HEADER DNA BINDING PROTEIN/DNA 16-DEC-22 8FIK TITLE APOBEC3A E72A INACTIVE MUTANT IN COMPLEX WITH ATTC-HAIRPIN DNA TITLE 2 SUBSTRATE 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 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'- COMPND 10 D(P*CP*CP*CP*AP*TP*CP*AP*TP*TP*CP*GP*AP*TP*GP*GP*G)-3'); COMPND 11 CHAIN: D, H; COMPND 12 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, MUTATION, CYTIDINE DEAMINASE, KEYWDS 2 HAIRPIN DNA, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.HARJES,G.B.JAMESON,E.HARJES,V.V.FILICHEV,H.M.KURUP REVDAT 2 18-SEP-24 8FIK 1 JRNL REVDAT 1 06-SEP-23 8FIK 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. 1.91 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 42293 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.972 REMARK 3 FREE R VALUE TEST SET COUNT : 2103 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2840 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE SET COUNT : 159 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3031 REMARK 3 NUCLEIC ACID ATOMS : 614 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 157 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.55900 REMARK 3 B22 (A**2) : -0.65700 REMARK 3 B33 (A**2) : -0.95700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.37600 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.215 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3948 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3198 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5508 ; 1.737 ; 1.660 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7351 ; 1.385 ; 1.576 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 392 ; 6.715 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 197 ;33.709 ;20.914 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;14.828 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;20.832 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 512 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4133 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 975 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 741 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 85 ; 0.211 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1763 ; 0.191 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 149 ; 0.201 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.095 ; 0.200 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): 1544 ; 2.538 ; 2.695 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1543 ; 2.537 ; 2.693 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1944 ; 3.962 ; 4.018 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1945 ; 3.962 ; 4.021 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2404 ; 3.409 ; 3.340 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2401 ; 3.399 ; 3.326 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3564 ; 5.504 ; 4.950 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3562 ; 5.498 ; 4.940 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 NUMBER OF DIFFERENT NCS GROUPS : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 10 A 196 NULL REMARK 3 1 B 10 B 196 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : D H REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 2 D -8 D 6 NULL REMARK 3 2 H -8 H 6 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT 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): -0.7180 0.1070 42.5170 REMARK 3 T TENSOR REMARK 3 T11: 0.0241 T22: 0.0370 REMARK 3 T33: 0.0310 T12: -0.0072 REMARK 3 T13: -0.0151 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.5673 L22: 0.6387 REMARK 3 L33: 0.6892 L12: 0.1003 REMARK 3 L13: -0.3209 L23: 0.1916 REMARK 3 S TENSOR REMARK 3 S11: -0.0162 S12: -0.1158 S13: -0.0360 REMARK 3 S21: -0.0463 S22: 0.0383 S23: -0.0261 REMARK 3 S31: -0.0355 S32: 0.1175 S33: -0.0221 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): 25.8760 -9.8800 12.5270 REMARK 3 T TENSOR REMARK 3 T11: 0.0372 T22: 0.0094 REMARK 3 T33: 0.0273 T12: -0.0129 REMARK 3 T13: -0.0274 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.5633 L22: 0.9141 REMARK 3 L33: 0.8146 L12: 0.1105 REMARK 3 L13: -0.0488 L23: -0.1057 REMARK 3 S TENSOR REMARK 3 S11: 0.0425 S12: -0.0490 S13: -0.0067 REMARK 3 S21: 0.0350 S22: -0.0019 S23: -0.0295 REMARK 3 S31: -0.0341 S32: 0.0220 S33: -0.0406 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 -8 D 6 REMARK 3 ORIGIN FOR THE GROUP (A): -1.2180 11.5090 19.9380 REMARK 3 T TENSOR REMARK 3 T11: 0.1877 T22: 0.2053 REMARK 3 T33: 0.1448 T12: -0.0901 REMARK 3 T13: 0.0155 T23: 0.0890 REMARK 3 L TENSOR REMARK 3 L11: 2.3871 L22: 2.3111 REMARK 3 L33: 3.0491 L12: -0.1953 REMARK 3 L13: 0.0187 L23: -0.2253 REMARK 3 S TENSOR REMARK 3 S11: 0.0637 S12: 0.4953 S13: 0.4215 REMARK 3 S21: -0.4744 S22: 0.1428 S23: -0.0495 REMARK 3 S31: -0.0889 S32: 0.3692 S33: -0.2065 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 : H -8 H 6 REMARK 3 ORIGIN FOR THE GROUP (A): 4.7480 -23.6250 12.4520 REMARK 3 T TENSOR REMARK 3 T11: 0.1225 T22: 0.1976 REMARK 3 T33: 0.1483 T12: -0.0514 REMARK 3 T13: 0.0108 T23: 0.1062 REMARK 3 L TENSOR REMARK 3 L11: 2.1178 L22: 6.5212 REMARK 3 L33: 2.1020 L12: 2.3893 REMARK 3 L13: 0.4795 L23: 0.8623 REMARK 3 S TENSOR REMARK 3 S11: -0.1727 S12: -0.2978 S13: -0.0304 REMARK 3 S21: -0.1526 S22: 0.2313 S23: 0.5362 REMARK 3 S31: 0.3167 S32: -0.3678 S33: -0.0586 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8FIK 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_1000269072. 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 : 42309 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 48.173 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.91300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 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: 5KEG REMARK 200 REMARK 200 REMARK: FLATTENED NEEDLE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: A3A-E72A (50 MM MES PH 6.0, 100 MM REMARK 280 NACL, 1 MM TCEP, 0.2 MM EDTA) WAS MIXED WITH OLIGONUCLEOTIDES REMARK 280 (10 MM TRIS/HCL PH 7.9, 1 MM EDTA) AT 0.85 MM AND 1.7 MM REMARK 280 RESPECTIVELY. DILUTION WAS DONE WITH PROTEIN BUFFER. THE MIXTURE REMARK 280 WAS ADDED TO CRYSTALLIZATION LIQUID 1 TO 1 AND THE MIXTURE WAS REMARK 280 PIPETTED ON SILICONIZED GLASS DISKS AND SEALED ON TOP OF A REMARK 280 RESERVOIR OF CRYSTALLIZATION LIQUID FOR HANGING DROP REMARK 280 CRYSTALLIZATION AT 12 DEGREES CELSIUS. THE CRYSTALLIZATION REMARK 280 LIQUID HAS THE FOLLOWING COMPOSITION: 100 MM BICINE AT PH 6.6, REMARK 280 200 MM NACL, 20 MM PUTRESCINE, 1 MM TCEP, 1 MM INOSITOL HEX REMARK 280 PHOSPHATE (PHYTIC ACID) AND 45 % PENTAERYTHRITOL PROPOXYLATE (5/ REMARK 280 4 PO/OH), VAPOR 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 28.61450 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: 1980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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: 1930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -63.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, H 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 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 GLN B 197 REMARK 465 GLY B 198 REMARK 465 ASN B 199 REMARK 465 DC D -9 REMARK 465 DC H -9 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 GLU A 38 CD OE1 OE2 REMARK 470 ASN A 42 CG OD1 ND2 REMARK 470 VAL A 46 CG1 CG2 REMARK 470 LYS A 47 CG CD CE NZ REMARK 470 LEU A 63 CG CD1 CD2 REMARK 470 ARG B 10 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 38 CD OE1 OE2 REMARK 470 ASN B 42 CG OD1 ND2 REMARK 470 VAL B 46 CG1 CG2 REMARK 470 LYS B 47 CG CD CE NZ REMARK 470 GLN B 50 CG CD OE1 NE2 REMARK 470 LEU B 63 CG CD1 CD2 REMARK 470 GLU B 181 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 O HOH A 366 O HOH B 361 2.12 REMARK 500 O HOH A 361 O HOH A 366 2.13 REMARK 500 NZ LYS B 60 O HOH B 301 2.14 REMARK 500 O HOH A 361 O HOH B 358 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 DC D -7 C3' - O3' - P ANGL. DEV. = -14.8 DEGREES REMARK 500 DA D -6 C3' - O3' - P ANGL. DEV. = -8.5 DEGREES REMARK 500 DT D -2 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC H -7 C3' - O3' - P ANGL. DEV. = -11.8 DEGREES REMARK 500 DC H 0 O4' - C1' - N1 ANGL. DEV. = -6.1 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 HIS A 29 38.84 -94.44 REMARK 500 ASN A 42 90.74 -53.18 REMARK 500 MET A 48 73.41 -112.79 REMARK 500 ASN A 61 89.77 -155.49 REMARK 500 HIS B 29 32.59 -91.06 REMARK 500 MET B 48 77.77 -108.28 REMARK 500 HIS B 51 60.98 -100.10 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 B 367 DISTANCE = 6.45 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 ZN A 201 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 115.6 106.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 70 ND1 REMARK 620 2 CYS B 101 SG 109.0 REMARK 620 3 CYS B 106 SG 116.1 108.2 REMARK 620 N 1 2 DBREF 8FIK A 1 199 UNP P31941 ABC3A_HUMAN 1 199 DBREF 8FIK B 1 199 UNP P31941 ABC3A_HUMAN 1 199 DBREF 8FIK D -9 6 PDB 8FIK 8FIK -9 6 DBREF 8FIK H -9 6 PDB 8FIK 8FIK -9 6 SEQADV 8FIK ALA A 72 UNP P31941 GLU 72 ENGINEERED MUTATION SEQADV 8FIK ALA B 72 UNP P31941 GLU 72 ENGINEERED MUTATION 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 ALA 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 ALA 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 D 16 DC DC DC DA DT DC DA DT DT DC DG DA DT SEQRES 2 D 16 DG DG DG SEQRES 1 H 16 DC DC DC DA DT DC DA DT DT DC DG DA DT SEQRES 2 H 16 DG DG DG HET ZN A 201 1 HET CL A 202 1 HET PO4 A 203 5 HET IHP A 204 36 HET ZN B 201 1 HET CL B 202 1 HET PO4 B 203 5 HET PO4 B 204 5 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM PO4 PHOSPHATE ION HETNAM IHP INOSITOL HEXAKISPHOSPHATE HETSYN IHP MYO-INOSITOL HEXAKISPHOSPHATE; INOSITOL 1,2,3,4,5,6- HETSYN 2 IHP HEXAKISPHOSPHATE FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CL 2(CL 1-) FORMUL 7 PO4 3(O4 P 3-) FORMUL 8 IHP C6 H18 O24 P6 FORMUL 13 HOH *157(H2 O) HELIX 1 AA1 ASP A 14 PHE A 22 1 9 HELIX 2 AA2 ASN A 61 GLY A 65 5 5 HELIX 3 AA3 HIS A 70 GLN A 83 1 14 HELIX 4 AA4 GLY A 105 ASN A 117 1 13 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 ASN A 196 1 19 HELIX 8 AA8 ASP B 14 PHE B 22 1 9 HELIX 9 AA9 ASN B 61 GLY B 65 5 5 HELIX 10 AB1 HIS B 70 VAL B 79 1 10 HELIX 11 AB2 PRO B 80 GLN B 83 5 4 HELIX 12 AB3 GLY B 105 ASN B 117 1 13 HELIX 13 AB4 LEU B 135 ALA B 146 1 12 HELIX 14 AB5 THR B 154 VAL B 166 1 13 HELIX 15 AB6 GLY B 178 ASN B 196 1 19 SHEET 1 AA1 5 SER A 45 HIS A 56 0 SHEET 2 AA1 5 TYR A 32 LEU A 40 -1 N TYR A 35 O GLY A 53 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 GLN A 149 ILE A 152 1 O GLN A 149 N ILE A 124 SHEET 1 AA2 5 VAL B 46 HIS B 56 0 SHEET 2 AA2 5 TYR B 32 LEU B 40 -1 N TYR B 35 O GLY B 53 SHEET 3 AA2 5 ILE B 89 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 ND1 HIS A 70 ZN ZN A 201 1555 1555 2.03 LINK SG CYS A 101 ZN ZN A 201 1555 1555 2.34 LINK SG CYS A 106 ZN ZN A 201 1555 1555 2.22 LINK ND1 HIS B 70 ZN ZN B 201 1555 1555 2.07 LINK SG CYS B 101 ZN ZN B 201 1555 1555 2.30 LINK SG CYS B 106 ZN ZN B 201 1555 1555 2.24 CRYST1 55.001 57.229 92.752 90.00 106.48 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 0.018181 0.000000 0.005378 0.00000 SCALE2 0.000000 0.017474 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011243 0.00000