HEADER RNA 31-MAR-23 8OM0 TITLE STRUCTURE OF OCEANOBACILLUS IHEYENSIS GROUP II INTRON IN THE PRESENCE TITLE 2 OF NA+, MG2+ AND INTRONISTAT B COMPND MOL_ID: 1; COMPND 2 MOLECULE: DOMAINS 1-5; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: OCEANOBACILLUS IHEYENSIS; SOURCE 4 ORGANISM_TAXID: 182710 KEYWDS RIBOZYME, METALLOENZYME, SELF-SPLICING, RETROTRANSPOSITION, RNA EXPDTA X-RAY DIFFRACTION AUTHOR I.SILVESTRI,M.MARCIA REVDAT 1 19-JUN-24 8OM0 0 JRNL AUTH I.SILVESTRI,J.MANIGRASSO,A.ANDREANI,N.BRINDANI,C.MAS, JRNL AUTH 2 J.B.REISER,P.VIDOSSICH,G.MARTINO,A.MCCARTHY,M.DE VIVO, JRNL AUTH 3 M.MARCIA JRNL TITL TARGETING THE CONSERVED ACTIVE SITE OF SPLICING MACHINES JRNL TITL 2 WITH SPECIFIC AND SELECTIVE SMALL MOLECULE MODULATORS JRNL REF NAT COMMUN 2024 JRNL REFN ESSN 2041-1723 JRNL DOI 10.1038/S41467-024-48697-0 REMARK 2 REMARK 2 RESOLUTION. 3.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0403 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) : 3.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 20554 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) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.296 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1082 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) : 3.61 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.70 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1444 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.41 REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.3690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 8349 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 0 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) : 5.24000 REMARK 3 B22 (A**2) : 12.44000 REMARK 3 B33 (A**2) : -17.68000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 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): 0.700 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 9417 ; 0.006 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): 3827 ; 0.003 ; 0.019 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 14640 ; 2.189 ; 1.849 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9296 ; 0.628 ; 1.666 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1945 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4699 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1472 ; 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): 9417 ;12.179 ;13.576 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 9418 ;12.178 ;13.576 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 14641 ;18.980 ;24.628 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 14321 ;25.747 ;69.440 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 14322 ;25.747 ;69.450 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 391 REMARK 3 RESIDUE RANGE : A 401 A 412 REMARK 3 ORIGIN FOR THE GROUP (A): 23.320 8.510 25.448 REMARK 3 T TENSOR REMARK 3 T11: 0.7008 T22: 0.1487 REMARK 3 T33: 1.7037 T12: 0.1437 REMARK 3 T13: 0.0087 T23: 0.1266 REMARK 3 L TENSOR REMARK 3 L11: 1.0607 L22: 0.9764 REMARK 3 L33: 2.0218 L12: -0.4253 REMARK 3 L13: -1.3746 L23: 0.9066 REMARK 3 S TENSOR REMARK 3 S11: -0.0698 S12: -0.3235 S13: -0.1412 REMARK 3 S21: 0.5656 S22: 0.1261 S23: -0.0123 REMARK 3 S31: 0.1901 S32: 0.3538 S33: -0.0563 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 POSITIONS REMARK 4 REMARK 4 8OM0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292129565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21633 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.600 REMARK 200 RESOLUTION RANGE LOW (A) : 47.350 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 12.17 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.70 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MAGNESIUM ACETATE, 100 MM REMARK 280 SODIUM CHLORIDE, 50 MM HEPES SODIUM, PH 7.0, 5% PEG8000, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 303.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 44.40650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 111.93750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.14100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 111.93750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.40650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.14100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 G A -2 REMARK 465 G A -1 REMARK 465 G A 0 REMARK 465 G A 1 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 A A 207 N9 C8 N7 C5 C6 N6 N1 REMARK 470 A A 207 C2 N3 C4 REMARK 470 G A 311 N9 C8 N7 C5 C6 O6 N1 REMARK 470 G A 311 C2 N2 N3 C4 REMARK 470 C A 312 N1 C2 O2 N3 C4 N4 C5 REMARK 470 C A 312 C6 REMARK 470 G A 391 N9 C8 N7 C5 C6 O6 N1 REMARK 470 G A 391 C2 N2 N3 C4 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 OP1 U A 375 OP2 C A 377 1.68 REMARK 500 O2' G A 155 O2' G A 226 1.99 REMARK 500 N2 G A 55 O2 C A 201 2.03 REMARK 500 O2' G A 267 O6 G A 284 2.05 REMARK 500 O3' U A 353 N2 G A 390 2.13 REMARK 500 O2' U A 339 O6 G A 342 2.15 REMARK 500 OP2 G A 108 O2' A A 260 2.17 REMARK 500 OP2 G A 359 OP1 C A 377 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O2' C A 279 O2' G A 336 3555 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 A A 282 O3' A A 282 C3' 0.083 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 U A 4 OP1 - P - OP2 ANGL. DEV. = -11.7 DEGREES REMARK 500 G A 5 C3' - O3' - P ANGL. DEV. = -7.3 DEGREES REMARK 500 C A 7 C3' - O3' - P ANGL. DEV. = -8.3 DEGREES REMARK 500 C A 8 C3' - O3' - P ANGL. DEV. = -9.3 DEGREES REMARK 500 A A 20 C3' - O3' - P ANGL. DEV. = -14.9 DEGREES REMARK 500 G A 21 C3' - O3' - P ANGL. DEV. = -8.3 DEGREES REMARK 500 U A 22 C3' - O3' - P ANGL. DEV. = -11.2 DEGREES REMARK 500 C A 23 C3' - O3' - P ANGL. DEV. = -9.2 DEGREES REMARK 500 A A 27 O3' - P - OP1 ANGL. DEV. = 7.1 DEGREES REMARK 500 A A 27 OP1 - P - OP2 ANGL. DEV. = -9.9 DEGREES REMARK 500 A A 27 C3' - O3' - P ANGL. DEV. = -12.3 DEGREES REMARK 500 G A 28 C3' - O3' - P ANGL. DEV. = -10.1 DEGREES REMARK 500 G A 29 C3' - O3' - P ANGL. DEV. = -11.1 DEGREES REMARK 500 G A 30 O3' - P - OP2 ANGL. DEV. = 7.1 DEGREES REMARK 500 G A 30 O5' - P - OP1 ANGL. DEV. = 8.1 DEGREES REMARK 500 G A 30 C3' - O3' - P ANGL. DEV. = -10.6 DEGREES REMARK 500 U A 31 O3' - P - OP2 ANGL. DEV. = 8.1 DEGREES REMARK 500 U A 31 O5' - P - OP2 ANGL. DEV. = -6.8 DEGREES REMARK 500 A A 33 C3' - O3' - P ANGL. DEV. = -7.7 DEGREES REMARK 500 G A 34 OP1 - P - OP2 ANGL. DEV. = -9.6 DEGREES REMARK 500 G A 36 C3' - O3' - P ANGL. DEV. = -8.2 DEGREES REMARK 500 U A 37 C3' - O3' - P ANGL. DEV. = -9.5 DEGREES REMARK 500 C A 38 O5' - P - OP2 ANGL. DEV. = -5.8 DEGREES REMARK 500 C A 38 C3' - O3' - P ANGL. DEV. = -15.3 DEGREES REMARK 500 C A 39 C3' - O3' - P ANGL. DEV. = -7.8 DEGREES REMARK 500 C A 40 C3' - O3' - P ANGL. DEV. = -7.7 DEGREES REMARK 500 C A 44 O3' - P - OP2 ANGL. DEV. = 7.7 DEGREES REMARK 500 G A 46 C3' - O3' - P ANGL. DEV. = -14.4 DEGREES REMARK 500 U A 47 O5' - P - OP1 ANGL. DEV. = -7.7 DEGREES REMARK 500 G A 48 O3' - P - OP1 ANGL. DEV. = 6.6 DEGREES REMARK 500 G A 48 O5' - P - OP2 ANGL. DEV. = -9.7 DEGREES REMARK 500 A A 49 OP1 - P - OP2 ANGL. DEV. = 11.0 DEGREES REMARK 500 A A 49 C3' - O3' - P ANGL. DEV. = -14.7 DEGREES REMARK 500 G A 51 C3' - O3' - P ANGL. DEV. = -8.5 DEGREES REMARK 500 A A 54 C3' - O3' - P ANGL. DEV. = -17.9 DEGREES REMARK 500 G A 55 C3' - O3' - P ANGL. DEV. = -23.6 DEGREES REMARK 500 A A 56 O3' - P - OP1 ANGL. DEV. = 6.6 DEGREES REMARK 500 A A 56 O5' - P - OP2 ANGL. DEV. = 11.1 DEGREES REMARK 500 A A 56 C3' - O3' - P ANGL. DEV. = -17.6 DEGREES REMARK 500 A A 57 C2' - C3' - O3' ANGL. DEV. = -14.3 DEGREES REMARK 500 G A 58 O5' - P - OP2 ANGL. DEV. = -5.9 DEGREES REMARK 500 A A 60 O3' - P - OP2 ANGL. DEV. = 14.0 DEGREES REMARK 500 A A 60 C3' - O3' - P ANGL. DEV. = -8.0 DEGREES REMARK 500 A A 61 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 A A 61 C3' - O3' - P ANGL. DEV. = -14.1 DEGREES REMARK 500 C A 62 O3' - P - O5' ANGL. DEV. = -11.7 DEGREES REMARK 500 C A 62 O3' - P - OP1 ANGL. DEV. = 8.4 DEGREES REMARK 500 C A 62 O5' - P - OP1 ANGL. DEV. = -12.4 DEGREES REMARK 500 C A 62 O5' - P - OP2 ANGL. DEV. = 12.9 DEGREES REMARK 500 A A 63 O5' - P - OP2 ANGL. DEV. = -6.3 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 209 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 GDE A 401 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 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 3 O6 REMARK 620 2 G A 107 OP1 113.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 406 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 155 O6 REMARK 620 2 G A 156 O4' 140.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 411 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 269 OP2 REMARK 620 2 G A 270 O6 123.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 407 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 282 O3' REMARK 620 2 A A 283 OP1 53.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 408 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 319 OP2 REMARK 620 2 G A 320 OP2 116.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 413 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 358 OP1 REMARK 620 2 C A 377 OP1 76.0 REMARK 620 3 GDE A 401 OAC 89.3 149.8 REMARK 620 4 GDE A 401 OAE 127.0 91.0 76.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 414 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 359 OP1 REMARK 620 2 U A 375 OP1 102.1 REMARK 620 3 C A 377 OP2 79.2 58.1 REMARK 620 4 GDE A 401 OAD 99.8 133.4 167.7 REMARK 620 5 GDE A 401 OAE 52.6 142.5 87.5 82.3 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4E8K RELATED DB: PDB REMARK 900 RELATED ID: 4E8M RELATED DB: PDB REMARK 900 RELATED ID: 4E8N RELATED DB: PDB REMARK 900 RELATED ID: 4E8P RELATED DB: PDB REMARK 900 RELATED ID: 4E8Q RELATED DB: PDB REMARK 900 RELATED ID: 4E8R RELATED DB: PDB REMARK 900 RELATED ID: 4E8T RELATED DB: PDB REMARK 900 RELATED ID: 4E8V RELATED DB: PDB REMARK 900 RELATED ID: 4FAQ RELATED DB: PDB REMARK 900 RELATED ID: 4FAR RELATED DB: PDB REMARK 900 RELATED ID: 4FAU RELATED DB: PDB REMARK 900 RELATED ID: 4FAW RELATED DB: PDB REMARK 900 RELATED ID: 4FAX RELATED DB: PDB REMARK 900 RELATED ID: 4FB0 RELATED DB: PDB REMARK 900 RELATED ID: 6T3K RELATED DB: PDB REMARK 900 RELATED ID: 6T3N RELATED DB: PDB REMARK 900 RELATED ID: 6T3R RELATED DB: PDB REMARK 900 RELATED ID: 6T3S RELATED DB: PDB REMARK 900 RELATED ID: 8OLS RELATED DB: PDB REMARK 900 RELATED ID: 8OLV RELATED DB: PDB REMARK 900 RELATED ID: 8OLW RELATED DB: PDB REMARK 900 RELATED ID: 8OLY RELATED DB: PDB REMARK 900 RELATED ID: 8OLZ RELATED DB: PDB DBREF 8OM0 A -2 391 PDB 8OM0 8OM0 -2 391 SEQRES 1 A 394 G G G G U G U G C C C G G SEQRES 2 A 394 C A U G G G U G C A G U C SEQRES 3 A 394 U A U A G G G U G A G A G SEQRES 4 A 394 U C C C G A A C U G U G A SEQRES 5 A 394 A G G C A G A A G U A A C SEQRES 6 A 394 A G U U A G C C U A A C G SEQRES 7 A 394 C A A G G G U G U C C G U SEQRES 8 A 394 G G C G A C A U G G A A U SEQRES 9 A 394 C U G A A G G A A G C G G SEQRES 10 A 394 A C G G C A A A C C U U C SEQRES 11 A 394 G G U C U G A G G A A C A SEQRES 12 A 394 C G A A C U U C A U A U G SEQRES 13 A 394 A G G C U A G G U A U C A SEQRES 14 A 394 A U G G A U G A G U U U G SEQRES 15 A 394 C A U A A C A A A A C A A SEQRES 16 A 394 A G U C C U U U C U G C C SEQRES 17 A 394 A A A G U U G G U A C A G SEQRES 18 A 394 A G U A A A U G A A G C A SEQRES 19 A 394 G A U U G A U G A A G G G SEQRES 20 A 394 A A A G A C U G C A U U C SEQRES 21 A 394 U U A C C C G G G G A G G SEQRES 22 A 394 U C U G G A A A C A G A A SEQRES 23 A 394 G U C A G C A G A A G U C SEQRES 24 A 394 A U A G U A C C C U G U U SEQRES 25 A 394 C G C A G G G G A A G G A SEQRES 26 A 394 C G G A A C A A G U A U G SEQRES 27 A 394 G C G U U C G C G C C U A SEQRES 28 A 394 A G C U U G A A C C G C C SEQRES 29 A 394 G U A U A C C G A A C G G SEQRES 30 A 394 U A C G U A C G G U G G U SEQRES 31 A 394 G U G G HET GDE A 401 11 HET MG A 402 1 HET MG A 403 1 HET MG A 404 1 HET MG A 405 1 HET MG A 406 1 HET MG A 407 1 HET NA A 408 1 HET NA A 409 1 HET NA A 410 1 HET NA A 411 1 HET NA A 412 1 HET MG A 413 1 HET MG A 414 1 HET MG A 415 1 HET MG A 416 1 HETNAM GDE 3,4,5-TRIHYDROXYBENZOIC ACID HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN GDE GALLATE FORMUL 2 GDE C7 H6 O5 FORMUL 3 MG 10(MG 2+) FORMUL 9 NA 5(NA 1+) LINK O6 G A 3 MG MG A 403 1555 1555 2.79 LINK OP1 G A 107 MG MG A 403 1555 1555 1.99 LINK O6 G A 155 MG MG A 406 1555 1555 2.58 LINK O4' G A 156 MG MG A 406 1555 1555 2.99 LINK O6 G A 194 NA NA A 410 1555 1555 2.74 LINK OP2 G A 269 NA NA A 411 1555 1555 1.96 LINK O6 G A 270 NA NA A 411 1555 1555 2.79 LINK O3' A A 282 MG MG A 407 1555 1555 2.53 LINK OP1 A A 283 MG MG A 407 1555 1555 2.94 LINK OP2 A A 319 NA NA A 408 1555 1555 2.73 LINK OP2 G A 320 NA NA A 408 1555 1555 2.17 LINK OP1 A A 356 MG MG A 402 1555 1555 2.41 LINK OP1 C A 358 MG MG A 413 1555 1555 1.89 LINK OP1 G A 359 MG MG A 414 1555 1555 2.92 LINK OP1 U A 375 MG MG A 414 1555 1555 1.71 LINK OP1 C A 377 MG MG A 413 1555 1555 2.17 LINK OP2 C A 377 MG MG A 414 1555 1555 1.75 LINK O6 G A 382 MG MG A 404 1555 1555 2.04 LINK OAC GDE A 401 MG MG A 413 1555 1555 2.11 LINK OAE GDE A 401 MG MG A 413 1555 1555 2.04 LINK OAD GDE A 401 MG MG A 414 1555 1555 2.06 LINK OAE GDE A 401 MG MG A 414 1555 1555 2.09 CRYST1 88.813 94.282 223.875 90.00 90.00 90.00 P 21 21 21 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 0.011260 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010606 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004467 0.00000