HEADER DNA/ANTIBIOTIC 18-AUG-88 1VTG TITLE THE MOLECULAR STRUCTURE OF A DNA-TRIOSTIN A COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*GP*TP*AP*CP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: TRIOSTIN A; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 8 ORGANISM_TAXID: 1931 KEYWDS BISINTERCALATOR, DEPSIPEPTIDE, QUINOXALINE, ANTIBIOTIC, ANTITUMOR, KEYWDS 2 DNA-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.H.-J.WANG,G.UGHETTO,G.J.QUIGLEY,T.HAKOSHIMA,G.A.VAN DER MAREL, AUTHOR 2 J.H.VAN BOOM,A.RICH REVDAT 5 27-DEC-23 1VTG 1 LINK REVDAT 4 10-OCT-18 1VTG 1 SOURCE JRNL REVDAT 3 22-FEB-12 1VTG 1 KEYWDS SOURCE REVDAT 2 05-OCT-11 1VTG 1 HEADER REMARK REVDAT 1 13-JUL-11 1VTG 0 JRNL AUTH A.H.WANG,G.UGHETTO,G.J.QUIGLEY,T.HAKOSHIMA, JRNL AUTH 2 G.A.VAN DER MAREL,J.H.VAN BOOM,A.RICH JRNL TITL THE MOLECULAR STRUCTURE OF A DNA-TRIOSTIN A COMPLEX. JRNL REF SCIENCE V. 225 1115 1984 JRNL REFN ISSN 0036-8075 JRNL PMID 6474168 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.UGHETTO,A.H.WANG,G.J.QUIGLEY,G.A.VAN DER MAREL, REMARK 1 AUTH 2 J.H.VAN BOOM,A.RICH REMARK 1 TITL A COMPARISON OF THE STRUCTURE OF ECHINOMYCIN AND TRIOSTIN A REMARK 1 TITL 2 COMPLEXED TO A DNA FRAGMENT. REMARK 1 REF NUCLEIC ACIDS RES. V. 13 2305 1985 REMARK 1 REFN ISSN 0305-1048 REMARK 1 PMID 4000957 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.H.WANG,G.UGHETTO,G.J.QUIGLEY,A.RICH REMARK 1 TITL INTERACTIONS OF QUINOXALINE ANTIBIOTIC AND DNA: THE REMARK 1 TITL 2 MOLECULAR STRUCTURE OF A TRIOSTIN A-D(GCGTACGC) COMPLEX. REMARK 1 REF J. BIOMOL. STRUCT. DYN. V. 4 319 1986 REMARK 1 REFN ISSN 0739-1102 REMARK 1 PMID 3271447 REMARK 1 DOI 10.1080/07391102.1986.10506353 REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NUCLSQ REMARK 3 AUTHORS : WESTHOF,DUMAS,MORAS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 52 REMARK 3 NUCLEIC ACID ATOMS : 120 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 SUGAR-BASE BOND DISTANCE (A) : NULL ; NULL REMARK 3 SUGAR-BASE BOND ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 PHOSPHATE BONDS DISTANCE (A) : NULL ; NULL REMARK 3 PHOSPHATE BOND ANGLE, H-BOND (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION CONTACT (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION CONTACT (A) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 SUGAR-BASE BONDS (A**2) : NULL ; NULL REMARK 3 SUGAR-BASE ANGLES (A**2) : NULL ; NULL REMARK 3 PHOSPHATE BONDS (A**2) : NULL ; NULL REMARK 3 PHOSPHATE BOND ANGLE, H-BOND (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 COORDINATES ARE REPORTED IN THE JRNL REFERENCE PAPER REMARK 3 AS A COMPARISON. REMARK 4 REMARK 4 1VTG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000003040. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 257.00 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : DIFFRACTOMETER REMARK 200 DETECTOR MANUFACTURER : NICOLET P3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 2995 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.00, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: F 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,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z+1/2 REMARK 290 7555 -X,Y+1/2,-Z+1/2 REMARK 290 8555 X,-Y+1/2,-Z+1/2 REMARK 290 9555 X+1/2,Y,Z+1/2 REMARK 290 10555 -X+1/2,-Y,Z+1/2 REMARK 290 11555 -X+1/2,Y,-Z+1/2 REMARK 290 12555 X+1/2,-Y,-Z+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z REMARK 290 14555 -X+1/2,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y+1/2,-Z REMARK 290 16555 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 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.19000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 30.63000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.19000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 30.63000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 31.19000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 30.63000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 31.19000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 30.63000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 30.63000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 30.63000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 30.63000 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 30.63000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 31.19000 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 31.19000 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 31.19000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 15.67500 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 31.19000 REMARK 290 SMTRY3 16 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: TETRAMERIC 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 TRIOSTIN IS A BICYCLIC OCTADEPSIPEPTIDE, A MEMBER REMARK 400 OF THE QUINOXALINE CLASS OF ANTIBIOTICS. REMARK 400 REMARK 400 HERE, TRIOSTIN IS REPRESENTED BY GROUPING TOGETHER THE REMARK 400 SEQUENCE (SEQRES) AND THE TWO LIGANDS (HET) QUI REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: TRIOSTIN REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 8 REMARK 400 COMPONENT_2: QUINALDIC ACID CHROMOPHORE RESIDUES 0 AND 9 REMARK 400 DESCRIPTION: TRIOSTIN IS A IS A BICYCLIC OCTADEPSIPEPTIDE. REMARK 400 BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND REMARK 400 THE C- TERMINI, AND A DISULPHIDE BOND BETWEEN REMARK 400 RESIDUES 3 AND 7. REMARK 400 THE TWO QUINOXALINE CHROMOPHORES ARE LINKED REMARK 400 TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5. REMARK 400 REMARK 400 THE TRIOSTIN A IS CYCLIC DEPSIPEPTIDE, A MEMBER OF ANTICANCER CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: TRIOSTIN A REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE QUI, 2 COPIES REMARK 400 DESCRIPTION: TRIOSTIN IS A BICYCLIC OCTADEPSIPEPTIDE. REMARK 400 BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND THE REMARK 400 C- TERMINI, AND A DISULPHIDE BOND BETWEEN RESIDUES 3 REMARK 400 AND 7. THE TWO QUINOXALINE CHROMOPHORES ARE LINKED REMARK 400 TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5. 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 DC A 1 C4' DC A 1 C3' 0.083 REMARK 500 DC A 1 C4 DC A 1 N4 -0.197 REMARK 500 DG A 2 C2' DG A 2 C1' 0.118 REMARK 500 DG A 2 O3' DG A 2 C3' -0.082 REMARK 500 DG A 2 C6 DG A 2 N1 -0.102 REMARK 500 DG A 2 N7 DG A 2 C8 0.037 REMARK 500 DG A 2 C2 DG A 2 N2 -0.122 REMARK 500 DT A 3 C4' DT A 3 C3' 0.119 REMARK 500 DT A 3 O3' DT A 3 C3' -0.061 REMARK 500 DT A 3 C5 DT A 3 C6 0.042 REMARK 500 DT A 3 C4 DT A 3 O4 0.057 REMARK 500 DT A 3 C5 DT A 3 C7 0.121 REMARK 500 DA A 4 P DA A 4 O5' 0.084 REMARK 500 DA A 4 C4' DA A 4 C3' 0.109 REMARK 500 DA A 4 C2' DA A 4 C1' 0.080 REMARK 500 DA A 4 O4' DA A 4 C4' -0.095 REMARK 500 DA A 4 O3' DA A 4 C3' -0.058 REMARK 500 DA A 4 N7 DA A 4 C8 0.044 REMARK 500 DC A 5 C4' DC A 5 C3' 0.060 REMARK 500 DC A 5 C3' DC A 5 C2' -0.054 REMARK 500 DC A 5 C2' DC A 5 C1' 0.073 REMARK 500 DG A 6 P DG A 6 O5' 0.083 REMARK 500 DG A 6 C4' DG A 6 C3' 0.099 REMARK 500 DG A 6 C2' DG A 6 C1' 0.106 REMARK 500 DG A 6 C6 DG A 6 N1 -0.055 REMARK 500 DG A 6 C8 DG A 6 N9 -0.048 REMARK 500 DG A 6 C2 DG A 6 N2 -0.081 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 DC A 1 O5' - C5' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DC A 1 O4' - C1' - N1 ANGL. DEV. = -4.7 DEGREES REMARK 500 DC A 1 N1 - C2 - N3 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC A 1 C2 - N3 - C4 ANGL. DEV. = 5.6 DEGREES REMARK 500 DC A 1 N3 - C4 - C5 ANGL. DEV. = -4.3 DEGREES REMARK 500 DC A 1 N1 - C2 - O2 ANGL. DEV. = 5.3 DEGREES REMARK 500 DC A 1 N3 - C4 - N4 ANGL. DEV. = -9.4 DEGREES REMARK 500 DG A 2 O5' - P - OP1 ANGL. DEV. = 7.3 DEGREES REMARK 500 DG A 2 O5' - P - OP2 ANGL. DEV. = -12.2 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 8.2 DEGREES REMARK 500 DG A 2 C4 - C5 - C6 ANGL. DEV. = -3.8 DEGREES REMARK 500 DG A 2 C5 - C6 - N1 ANGL. DEV. = 7.2 DEGREES REMARK 500 DG A 2 C4 - C5 - N7 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 2 C5 - N7 - C8 ANGL. DEV. = -3.3 DEGREES REMARK 500 DG A 2 N1 - C2 - N2 ANGL. DEV. = 9.5 DEGREES REMARK 500 DG A 2 N3 - C2 - N2 ANGL. DEV. = -9.7 DEGREES REMARK 500 DG A 2 C5 - C6 - O6 ANGL. DEV. = -7.8 DEGREES REMARK 500 DT A 3 O5' - P - OP1 ANGL. DEV. = -6.6 DEGREES REMARK 500 DT A 3 O5' - P - OP2 ANGL. DEV. = 11.6 DEGREES REMARK 500 DT A 3 O5' - C5' - C4' ANGL. DEV. = -5.8 DEGREES REMARK 500 DT A 3 P - O5' - C5' ANGL. DEV. = -13.9 DEGREES REMARK 500 DT A 3 O4' - C4' - C3' ANGL. DEV. = -3.4 DEGREES REMARK 500 DT A 3 C5' - C4' - O4' ANGL. DEV. = 13.4 DEGREES REMARK 500 DT A 3 O4' - C1' - N1 ANGL. DEV. = 7.5 DEGREES REMARK 500 DT A 3 N1 - C2 - N3 ANGL. DEV. = 5.1 DEGREES REMARK 500 DT A 3 C2 - N3 - C4 ANGL. DEV. = -7.9 DEGREES REMARK 500 DT A 3 N3 - C4 - C5 ANGL. DEV. = 8.8 DEGREES REMARK 500 DT A 3 C4 - C5 - C6 ANGL. DEV. = -6.2 DEGREES REMARK 500 DT A 3 N1 - C2 - O2 ANGL. DEV. = -6.6 DEGREES REMARK 500 DT A 3 N3 - C4 - O4 ANGL. DEV. = -5.4 DEGREES REMARK 500 DT A 3 C4 - C5 - C7 ANGL. DEV. = 7.1 DEGREES REMARK 500 DA A 4 OP1 - P - OP2 ANGL. DEV. = 13.1 DEGREES REMARK 500 DA A 4 O5' - P - OP1 ANGL. DEV. = -6.3 DEGREES REMARK 500 DA A 4 O4' - C4' - C3' ANGL. DEV. = -4.8 DEGREES REMARK 500 DA A 4 C5' - C4' - O4' ANGL. DEV. = 7.6 DEGREES REMARK 500 DA A 4 C1' - O4' - C4' ANGL. DEV. = 9.6 DEGREES REMARK 500 DA A 4 O4' - C1' - C2' ANGL. DEV. = -6.9 DEGREES REMARK 500 DA A 4 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC A 5 O5' - C5' - C4' ANGL. DEV. = -5.2 DEGREES REMARK 500 DC A 5 C2 - N3 - C4 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC A 5 N3 - C4 - C5 ANGL. DEV. = -6.4 DEGREES REMARK 500 DC A 5 C4 - C5 - C6 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC A 5 N1 - C2 - O2 ANGL. DEV. = 5.4 DEGREES REMARK 500 DG A 6 OP1 - P - OP2 ANGL. DEV. = 10.0 DEGREES REMARK 500 DG A 6 O5' - P - OP2 ANGL. DEV. = -6.8 DEGREES REMARK 500 DG A 6 P - O5' - C5' ANGL. DEV. = -11.5 DEGREES REMARK 500 DG A 6 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DG A 6 C5' - C4' - C3' ANGL. DEV. = 7.6 DEGREES REMARK 500 DG A 6 C1' - O4' - C4' ANGL. DEV. = 7.2 DEGREES REMARK 500 DG A 6 O4' - C1' - N9 ANGL. DEV. = 9.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 58 ANGLE DEVIATIONS. 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 1 0.15 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 DSN B 5 14.47 REMARK 500 ALA B 6 -11.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR TRIOSTIN A OF LINKED RESIDUES B REMARK 800 0 to 9 DBREF 1VTG A 1 6 PDB 1VTG 1VTG 1 6 DBREF 1VTG B 1 8 NOR NOR01129 NOR01129 1 8 SEQRES 1 A 6 DC DG DT DA DC DG SEQRES 1 B 8 DSN ALA NCY MVA DSN ALA NCY MVA HET DSN B 1 6 HET NCY B 3 7 HET MVA B 4 8 HET DSN B 5 6 HET NCY B 7 7 HET MVA B 8 8 HET QUI B 0 12 HET QUI B 9 12 HETNAM DSN D-SERINE HETNAM NCY N-METHYLCYSTEINE HETNAM MVA N-METHYLVALINE HETNAM QUI 2-CARBOXYQUINOXALINE FORMUL 2 DSN 2(C3 H7 N O3) FORMUL 2 NCY 2(C4 H9 N O2 S) FORMUL 2 MVA 2(C6 H13 N O2) FORMUL 3 QUI 2(C9 H6 N2 O2) SSBOND 1 NCY B 3 NCY B 7 1555 1555 1.90 LINK C QUI B 0 N DSN B 1 1555 1555 1.34 LINK C DSN B 1 N ALA B 2 1555 1555 1.37 LINK OG DSN B 1 C MVA B 8 1555 1555 1.42 LINK C NCY B 3 N MVA B 4 1555 1555 1.40 LINK C MVA B 4 OG DSN B 5 1555 1555 1.36 LINK C DSN B 5 N ALA B 6 1555 1555 1.37 LINK N DSN B 5 C QUI B 9 1555 1555 1.33 LINK C NCY B 7 N MVA B 8 1555 1555 1.42 SITE 1 AC1 6 DC A 1 DG A 2 DT A 3 DA A 4 SITE 2 AC1 6 DC A 5 DG A 6 CRYST1 31.350 62.380 61.260 90.00 90.00 90.00 F 2 2 2 16 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 0.031898 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016031 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016324 0.00000