HEADER RNA 20-JUN-08 3DIO TITLE CRYSTALLIZATION OF THE THERMOTOGA MARITIMA LYSINE RIBOSWITCH BOUND TO TITLE 2 LYSINE, IRIDIUM HEXAMINE SOAK COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (174-MER); COMPND 3 CHAIN: X; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: IN VITRO TRANSCRIBED RNA FROM THE THERMOTOGA MARITIMA SOURCE 4 MSB8 ASD GENE KEYWDS RIBOSWITCH, LYSINE, RNA EXPDTA X-RAY DIFFRACTION AUTHOR A.A.SERGANOV REVDAT 4 21-FEB-24 3DIO 1 REMARK LINK REVDAT 3 24-FEB-09 3DIO 1 VERSN REVDAT 2 11-NOV-08 3DIO 1 JRNL REVDAT 1 16-SEP-08 3DIO 0 JRNL AUTH A.SERGANOV,L.HUANG,D.J.PATEL JRNL TITL STRUCTURAL INSIGHTS INTO AMINO ACID BINDING AND GENE CONTROL JRNL TITL 2 BY A LYSINE RIBOSWITCH. JRNL REF NATURE V. 455 1263 2008 JRNL REFN ISSN 0028-0836 JRNL PMID 18784651 JRNL DOI 10.1038/NATURE07326 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 22478 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1206 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) : 1615 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.4510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 3752 REMARK 3 HETEROGEN ATOMS : 142 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.24000 REMARK 3 B22 (A**2) : -1.38000 REMARK 3 B33 (A**2) : 1.62000 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): 0.423 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.257 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.173 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.348 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4321 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6842 ; 1.193 ; 2.999 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): 4 ; 7.085 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 870 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1838 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1493 ; 0.154 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2551 ; 0.264 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 375 ; 0.120 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 9 ; 0.097 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 43 ; 0.127 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.120 ; 0.200 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): 5 ; 0.287 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7 ; 0.456 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4558 ; 0.877 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 6835 ; 1.372 ; 4.500 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3DIO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048085. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-08; NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; NULL; NULL REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y; Y REMARK 200 RADIATION SOURCE : NSLS; NSLS; NSLS REMARK 200 BEAMLINE : X29A; X29A; X29A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.105199; 1.105516; 1.085799 REMARK 200 MONOCHROMATOR : NULL; NULL; NULL REMARK 200 OPTICS : NULL; NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL; NULL REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; NULL; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23799 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.9000 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 (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.53900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD; NULL; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG4000, 0.1M SODIUM CITRATE, 20% REMARK 280 ISOPROPANOL, PH 5.7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K 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 26.95900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.41750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.00200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.41750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.95900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.00200 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 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 G X 1 P G X 1 OP3 -0.120 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 G X 12 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 U X 52 C3' - O3' - P ANGL. DEV. = 8.8 DEGREES REMARK 500 U X 153 C1' - O4' - C4' ANGL. DEV. = -7.7 DEGREES REMARK 500 U X 153 O4' - C1' - N1 ANGL. DEV. = 5.3 DEGREES 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 1PE X 280 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 NA X 203 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 11 OP2 REMARK 620 2 G X 12 O6 68.9 REMARK 620 3 HOH X 309 O 100.7 165.0 REMARK 620 4 HOH X 447 O 74.7 81.9 84.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 201 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 20 O6 REMARK 620 2 G X 71 O6 73.7 REMARK 620 3 HOH X 381 O 80.3 82.5 REMARK 620 4 HOH X 393 O 89.5 78.4 160.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 68 N7 REMARK 620 2 G X 69 O6 90.5 REMARK 620 3 HOH X 305 O 98.1 145.3 REMARK 620 4 HOH X 306 O 80.7 75.0 139.5 REMARK 620 5 HOH X 307 O 165.8 85.7 92.7 85.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 212 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 68 OP2 REMARK 620 2 G X 69 N7 128.7 REMARK 620 3 HOH X 485 O 112.4 92.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 205 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 80 N7 REMARK 620 2 A X 164 OP1 98.5 REMARK 620 3 HOH X 314 O 81.6 117.4 REMARK 620 4 HOH X 316 O 90.3 108.1 134.4 REMARK 620 5 HOH X 481 O 165.3 88.5 83.7 99.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 214 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A X 82 O2' REMARK 620 2 HOH X 352 O 162.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 207 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 92 O6 REMARK 620 2 U X 93 O4 69.1 REMARK 620 3 HOH X 437 O 90.6 60.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K X 200 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G X 115 O2' REMARK 620 2 LYS X 175 OXT 80.1 REMARK 620 3 HOH X 339 O 76.4 117.9 REMARK 620 4 HOH X 403 O 66.5 145.3 64.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 204 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH X 398 O REMARK 620 2 HOH X 512 O 76.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA X 206 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH X 319 O REMARK 620 2 HOH X 352 O 82.7 REMARK 620 3 HOH X 516 O 123.3 83.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K X 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA X 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 250 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 251 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 252 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 254 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 255 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 258 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 259 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 264 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IRI X 265 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LYS X 175 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DIG RELATED DB: PDB REMARK 900 RELATED ID: 3DIL RELATED DB: PDB REMARK 900 RELATED ID: 3DIM RELATED DB: PDB REMARK 900 RELATED ID: 3DIQ RELATED DB: PDB REMARK 900 RELATED ID: 3DIR RELATED DB: PDB REMARK 900 RELATED ID: 3DIS RELATED DB: PDB REMARK 900 RELATED ID: 3DIX RELATED DB: PDB REMARK 900 RELATED ID: 3DIY RELATED DB: PDB REMARK 900 RELATED ID: 3DIZ RELATED DB: PDB REMARK 900 RELATED ID: 3DJ0 RELATED DB: PDB REMARK 900 RELATED ID: 3DJ2 RELATED DB: PDB DBREF 3DIO X 1 174 PDB 3DIO 3DIO 1 174 SEQRES 1 X 174 G G C C G A C G G A G G C SEQRES 2 X 174 G C G C C C G A G A U G A SEQRES 3 X 174 G U A G G C U G U C C C A SEQRES 4 X 174 U C A G G G G A G G A A U SEQRES 5 X 174 C G G G G A C G G C U G A SEQRES 6 X 174 A A G G C G A G G G C G C SEQRES 7 X 174 C G A A G G G U G C A G A SEQRES 8 X 174 G U U C C U C C C G C U C SEQRES 9 X 174 U G C A U G C C U G G G G SEQRES 10 X 174 G U A U G G G G A A U A C SEQRES 11 X 174 C C A U A C C A C U G U C SEQRES 12 X 174 A C G G A G G U C U C U C SEQRES 13 X 174 C G U G G A G A G C C G U SEQRES 14 X 174 C G G U CCC MODRES 3DIO CCC X 174 C HET CCC X 174 23 HET K X 200 1 HET NA X 201 1 HET NA X 202 1 HET NA X 203 1 HET NA X 204 1 HET NA X 205 1 HET NA X 206 1 HET NA X 207 1 HET NA X 208 1 HET NA X 209 1 HET NA X 210 1 HET NA X 211 1 HET NA X 212 1 HET NA X 213 1 HET NA X 214 1 HET IRI X 250 7 HET IRI X 251 7 HET IRI X 252 7 HET IRI X 253 14 HET IRI X 254 7 HET IRI X 255 7 HET IRI X 256 7 HET IRI X 257 7 HET IRI X 258 7 HET IRI X 259 7 HET IRI X 260 14 HET IRI X 261 7 HET IRI X 262 7 HET IRI X 263 7 HET IRI X 264 7 HET IRI X 265 7 HET LYS X 175 10 HET 1PE X 280 5 HETNAM CCC CYTIDINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE HETNAM K POTASSIUM ION HETNAM NA SODIUM ION HETNAM IRI IRIDIUM HEXAMMINE ION HETNAM LYS LYSINE HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN 1PE PEG400 FORMUL 1 CCC C9 H13 N3 O10 P2 FORMUL 2 K K 1+ FORMUL 3 NA 14(NA 1+) FORMUL 17 IRI 16(H18 IR N6 3+) FORMUL 33 LYS C6 H15 N2 O2 1+ FORMUL 34 1PE C10 H22 O6 FORMUL 35 HOH *259(H2 O) LINK O3' U X 173 P CCC X 174 1555 1555 1.61 LINK OP2 G X 11 NA NA X 203 1555 1555 2.58 LINK O6 G X 12 NA NA X 203 1555 1555 2.58 LINK O6 G X 20 NA NA X 201 1555 1555 2.53 LINK N7 G X 68 NA NA X 202 1555 1555 2.96 LINK OP2 G X 68 NA NA X 212 1555 1555 2.85 LINK O6 G X 69 NA NA X 202 1555 1555 2.78 LINK N7 G X 69 NA NA X 212 1555 1555 2.87 LINK O6 G X 71 NA NA X 201 1555 1555 2.49 LINK N7 G X 80 NA NA X 205 1555 1555 2.72 LINK O2' A X 82 NA NA X 214 1555 1555 2.74 LINK O6 G X 92 NA NA X 207 1555 1555 2.57 LINK O4 U X 93 NA NA X 207 1555 1555 2.93 LINK O2' G X 115 K K X 200 1555 1555 2.88 LINK OP1 A X 164 NA NA X 205 1555 1555 2.46 LINK OXT LYS X 175 K K X 200 1555 1555 2.83 LINK K K X 200 O HOH X 339 1555 1555 2.77 LINK K K X 200 O HOH X 403 1555 1555 2.75 LINK NA NA X 201 O HOH X 381 1555 1555 2.23 LINK NA NA X 201 O HOH X 393 1555 1555 2.58 LINK NA NA X 202 O HOH X 305 1555 1555 2.39 LINK NA NA X 202 O HOH X 306 1555 1555 2.51 LINK NA NA X 202 O HOH X 307 1555 1555 2.43 LINK NA NA X 203 O HOH X 309 1555 1555 2.34 LINK NA NA X 203 O HOH X 447 1555 1555 2.99 LINK NA NA X 204 O HOH X 398 1555 1555 2.32 LINK NA NA X 204 O HOH X 512 1555 1555 2.92 LINK NA NA X 205 O HOH X 314 1555 1555 2.32 LINK NA NA X 205 O HOH X 316 1555 1555 2.45 LINK NA NA X 205 O HOH X 481 1555 1555 2.64 LINK NA NA X 206 O HOH X 319 1555 1555 2.39 LINK NA NA X 206 O HOH X 352 1555 1555 2.54 LINK NA NA X 206 O HOH X 516 1555 1555 2.68 LINK NA NA X 207 O HOH X 437 1555 1555 2.24 LINK NA NA X 212 O HOH X 485 1555 1555 2.51 LINK NA NA X 214 O HOH X 352 1555 1555 2.62 SITE 1 AC1 3 LYS X 175 HOH X 339 HOH X 403 SITE 1 AC2 2 HOH X 381 HOH X 393 SITE 1 AC3 3 HOH X 305 HOH X 306 HOH X 307 SITE 1 AC4 2 HOH X 309 HOH X 447 SITE 1 AC5 2 HOH X 398 HOH X 512 SITE 1 AC6 3 HOH X 314 HOH X 316 HOH X 481 SITE 1 AC7 3 HOH X 319 HOH X 352 HOH X 516 SITE 1 AC8 1 HOH X 437 SITE 1 AC9 1 HOH X 485 SITE 1 BC2 3 HOH X 319 HOH X 352 HOH X 454 SITE 1 BC3 3 HOH X 320 HOH X 321 HOH X 555 SITE 1 BC4 1 HOH X 366 SITE 1 BC5 1 HOH X 489 SITE 1 BC7 4 HOH X 368 HOH X 515 HOH X 554 HOH X 556 SITE 1 BC8 1 HOH X 312 SITE 1 BC9 2 HOH X 471 HOH X 472 SITE 1 CC2 1 HOH X 387 SITE 1 CC3 2 HOH X 322 HOH X 323 SITE 1 CC4 3 HOH X 390 HOH X 408 HOH X 505 SITE 1 CC5 1 HOH X 344 SITE 1 CC8 3 HOH X 301 HOH X 397 HOH X 398 SITE 1 CC9 1 HOH X 547 SITE 1 DC1 2 HOH X 337 HOH X 338 CRYST1 53.918 78.004 140.835 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 0.018547 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012820 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007101 0.00000