HEADER RNA 18-JAN-16 5HNQ TITLE BASE PAIRING AND STRUCTURE INSIGHTS INTO THE 5-FORMYLCYTOSINE IN RNA TITLE 2 DUPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5FC MODIFIED RNA; COMPND 3 CHAIN: A, B, C, D, E, F, G, H, I, J, K, L, M; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS RNA, 5-FORMYLCYTOSINE EXPDTA X-RAY DIFFRACTION AUTHOR Z.LUO,J.SHENG REVDAT 3 27-SEP-23 5HNQ 1 JRNL REMARK REVDAT 2 15-JUN-16 5HNQ 1 JRNL REVDAT 1 27-APR-16 5HNQ 0 JRNL AUTH R.WANG,Z.LUO,K.HE,M.O.DELANEY,D.CHEN,J.SHENG JRNL TITL BASE PAIRING AND STRUCTURAL INSIGHTS INTO THE JRNL TITL 2 5-FORMYLCYTOSINE IN RNA DUPLEX. JRNL REF NUCLEIC ACIDS RES. V. 44 4968 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27079978 JRNL DOI 10.1093/NAR/GKW235 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 11304 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) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 619 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 829 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.3830 REMARK 3 BIN FREE R VALUE SET COUNT : 29 REMARK 3 BIN FREE R VALUE : 0.4580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 2197 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 6 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 103.5 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 23.51000 REMARK 3 B22 (A**2) : 28.82000 REMARK 3 B33 (A**2) : -52.33000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.45000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.108 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.060 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.540 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2444 ; 0.016 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3679 ; 2.408 ; 1.469 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL 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): 429 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1079 ; 0.016 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2443 ; 9.822 ;12.889 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): 11209 ;14.835 ;57.700 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 8 REMARK 3 RESIDUE RANGE : B 1 B 8 REMARK 3 RESIDUE RANGE : C 1 C 8 REMARK 3 RESIDUE RANGE : D 1 D 8 REMARK 3 RESIDUE RANGE : E 1 E 8 REMARK 3 RESIDUE RANGE : F 1 F 8 REMARK 3 ORIGIN FOR THE GROUP (A): 39.2459 6.9450 35.6679 REMARK 3 T TENSOR REMARK 3 T11: 0.1545 T22: 0.1802 REMARK 3 T33: 0.3151 T12: -0.0994 REMARK 3 T13: -0.0347 T23: -0.0621 REMARK 3 L TENSOR REMARK 3 L11: 1.3680 L22: 1.4375 REMARK 3 L33: 2.7135 L12: 0.0506 REMARK 3 L13: 0.3619 L23: 0.2804 REMARK 3 S TENSOR REMARK 3 S11: 0.2389 S12: -0.3272 S13: -0.1316 REMARK 3 S21: 0.0748 S22: 0.1489 S23: -0.4711 REMARK 3 S31: -0.4078 S32: 0.2967 S33: -0.3878 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : G 1 G 8 REMARK 3 RESIDUE RANGE : H 1 H 8 REMARK 3 RESIDUE RANGE : I 1 I 8 REMARK 3 RESIDUE RANGE : J 1 J 8 REMARK 3 RESIDUE RANGE : K 1 K 8 REMARK 3 RESIDUE RANGE : L 1 L 8 REMARK 3 ORIGIN FOR THE GROUP (A): 9.3915 8.4055 27.8362 REMARK 3 T TENSOR REMARK 3 T11: 0.2466 T22: 0.5901 REMARK 3 T33: 0.5264 T12: -0.0149 REMARK 3 T13: -0.1002 T23: 0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.1450 L22: 1.2301 REMARK 3 L33: 7.3553 L12: -0.2464 REMARK 3 L13: 1.1787 L23: 1.3444 REMARK 3 S TENSOR REMARK 3 S11: 0.1189 S12: 0.2657 S13: -0.4789 REMARK 3 S21: -0.3028 S22: -0.0896 S23: 0.5481 REMARK 3 S31: 0.0644 S32: -1.1472 S33: -0.0293 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 : M 1 M 8 REMARK 3 ORIGIN FOR THE GROUP (A): 51.7282 1.9951 76.6350 REMARK 3 T TENSOR REMARK 3 T11: 0.9388 T22: 0.7782 REMARK 3 T33: 1.1408 T12: 0.0822 REMARK 3 T13: -0.0702 T23: -0.0502 REMARK 3 L TENSOR REMARK 3 L11: 0.8374 L22: 0.2226 REMARK 3 L33: 11.8546 L12: -0.2183 REMARK 3 L13: 2.0727 L23: -0.7857 REMARK 3 S TENSOR REMARK 3 S11: -0.4572 S12: -0.5658 S13: 0.0907 REMARK 3 S21: -0.0240 S22: 0.2763 S23: -0.3803 REMARK 3 S31: 0.7962 S32: -1.3978 S33: 0.1809 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 5HNQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217388. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12285 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: 5FC1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% MPD, 40 MM NA CACODYLATE (PH 6.0), REMARK 280 12 MM SPERMINE TETRAHYDROCHLORIDE, 80 MM NACL, 12 MM KCL, 20MM REMARK 280 MGCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 69.45050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.16150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 69.45050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.16150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5, 6, 7 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: 740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: 770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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: 3 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: 750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 4 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: 740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, 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 350 REMARK 350 BIOMOLECULE: 5 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: 750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: I, J 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: 6 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: 740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: K, L 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: 7 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: 730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: M 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 BIOMT1 2 -1.000000 0.000000 0.000000 105.38257 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 148.01015 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 N2 G M 1 O2 C M 8 2658 2.03 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 3 O3' RSQ A 4 P -0.122 REMARK 500 RSQ A 4 O3' G A 5 P -0.110 REMARK 500 A B 3 O3' RSQ B 4 P -0.150 REMARK 500 RSQ B 4 O3' G B 5 P -0.141 REMARK 500 G B 5 O3' U B 6 P -0.073 REMARK 500 A C 3 O3' RSQ C 4 P -0.100 REMARK 500 RSQ C 4 O3' G C 5 P -0.102 REMARK 500 A D 3 O3' RSQ D 4 P -0.143 REMARK 500 RSQ D 4 O3' G D 5 P -0.102 REMARK 500 A E 3 O3' RSQ E 4 P -0.121 REMARK 500 RSQ E 4 O3' G E 5 P -0.107 REMARK 500 A E 7 O3' C E 8 P -0.078 REMARK 500 A F 3 O3' RSQ F 4 P -0.138 REMARK 500 RSQ F 4 O3' G F 5 P -0.157 REMARK 500 A G 3 O3' RSQ G 4 P -0.108 REMARK 500 RSQ G 4 O3' G G 5 P -0.104 REMARK 500 A G 7 O3' C G 8 P -0.083 REMARK 500 A H 3 O3' RSQ H 4 P -0.101 REMARK 500 RSQ H 4 O3' G H 5 P -0.109 REMARK 500 A I 3 O3' RSQ I 4 P -0.110 REMARK 500 RSQ I 4 O3' G I 5 P -0.120 REMARK 500 A J 3 O3' RSQ J 4 P -0.090 REMARK 500 RSQ J 4 O3' G J 5 P -0.125 REMARK 500 A K 3 O3' RSQ K 4 P -0.091 REMARK 500 RSQ K 4 O3' G K 5 P -0.087 REMARK 500 A L 3 O3' RSQ L 4 P -0.083 REMARK 500 RSQ L 4 O3' G L 5 P -0.133 REMARK 500 A M 3 O3' RSQ M 4 P -0.117 REMARK 500 RSQ M 4 O3' G M 5 P -0.110 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 RSQ A 4 O3' - P - OP2 ANGL. DEV. = 8.1 DEGREES REMARK 500 RSQ A 4 C3' - O3' - P ANGL. DEV. = 12.2 DEGREES REMARK 500 U A 6 O5' - P - OP2 ANGL. DEV. = -6.7 DEGREES REMARK 500 A B 3 O5' - P - OP2 ANGL. DEV. = -6.3 DEGREES REMARK 500 RSQ C 4 O3' - P - OP1 ANGL. DEV. = -15.2 DEGREES REMARK 500 RSQ C 4 C3' - O3' - P ANGL. DEV. = 20.2 DEGREES REMARK 500 G D 5 O5' - P - OP2 ANGL. DEV. = -12.0 DEGREES REMARK 500 RSQ E 4 C3' - O3' - P ANGL. DEV. = 19.1 DEGREES REMARK 500 G E 5 O3' - P - OP1 ANGL. DEV. = 13.1 DEGREES REMARK 500 RSQ F 4 O3' - P - OP2 ANGL. DEV. = 13.7 DEGREES REMARK 500 RSQ F 4 C3' - O3' - P ANGL. DEV. = 16.0 DEGREES REMARK 500 G F 5 O3' - P - OP1 ANGL. DEV. = 14.0 DEGREES REMARK 500 RSQ G 4 O3' - P - O5' ANGL. DEV. = -13.6 DEGREES REMARK 500 RSQ G 4 C3' - O3' - P ANGL. DEV. = 13.1 DEGREES REMARK 500 A J 3 C3' - O3' - P ANGL. DEV. = 8.4 DEGREES REMARK 500 G J 5 O3' - P - OP2 ANGL. DEV. = 7.1 DEGREES REMARK 500 A L 3 C3' - O3' - P ANGL. DEV. = -12.8 DEGREES REMARK 500 RSQ L 4 O3' - P - OP2 ANGL. DEV. = 10.6 DEGREES REMARK 500 G L 5 O3' - P - OP1 ANGL. DEV. = -13.5 DEGREES REMARK 500 U L 6 O5' - P - OP2 ANGL. DEV. = -7.3 DEGREES REMARK 500 C L 8 P - O5' - C5' ANGL. DEV. = -9.9 DEGREES REMARK 500 RSQ M 4 C3' - O3' - P ANGL. DEV. = 10.5 DEGREES REMARK 500 G M 5 O3' - P - OP1 ANGL. DEV. = 10.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HNJ RELATED DB: PDB DBREF 5HNQ A 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ B 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ C 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ D 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ E 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ F 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ G 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ H 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ I 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ J 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ K 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ L 1 8 PDB 5HNQ 5HNQ 1 8 DBREF 5HNQ M 1 8 PDB 5HNQ 5HNQ 1 8 SEQRES 1 A 8 G U A RSQ G U A C SEQRES 1 B 8 G U A RSQ G U A C SEQRES 1 C 8 G U A RSQ G U A C SEQRES 1 D 8 G U A RSQ G U A C SEQRES 1 E 8 G U A RSQ G U A C SEQRES 1 F 8 G U A RSQ G U A C SEQRES 1 G 8 G U A RSQ G U A C SEQRES 1 H 8 G U A RSQ G U A C SEQRES 1 I 8 G U A RSQ G U A C SEQRES 1 J 8 G U A RSQ G U A C SEQRES 1 K 8 G U A RSQ G U A C SEQRES 1 L 8 G U A RSQ G U A C SEQRES 1 M 8 G U A RSQ G U A C HET RSQ A 4 22 HET RSQ B 4 22 HET RSQ C 4 22 HET RSQ D 4 22 HET RSQ E 4 22 HET RSQ F 4 22 HET RSQ G 4 22 HET RSQ H 4 22 HET RSQ I 4 22 HET RSQ J 4 22 HET RSQ K 4 22 HET RSQ L 4 22 HET RSQ M 4 22 HETNAM RSQ 5-FORMYLCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) FORMUL 1 RSQ 13(C10 H14 N3 O9 P) FORMUL 14 HOH *6(H2 O) LINK O3' A A 3 P RSQ A 4 1555 1555 1.49 LINK O3' RSQ A 4 P G A 5 1555 1555 1.50 LINK O3' A B 3 P RSQ B 4 1555 1555 1.46 LINK O3' RSQ B 4 P G B 5 1555 1555 1.47 LINK O3' A C 3 P RSQ C 4 1555 1555 1.51 LINK O3' RSQ C 4 P G C 5 1555 1555 1.51 LINK O3' A D 3 P RSQ D 4 1555 1555 1.46 LINK O3' RSQ D 4 P G D 5 1555 1555 1.51 LINK O3' A E 3 P RSQ E 4 1555 1555 1.49 LINK O3' RSQ E 4 P G E 5 1555 1555 1.50 LINK O3' A F 3 P RSQ F 4 1555 1555 1.47 LINK O3' RSQ F 4 P G F 5 1555 1555 1.45 LINK O3' A G 3 P RSQ G 4 1555 1555 1.50 LINK O3' RSQ G 4 P G G 5 1555 1555 1.50 LINK O3' A H 3 P RSQ H 4 1555 1555 1.51 LINK O3' RSQ H 4 P G H 5 1555 1555 1.50 LINK O3' A I 3 P RSQ I 4 1555 1555 1.50 LINK O3' RSQ I 4 P G I 5 1555 1555 1.49 LINK O3' A J 3 P RSQ J 4 1555 1555 1.52 LINK O3' RSQ J 4 P G J 5 1555 1555 1.48 LINK O3' A K 3 P RSQ K 4 1555 1555 1.52 LINK O3' RSQ K 4 P G K 5 1555 1555 1.52 LINK O3' A L 3 P RSQ L 4 1555 1555 1.52 LINK O3' RSQ L 4 P G L 5 1555 1555 1.47 LINK O3' A M 3 P RSQ M 4 1555 1555 1.49 LINK O3' RSQ M 4 P G M 5 1555 1555 1.50 CRYST1 138.901 44.323 50.586 90.00 102.76 90.00 C 1 2 1 52 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 0.007199 0.000000 0.001631 0.00000 SCALE2 0.000000 0.022562 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020269 0.00000