10 20 30 40 50 60 70 80 1Z5T - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 19-MAR-05 1Z5T
TITLE CRYSTAL STRUCTURE OF [D(CGCGAA(Z3DU)(Z3DU)CGCG)]2, Z3DU:5- TITLE 2 (3-AMINOPROPYL)-2'-DEOXYURIDINE, IN PRESENCE OF THALLIUM I.
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*CP*GP*AP*AP*(ZDU)P*(ZDU) COMPND 3 P*CP*GP*CP*G)-3'; COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: DICKERSON-DREW DODECAMER
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS B-DNA, TL+, THALLIUM, MODIFIED DNA, CATIONS, MODIFIED KEYWDS 2 THYMINE
EXPDTA X-RAY DIFFRACTION
AUTHOR T.MOULAEI,T.MAEHIGASHI,G.T.LOUNTOS,S.KOMEDA,D.WATKINS, AUTHOR 2 M.P.STONE,L.A.MARKY,J.S.LI,B.GOLD,L.D.WILLIAMS
REVDAT 2 24-FEB-09 1Z5T 1 VERSN REVDAT 1 26-JUL-05 1Z5T 0
JRNL AUTH T.MOULAEI,T.MAEHIGASHI,G.T.LOUNTOS,S.KOMEDA, JRNL AUTH 2 D.WATKINS,M.P.STONE,L.A.MARKY,J.S.LI,B.GOLD, JRNL AUTH 3 L.D.WILLIAMS JRNL TITL STRUCTURE OF B-DNA WITH CATIONS TETHERED IN THE JRNL TITL 2 MAJOR GROOVE. JRNL REF BIOCHEMISTRY V. 44 7458 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15895989 JRNL DOI 10.1021/BI050128Z
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.010 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 447402.281 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 77.2 REMARK 3 NUMBER OF REFLECTIONS : 7355 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 SET) : 0.198 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.600 REMARK 3 FREE R VALUE TEST SET COUNT : 778 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 24.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 203 REMARK 3 BIN R VALUE (WORKING SET) : 0.1720 REMARK 3 BIN FREE R VALUE : 0.2220 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 11.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 26 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.043 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 498 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 106 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.87000 REMARK 3 B22 (A**2) : 1.22000 REMARK 3 B33 (A**2) : -7.09000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.38 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 1.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.43 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; 0.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; 0.000 REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; 0.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; 0.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 62.02 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN.TOP REMARK 3 PARAMETER FILE 2 : DNA-RNA_TINOUSH.TOP REMARK 3 PARAMETER FILE 3 : WATER.TOP REMARK 3 PARAMETER FILE 4 : ION2.TOP REMARK 3 PARAMETER FILE 5 : SPM.TOP REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN_REP.PARAM REMARK 3 TOPOLOGY FILE 2 : DNA-RNA_REP_TINOUSH.PARAM REMARK 3 TOPOLOGY FILE 3 : WATER_REP.PARAM REMARK 3 TOPOLOGY FILE 4 : ION2.PARAM REMARK 3 TOPOLOGY FILE 5 : SPM.PARAM REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1Z5T COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-05. REMARK 100 THE RCSB ID CODE IS RCSB032334.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-03 REMARK 200 TEMPERATURE (KELVIN) : 113.2 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00930 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8901 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 77.3 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 49.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.30 REMARK 200 R MERGE FOR SHELL (I) : 0.55500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: CNS REMARK 200 STARTING MODEL: NDB ENTERY BDL084 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, CACODYLATE (PH ADJUSTED USING REMARK 280 SPERMINE BASE), SPERMINE ACETATE, ANAPOE-C12E10 (DETERGENT), REMARK 280 PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295.2K
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 12.49700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.16950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.52850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.16950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.49700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 20.52850 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: DIMERIC 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 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 DC A 1 O5' REMARK 480 DC B 13 O5'
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 OP2 ZDU A 7 O HOH A 86 2.05 REMARK 500 O HOH A 64 O HOH A 86 2.09 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 DG A 10 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DC A 9 0.06 SIDE_CHAIN 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 102 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH B 105 DISTANCE = 5.38 ANGSTROMS REMARK 525 HOH A 111 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH A 126 DISTANCE = 5.36 ANGSTROMS
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 SPM A 25 REMARK 610 SPM B 26
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 TL A 27 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 38 O REMARK 620 2 HOH A 71 O 127.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL A 29 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC A 11 O4' REMARK 620 2 HOH A 48 O 112.4 REMARK 620 3 DG A 10 N2 104.1 136.2 REMARK 620 4 DG A 10 N3 115.4 129.1 41.4 REMARK 620 5 DG A 10 O4' 117.3 74.5 109.5 69.1 REMARK 620 6 DG B 16 N2 143.5 80.5 55.7 71.5 98.9 REMARK 620 7 HOH B 55 O 79.3 57.3 109.4 148.1 131.5 80.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL A 30 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 40 O REMARK 620 2 ZDU A 7 O2 116.9 REMARK 620 3 ZDU B 19 O2 102.4 80.1 REMARK 620 4 HOH A 44 O 137.6 95.1 110.3 REMARK 620 5 ZDU B 20 O4' 100.2 134.3 66.0 70.8 REMARK 620 6 ZDU A 8 O4' 75.1 66.7 139.8 95.2 154.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL A 32 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA A 6 OP1 REMARK 620 2 DA A 6 O5' 48.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL B 31 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 106 O REMARK 620 2 HOH A 39 O 153.7 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 SPM A 25 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM B 26 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL A 27 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL B 28 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL A 29 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL A 30 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL B 31 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL A 32 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL A 33 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL B 34
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BD0054 RELATED DB: NDB REMARK 900 THE UNMODIFIED DODECAMER GROWN IN PRESENCE OF THALLIUM I REMARK 900 CATIONS.
DBREF 1Z5T A 1 12 PDB 1Z5T 1Z5T 1 12 DBREF 1Z5T B 13 24 PDB 1Z5T 1Z5T 13 24
SEQRES 1 A 12 DC DG DC DG DA DA ZDU ZDU DC DG DC DG SEQRES 1 B 12 DC DG DC DG DA DA ZDU ZDU DC DG DC DG
MODRES 1Z5T ZDU A 7 DU MODRES 1Z5T ZDU A 8 DU MODRES 1Z5T ZDU B 19 DU MODRES 1Z5T ZDU B 20 DU
HET ZDU A 7 23 HET ZDU A 8 23 HET ZDU B 19 23 HET ZDU B 20 23 HET SPM A 25 8 HET SPM B 26 6 HET TL A 27 1 HET TL B 28 1 HET TL A 29 1 HET TL A 30 1 HET TL B 31 1 HET TL A 32 1 HET TL A 33 1 HET TL B 34 1
HETNAM ZDU 5-(3-AMINOPROPYL)-2'-DEOXYURIDINE-5'-MONOPHOSPHATE HETNAM SPM SPERMINE HETNAM TL THALLIUM (I) ION
FORMUL 1 ZDU 4(C12 H20 N3 O8 P) FORMUL 3 SPM 2(C10 H26 N4) FORMUL 5 TL 8(TL 1+) FORMUL 13 HOH *106(H2 O)
LINK O3' DA A 6 P ZDU A 7 1555 1555 1.60 LINK O3' ZDU A 7 P ZDU A 8 1555 1555 1.61 LINK O3' ZDU A 8 P DC A 9 1555 1555 1.61 LINK TL TL A 27 O HOH A 38 1555 1555 2.86 LINK TL TL A 27 O HOH A 71 1555 1555 2.79 LINK TL TL A 29 O4' DC A 11 1555 1555 2.80 LINK TL TL A 29 O HOH A 48 1555 1555 2.92 LINK TL TL A 29 N2 DG A 10 1555 1555 3.47 LINK TL TL A 29 N3 DG A 10 1555 1555 2.76 LINK TL TL A 29 O4' DG A 10 1555 1555 3.32 LINK TL TL A 29 N2 DG B 16 1555 1555 3.13 LINK TL TL A 30 O HOH B 40 1555 1555 2.77 LINK TL TL A 30 O2 ZDU A 7 1555 1555 2.80 LINK TL TL A 30 O2 ZDU B 19 1555 1555 2.82 LINK TL TL A 30 O HOH A 44 1555 1555 2.85 LINK TL TL A 30 O4' ZDU B 20 1555 1555 3.30 LINK TL TL A 30 O4' ZDU A 8 1555 1555 3.28 LINK TL TL A 32 OP1 DA A 6 1555 1555 2.56 LINK TL TL A 32 O5' DA A 6 1555 1555 3.31 LINK TL TL A 33 O HOH A 58 1555 1555 3.16 LINK O3' DA B 18 P ZDU B 19 1555 1555 1.62 LINK O3' ZDU B 19 P ZDU B 20 1555 1555 1.61 LINK O3' ZDU B 20 P DC B 21 1555 1555 1.61 LINK TL TL B 31 O HOH A 106 1555 1555 2.46 LINK TL TL B 31 O HOH A 39 1555 1555 2.56 LINK TL TL B 34 O HOH B 57 1555 1555 2.75 LINK TL TL A 29 O HOH B 55 1555 2444 2.98
SITE 1 AC1 5 DG A 12 HOH A 42 DC B 13 DG B 22 SITE 2 AC1 5 TL B 28 SITE 1 AC2 5 DC B 15 DG B 16 DA B 17 TL B 34 SITE 2 AC2 5 HOH B 52 SITE 1 AC3 4 DA A 5 DG A 12 HOH A 38 HOH A 71 SITE 1 AC4 1 SPM A 25 SITE 1 AC5 5 DG A 10 DC A 11 HOH A 48 DG B 16 SITE 2 AC5 5 HOH B 55 SITE 1 AC6 6 ZDU A 7 ZDU A 8 HOH A 44 ZDU B 19 SITE 2 AC6 6 ZDU B 20 HOH B 40 SITE 1 AC7 3 HOH A 39 HOH A 106 DC B 21 SITE 1 AC8 1 DA A 6 SITE 1 AC9 1 ZDU A 8 SITE 1 BC1 2 SPM B 26 HOH B 57
CRYST1 24.994 41.057 66.339 90.00 90.00 90.00 P 21 21 21 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 0.040010 0.000000 0.000000 0.00000
SCALE2 0.000000 0.024360 0.000000 0.00000
SCALE3 0.000000 0.000000 0.015070 0.00000