 120 ARG A 128 1 O ARG A 121 N VAL A 92 SHEET 5 AA1 5 ALA A 148 ILE A 152 1 O GLN A 149 N ILE A 124 SHEET 1 AA2 5 HIS B 51 HIS B 56 0 SHEET 2 AA2 5 TYR B 32 ARG B 39 -1 N LEU B 33 O LEU B 55 SHEET 3 AA2 5 TYR B 90 TRP B 98 -1 O ARG B 91 N GLU B 38 SHEET 4 AA2 5 VAL B 120 ARG B 128 1 O ARG B 121 N VAL B 92 SHEET 5 AA2 5 GLN B 149 ILE B 152 1 O GLN B 149 N ILE B 124 LINK O3' DT E -1 P UFP E 0 1555 1555 1.60 LINK O3' UFP E 0 P DG E 1 1555 1555 1.63 LINK O3' DT F -1 P UFP F 0 1555 1555 1.61 LINK O3' UFP F 0 P DG F 1 1555 1555 1.61 LINK ND1 HIS A 70 ZN ZN A 204 1555 1555 2.05 LINK SG CYS A 101 ZN ZN A 204 1555 1555 2.10 LINK SG CYS A 106 ZN ZN A 204 1555 1555 2.39 LINK ZN ZN A 204 O4 UFP F 0 1555 1555 2.08 LINK ND1 HIS B 70 ZN ZN B 205 1555 1555 2.04 LINK OE2 GLU B 72 ZN ZN B 205 1555 1555 2.63 LINK SG CYS B 101 ZN ZN B 205 1555 1555 2.20 LINK SG CYS B 106 ZN ZN B 205 1555 1555 2.19 LINK ZN ZN B 205 O4 UFP E 0 1555 1555 2.59 CRYST1 53.323 57.197 91.422 90.00 99.37 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 0.018754 0.000000 0.003094 0.00000 SCALE2 0.000000 0.017483 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011086 0.00000