Header list of 1skp.pdb file
Complete list - 2 20 Bytes
HEADER DNA 20-MAY-98 1SKP
TITLE NMR STRUCTURE OF D(GCATATGATAG)(DOT)D(CTATCATATGC): A CONSENSUS
TITLE 2 SEQUENCE FOR PROMOTERS RECOGNIZED BY SIGMA-K RNA POLYMERASE, 4
TITLE 3 STRUCTURES
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: SIGMA-K RNA POLYMERASE CONSENSUS SEQUENCE;
COMPND 3 CHAIN: A;
COMPND 4 ENGINEERED: YES;
COMPND 5 MOL_ID: 2;
COMPND 6 MOLECULE: SIGMA-K RNA POLYMERASE CONSENSUS SEQUENCE;
COMPND 7 CHAIN: B;
COMPND 8 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 MOL_ID: 2;
SOURCE 4 SYNTHETIC: YES
KEYWDS PROMOTER SEQUENCE, DNA
EXPDTA SOLUTION NMR
NUMMDL 4
AUTHOR M.TONELLI,E.RAGG,A.M.BIANUCCI,K.LESIAK,T.L.JAMES
REVDAT 4 02-MAR-22 1SKP 1 REMARK
REVDAT 3 24-FEB-09 1SKP 1 VERSN
REVDAT 2 01-APR-03 1SKP 1 JRNL
REVDAT 1 13-JAN-99 1SKP 0
JRNL AUTH M.TONELLI,E.RAGG,A.M.BIANUCCI,K.LESIAK,T.L.JAMES
JRNL TITL NUCLEAR MAGNETIC RESONANCE STRUCTURE OF D(GCATATGATAG).
JRNL TITL 2 D(CTATCATATGC): A CONSENSUS SEQUENCE FOR PROMOTERS
JRNL TITL 3 RECOGNIZED BY SIGMA K RNA POLYMERASE.
JRNL REF BIOCHEMISTRY V. 37 11745 1998
JRNL REFN ISSN 0006-2960
JRNL PMID 9718297
JRNL DOI 10.1021/BI980481N
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : AMBER
REMARK 3 AUTHORS : PEARLMAN
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE
REMARK 3 BIOCHEMISTRY CITATION ABOVE. MODEL 1 : REFINED BY RMD FROM A-DNA
REMARK 3 MODEL 2 : REFINED BY RMD FROM B-DNA MODEL 3 : REFINED BY RMC
REMARK 3 FROM A-DNA MODEL 4 : REFINED BY RMC FROM B-DNA
REMARK 4
REMARK 4 1SKP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 100 THE DEPOSITION ID IS D_1000176401.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 298
REMARK 210 PH : 7.0
REMARK 210 IONIC STRENGTH : 0.5 M
REMARK 210 PRESSURE : 1 ATMOSPHERE
REMARK 210 SAMPLE CONTENTS : H2O AND D2O
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; COSY
REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ
REMARK 210 SPECTROMETER MODEL : AMX600
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : MARDIGRAS, AMBER, DNAMINICARLO
REMARK 210 METHOD USED : MOLECULAR DYNAMIC (RMD) AND
REMARK 210 MONTE CARLO (RMC) CALCULATIONS
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 20
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 4
REMARK 210 CONFORMERS, SELECTION CRITERIA : CONVERGENCE, R FACTORS, ENERGIES
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL
REMARK 210
REMARK 210 REMARK: STRUCTURE DETERMINED WITH HOMONUCLEAR NMR METHODS.
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 1 DC A 2 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES
REMARK 500 1 DT A 4 O4' - C1' - C2' ANGL. DEV. = -6.0 DEGREES
REMARK 500 1 DT A 4 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES
REMARK 500 1 DT A 4 C4 - C5 - C7 ANGL. DEV. = 4.9 DEGREES
REMARK 500 1 DT A 4 C6 - C5 - C7 ANGL. DEV. = -7.7 DEGREES
REMARK 500 1 DG A 7 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES
REMARK 500 1 DA A 8 O4' - C4' - C3' ANGL. DEV. = 4.0 DEGREES
REMARK 500 1 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES
REMARK 500 1 DT A 9 C6 - C5 - C7 ANGL. DEV. = -5.2 DEGREES
REMARK 500 1 DA A 10 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES
REMARK 500 1 DG A 11 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES
REMARK 500 1 DT B 13 C6 - C5 - C7 ANGL. DEV. = -5.6 DEGREES
REMARK 500 1 DT B 15 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES
REMARK 500 1 DA B 17 O4' - C1' - N9 ANGL. DEV. = 5.7 DEGREES
REMARK 500 1 DA B 17 N1 - C6 - N6 ANGL. DEV. = 3.7 DEGREES
REMARK 500 1 DA B 17 C5 - C6 - N6 ANGL. DEV. = -5.4 DEGREES
REMARK 500 1 DT B 18 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES
REMARK 500 1 DT B 20 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES
REMARK 500 1 DT B 20 C6 - C5 - C7 ANGL. DEV. = -5.3 DEGREES
REMARK 500 1 DG B 21 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES
REMARK 500 2 DC A 2 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES
REMARK 500 2 DT A 4 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES
REMARK 500 2 DT A 4 C4 - C5 - C7 ANGL. DEV. = 4.0 DEGREES
REMARK 500 2 DT A 4 C6 - C5 - C7 ANGL. DEV. = -7.7 DEGREES
REMARK 500 2 DA A 5 O4' - C4' - C3' ANGL. DEV. = 4.2 DEGREES
REMARK 500 2 DG A 7 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES
REMARK 500 2 DA A 8 O4' - C4' - C3' ANGL. DEV. = 4.1 DEGREES
REMARK 500 2 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES
REMARK 500 2 DT A 9 C6 - C5 - C7 ANGL. DEV. = -5.2 DEGREES
REMARK 500 2 DA A 10 O4' - C1' - N9 ANGL. DEV. = 6.1 DEGREES
REMARK 500 2 DG A 11 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES
REMARK 500 2 DT B 13 C6 - C5 - C7 ANGL. DEV. = -5.1 DEGREES
REMARK 500 2 DT B 15 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES
REMARK 500 2 DA B 17 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES
REMARK 500 2 DA B 17 C5 - C6 - N6 ANGL. DEV. = -5.1 DEGREES
REMARK 500 2 DT B 18 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES
REMARK 500 2 DT B 20 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES
REMARK 500 2 DT B 20 C6 - C5 - C7 ANGL. DEV. = -5.3 DEGREES
REMARK 500 2 DG B 21 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES
REMARK 500 2 DC B 22 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES
REMARK 500 3 DG A 1 C3' - O3' - P ANGL. DEV. = 11.8 DEGREES
REMARK 500 4 DG A 1 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES
REMARK 500 4 DG A 1 C3' - O3' - P ANGL. DEV. = 9.0 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 1 DT A 4 0.12 SIDE CHAIN
REMARK 500 1 DA A 10 0.07 SIDE CHAIN
REMARK 500 1 DG A 11 0.06 SIDE CHAIN
REMARK 500 1 DA B 17 0.09 SIDE CHAIN
REMARK 500 1 DG B 21 0.05 SIDE CHAIN
REMARK 500 2 DT A 4 0.10 SIDE CHAIN
REMARK 500 2 DG B 21 0.05 SIDE CHAIN
REMARK 500 2 DC B 22 0.09 SIDE CHAIN
REMARK 500
REMARK 500 REMARK: NULL
DBREF 1SKP A 1 11 PDB 1SKP 1SKP 1 11
DBREF 1SKP B 12 22 PDB 1SKP 1SKP 12 22
SEQRES 1 A 11 DG DC DA DT DA DT DG DA DT DA DG
SEQRES 1 B 11 DC DT DA DT DC DA DT DA DT DG DC
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
MODEL 1
Complete list - 2 20 Bytes