Header list of 1xci.pdb file
Complete list - 6 201 Bytes
HEADER DNA 02-SEP-04 1XCI
TITLE MISPAIR ALIGNED N3T-BUTYL-N3T INTERSTRAND CROSSLINK
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: 5'-D(*CP*GP*AP*AP*AP*(TTM)P*TP*TP*TP*CP*G)-3';
COMPND 3 CHAIN: A, B;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT;
SOURCE 4 ORGANISM_TAXID: 32630
KEYWDS INTERSTRAND CROSS-LINK, DOUBLE HELIX, DNA
EXPDTA SOLUTION NMR
AUTHOR M.W.DA SILVA,R.G.BIERBRYER,C.J.WILDS,A.M.NORONHA,O.M.COLVIN,
AUTHOR 2 P.S.MILLER,M.P.GAMCSIK
REVDAT 3 06-JUN-18 1XCI 1 SOURCE REMARK
REVDAT 2 24-FEB-09 1XCI 1 VERSN
REVDAT 1 16-AUG-05 1XCI 0
JRNL AUTH M.W.DA SILVA,R.G.BIERBRYER,C.J.WILDS,A.M.NORONHA,O.M.COLVIN,
JRNL AUTH 2 P.S.MILLER,M.P.GAMCSIK
JRNL TITL INTRASTRAND BASE-STACKING BUTTRESSES WIDENING OF MAJOR
JRNL TITL 2 GROOVE IN INTERSTRAND CROSS-LINKED B-DNA.
JRNL REF BIOORG.MED.CHEM. V. 13 4580 2005
JRNL REFN ISSN 0968-0896
JRNL PMID 15953553
JRNL DOI 10.1016/J.BMC.2005.03.032
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : X-PLOR 2.1
REMARK 3 AUTHORS : BRUNGER
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 1XCI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-04.
REMARK 100 THE DEPOSITION ID IS D_1000030202.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 293; 273
REMARK 210 PH : 7.4; 7.4
REMARK 210 IONIC STRENGTH : 100 MM NACL; 100 MM NACL
REMARK 210 PRESSURE : NORMAL; NORMAL
REMARK 210 SAMPLE CONTENTS : 1.5 MM SAMPLE IN 100 MM NACL, 50
REMARK 210 MM PHOSPHATE PH 7.4, D2O; 1.5 MM
REMARK 210 SAMPLE IN 100 MM NACL, 50 MM
REMARK 210 PHOSPHATE PH 7.4, H2O
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; 2D TOCSY; 2D NOESY; JR
REMARK 210 -NOESY; 31P,1H HETCOR
REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ
REMARK 210 SPECTROMETER MODEL : INOVA
REMARK 210 SPECTROMETER MANUFACTURER : VARIAN
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : NULL
REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED
REMARK 210 ANNEALING, MOLECULAR DYNAMICS
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 15
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1
REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST
REMARK 210 ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK: STRUCTURE DETERMINED USING STANDARD NMR TECHNIQUES
REMARK 215
REMARK 215 NMR STUDY
REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION
REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT
REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON
REMARK 215 THESE RECORDS ARE MEANINGLESS.
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 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 DC A 1 C4' - C3' - C2' ANGL. DEV. = -4.6 DEGREES
REMARK 500 DC A 1 C3' - C2' - C1' ANGL. DEV. = -5.9 DEGREES
REMARK 500 DA A 3 C3' - C2' - C1' ANGL. DEV. = -6.2 DEGREES
REMARK 500 DA A 3 N1 - C6 - N6 ANGL. DEV. = 3.9 DEGREES
REMARK 500 DA A 3 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES
REMARK 500 DA A 4 C4' - C3' - C2' ANGL. DEV. = -4.5 DEGREES
REMARK 500 DA A 4 C3' - C2' - C1' ANGL. DEV. = -8.0 DEGREES
REMARK 500 DA A 4 O4' - C1' - C2' ANGL. DEV. = -6.5 DEGREES
REMARK 500 DA A 4 O4' - C1' - N9 ANGL. DEV. = 6.7 DEGREES
REMARK 500 DA A 5 C3' - C2' - C1' ANGL. DEV. = -6.1 DEGREES
REMARK 500 DA A 5 N1 - C6 - N6 ANGL. DEV. = 5.0 DEGREES
REMARK 500 DT A 7 C4 - C5 - C6 ANGL. DEV. = 3.7 DEGREES
REMARK 500 DT A 7 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES
REMARK 500 DT A 8 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES
REMARK 500 DT A 8 C4 - C5 - C6 ANGL. DEV. = 4.0 DEGREES
REMARK 500 DT A 8 C6 - C5 - C7 ANGL. DEV. = -5.8 DEGREES
REMARK 500 DT A 9 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES
REMARK 500 DT A 9 C3' - C2' - C1' ANGL. DEV. = -10.3 DEGREES
REMARK 500 DT A 9 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES
REMARK 500 DT A 9 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES
REMARK 500 DT A 9 C4 - C5 - C6 ANGL. DEV. = 3.7 DEGREES
REMARK 500 DT A 9 C6 - C5 - C7 ANGL. DEV. = -4.2 DEGREES
REMARK 500 DC A 10 C3' - C2' - C1' ANGL. DEV. = -6.2 DEGREES
REMARK 500 DG A 11 O4' - C4' - C3' ANGL. DEV. = -3.6 DEGREES
REMARK 500 DG A 11 C3' - C2' - C1' ANGL. DEV. = -8.4 DEGREES
REMARK 500 DC B 1 C3' - C2' - C1' ANGL. DEV. = -6.6 DEGREES
REMARK 500 DC B 1 O4' - C1' - C2' ANGL. DEV. = -5.8 DEGREES
REMARK 500 DG B 2 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES
REMARK 500 DG B 2 C3' - C2' - C1' ANGL. DEV. = -10.6 DEGREES
REMARK 500 DA B 3 C3' - C2' - C1' ANGL. DEV. = -6.5 DEGREES
REMARK 500 DA B 3 N1 - C6 - N6 ANGL. DEV. = 4.4 DEGREES
REMARK 500 DA B 3 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES
REMARK 500 DA B 4 C3' - C2' - C1' ANGL. DEV. = -9.1 DEGREES
REMARK 500 DA B 4 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES
REMARK 500 DA B 5 C3' - C2' - C1' ANGL. DEV. = -7.2 DEGREES
REMARK 500 DA B 5 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES
REMARK 500 DA B 5 N1 - C6 - N6 ANGL. DEV. = 4.7 DEGREES
REMARK 500 DT B 7 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES
REMARK 500 DT B 8 C3' - C2' - C1' ANGL. DEV. = -5.8 DEGREES
REMARK 500 DT B 8 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES
REMARK 500 DT B 8 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES
REMARK 500 DT B 9 C3' - C2' - C1' ANGL. DEV. = -9.4 DEGREES
REMARK 500 DT B 9 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES
REMARK 500 DC B 10 C3' - C2' - C1' ANGL. DEV. = -6.9 DEGREES
REMARK 500 DG B 11 O4' - C4' - C3' ANGL. DEV. = -3.8 DEGREES
REMARK 500 DG B 11 C3' - C2' - C1' ANGL. DEV. = -9.0 DEGREES
REMARK 500
REMARK 500 REMARK: NULL
DBREF 1XCI A 1 11 PDB 1XCI 1XCI 1 11
DBREF 1XCI B 1 11 PDB 1XCI 1XCI 1 11
SEQRES 1 A 11 DC DG DA DA DA TTM DT DT DT DC DG
SEQRES 1 B 11 DC DG DA DA DA TTM DT DT DT DC DG
MODRES 1XCI TTM A 6 DT N3-ETHYL-THYMIDINE-5'-MONOPHOSPHATE
MODRES 1XCI TTM B 6 DT N3-ETHYL-THYMIDINE-5'-MONOPHOSPHATE
HET TTM A 6 37
HET TTM B 6 37
HETNAM TTM N3-ETHYL-THYMIDINE-5'-MONOPHOSPHATE
FORMUL 1 TTM 2(C12 H19 N2 O8 P)
LINK C2Q TTM A 6 C2Q TTM B 6 1555 1555 1.62
LINK O3' DA A 5 P TTM A 6 1555 1555 1.60
LINK O3' TTM A 6 P DT A 7 1555 1555 1.60
LINK O3' DA B 5 P TTM B 6 1555 1555 1.60
LINK O3' TTM B 6 P DT B 7 1555 1555 1.60
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000
Complete list - 6 201 Bytes