HEADER RNA 14-NOV-19 6TFH TITLE CRYSTAL STRUCTURE OF THE ADP-BINDING DOMAIN OF THE NAD+ RIBOSWITCH TITLE 2 WITH NICOTINAMIDE ADENINE DINUCLEOTIDE, REDUCED (NADH); SOAKING WITH TITLE 3 MANGANESE(II) (MN2+) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHAINS: A; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: CANDIDATUS KORIBACTER VERSATILIS ELLIN345; SOURCE 4 ORGANISM_TAXID: 204669 KEYWDS RNA STRUCTURE; RIBOSWITCH; X-RAY CRYSTALLOGRAPHY, NON-CODING RNA, RNA EXPDTA X-RAY DIFFRACTION AUTHOR L.HUANG,D.M.J.LILLEY REVDAT 2 24-JAN-24 6TFH 1 REMARK REVDAT 1 23-SEP-20 6TFH 0 JRNL AUTH L.HUANG,J.WANG,D.M.J.LILLEY JRNL TITL STRUCTURE AND LIGAND BINDING OF THE ADP-BINDING DOMAIN OF JRNL TITL 2 THE NAD+ RIBOSWITCH. JRNL REF RNA V. 26 878 2020 JRNL REFN ESSN 1469-9001 JRNL PMID 32295864 JRNL DOI 10.1261/RNA.074898.120 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 12163 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 616 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.4900 - 4.6900 0.93 2954 127 0.1583 0.1956 REMARK 3 2 4.6900 - 3.7200 0.94 2900 158 0.2241 0.2262 REMARK 3 3 3.7200 - 3.2500 0.91 2831 166 0.3340 0.4360 REMARK 3 4 3.2500 - 2.9500 0.92 2862 165 0.4378 0.4676 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.593 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.526 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 93.67 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 113.5 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 1275 REMARK 3 ANGLE : 1.950 1986 REMARK 3 CHIRALITY : 0.075 262 REMARK 3 PLANARITY : 0.011 53 REMARK 3 DIHEDRAL : 15.803 624 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TFH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1292105396. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.8923 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12163 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 48.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 2.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.500 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: 6TF0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CHLORIDE, 0.1 M MG REMARK 280 ACETATE, 0.05 M SODIUM CACODYLATE PH 6.8, 10% W/V POLYETHYLENE REMARK 280 GLYCOL 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 28.46750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 29.18000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 96.98400 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 28.46750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 29.18000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 96.98400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 28.46750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 29.18000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 96.98400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 28.46750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 29.18000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 96.98400 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL 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 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 HO3' CBV A 3 P U A 4 0.72 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 G A 19 N3 G A 19 C4 -0.044 REMARK 500 A A 29 N3 A A 29 C4 -0.038 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 A 1 N3 - C4 - C5 ANGL. DEV. = 3.1 DEGREES REMARK 500 G A 1 N3 - C4 - N9 ANGL. DEV. = -4.0 DEGREES REMARK 500 G A 2 C8 - N9 - C4 ANGL. DEV. = 2.8 DEGREES REMARK 500 G A 2 N9 - C4 - C5 ANGL. DEV. = -2.7 DEGREES REMARK 500 A A 7 C6 - N1 - C2 ANGL. DEV. = -6.8 DEGREES REMARK 500 A A 7 C2 - N3 - C4 ANGL. DEV. = 4.8 DEGREES REMARK 500 A A 7 N3 - C4 - C5 ANGL. DEV. = -5.6 DEGREES REMARK 500 A A 7 C5 - C6 - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 A A 7 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 C A 9 N3 - C4 - C5 ANGL. DEV. = 2.4 DEGREES REMARK 500 A A 11 O5' - P - OP1 ANGL. DEV. = 8.0 DEGREES REMARK 500 C A 14 O5' - P - OP2 ANGL. DEV. = -6.7 DEGREES REMARK 500 C A 14 C2 - N3 - C4 ANGL. DEV. = -3.5 DEGREES REMARK 500 C A 14 N3 - C4 - C5 ANGL. DEV. = 2.4 DEGREES REMARK 500 C A 14 C5 - C6 - N1 ANGL. DEV. = -3.9 DEGREES REMARK 500 C A 15 N1 - C2 - O2 ANGL. DEV. = 4.8 DEGREES REMARK 500 C A 15 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 G A 16 C2 - N3 - C4 ANGL. DEV. = 3.4 DEGREES REMARK 500 A A 18 N1 - C6 - N6 ANGL. DEV. = 3.7 DEGREES REMARK 500 G A 19 N3 - C4 - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 A A 29 N1 - C6 - N6 ANGL. DEV. = -3.9 DEGREES REMARK 500 A A 30 O5' - P - OP1 ANGL. DEV. = 7.4 DEGREES REMARK 500 G A 36 C2 - N3 - C4 ANGL. DEV. = 3.6 DEGREES REMARK 500 G A 36 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 G A 38 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 A A 39 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 A A 39 N1 - C6 - N6 ANGL. DEV. = -5.6 DEGREES REMARK 500 A A 40 C6 - C5 - N7 ANGL. DEV. = 4.3 DEGREES REMARK 500 A A 40 N1 - C6 - N6 ANGL. DEV. = -6.7 DEGREES REMARK 500 U A 41 C6 - N1 - C2 ANGL. DEV. = 3.6 DEGREES REMARK 500 U A 41 C5 - C6 - N1 ANGL. DEV. = -4.0 DEGREES REMARK 500 C A 42 C6 - N1 - C2 ANGL. DEV. = -2.8 DEGREES REMARK 500 C A 42 N3 - C4 - C5 ANGL. DEV. = -3.7 DEGREES REMARK 500 C A 45 C4 - C5 - C6 ANGL. DEV. = 3.2 DEGREES REMARK 500 G A 48 C5 - C6 - N1 ANGL. DEV. = -4.1 DEGREES REMARK 500 G A 48 N1 - C6 - O6 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 NAD A 110 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 MN A 103 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 8 OP1 REMARK 620 2 NAD A 110 O2A 66.6 REMARK 620 3 NAD A 110 O1N 75.6 61.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 104 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 8 OP2 REMARK 620 2 C A 9 OP2 93.6 REMARK 620 3 A A 10 N7 122.2 78.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 101 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 11 OP2 REMARK 620 2 U A 17 OP1 35.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD A 110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 111 DBREF 6TFH A 1 52 PDB 6TFH 6TFH 1 52 SEQRES 1 A 52 G G CBV U U C A A C A A C C SEQRES 2 A 52 C C G U A G G U U G G G C SEQRES 3 A 52 C G A A A G G C A G C G A SEQRES 4 A 52 A U C U A C U G G A G C C HET CBV A 3 32 HET MN A 101 1 HET MN A 102 1 HET MN A 103 1 HET MN A 104 1 HET MN A 105 1 HET MN A 106 1 HET MN A 107 1 HET MN A 108 1 HET MN A 109 1 HET NAD A 110 44 HET NA A 111 1 HETNAM CBV 5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) HETNAM MN MANGANESE (II) ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM NA SODIUM ION FORMUL 1 CBV C9 H13 BR N3 O8 P FORMUL 2 MN 9(MN 2+) FORMUL 11 NAD C21 H27 N7 O14 P2 FORMUL 12 NA NA 1+ LINK O3' G A 2 P CBV A 3 1555 1555 1.60 LINK O3' CBV A 3 P U A 4 1555 1555 1.61 LINK OP2 A A 7 MN MN A 107 1555 1555 2.45 LINK OP1 A A 8 MN MN A 103 1555 1555 2.27 LINK OP2 A A 8 MN MN A 104 1555 1555 2.20 LINK OP2 C A 9 MN MN A 104 1555 1555 2.21 LINK N7 A A 10 MN MN A 104 1555 1555 2.28 LINK OP2 A A 11 MN MN A 101 1555 1555 2.24 LINK OP1 U A 17 MN MN A 101 1555 2655 2.43 LINK N7 G A 19 MN MN A 106 1555 1555 2.08 LINK N7 G A 23 MN MN A 102 1555 1555 2.42 LINK OP1 A A 30 NA NA A 111 1555 1555 2.93 LINK N7 G A 32 MN MN A 105 1555 1555 2.30 LINK N7 G A 47 MN MN A 109 1555 1555 2.53 LINK MN MN A 103 O2A NAD A 110 1555 1555 2.54 LINK MN MN A 103 O1N NAD A 110 1555 1555 2.51 SITE 1 AC1 2 A A 11 U A 17 SITE 1 AC2 1 G A 23 SITE 1 AC3 2 A A 8 NAD A 110 SITE 1 AC4 3 A A 8 C A 9 A A 10 SITE 1 AC5 1 G A 32 SITE 1 AC6 1 G A 19 SITE 1 AC7 2 A A 7 G A 16 SITE 1 AC8 1 G A 38 SITE 1 AC9 1 G A 47 SITE 1 AD1 6 C A 6 A A 7 A A 8 G A 47 SITE 2 AD1 6 G A 48 MN A 103 SITE 1 AD2 2 G A 28 A A 30 CRYST1 56.935 58.360 193.968 90.00 90.00 90.00 I 2 2 2 8 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 0.017564 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017135 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005155 0.00000