HEADER DNA 24-OCT-11 3UBI TITLE THE ABSENCE OF TERTIARY INTERACTIONS IN A SELF-ASSEMBLED DNA CRYSTAL TITLE 2 STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*CP*GP*TP*AP*CP*TP*CP*G)- COMPND 3 3'); COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: THE 16 RESIDUES IS FROM OF THE FIRST PART OF A DNA MOLECULE COMPND 6 USED IN EXPERIMENT, SEE REMARK 400 FOR DETAILS.; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'- COMPND 10 D(P*CP*CP*GP*AP*GP*TP*AP*CP*GP*AP*CP*GP*AP*CP*AP*AP*G)-3'); COMPND 11 CHAIN: D; COMPND 12 FRAGMENT: SYMMETRICALLY- AND SEQUENTIALLY REPEATING UNIT OF A COMPND 13 CIRCULAR DNA MOLECULES, SEE REMARK 400 FOR DETAILS.; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: DNA (5'-D(*TP*CP*TP*GP*AP*TP*GP*AP*GP*GP*CP*TP*GP*C)-3'); COMPND 17 CHAIN: B; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: DNA (5'-D(P*GP*CP*TP*TP*GP*TP*CP*GP*TP*TP*CP*AP*TP*CP*A)- COMPND 21 3'); COMPND 22 CHAIN: C; COMPND 23 FRAGMENT: THE 15 RESIDUES IS FROM OF THE LAST PART OF A DNA MOLECULE COMPND 24 USED IN EXPERIMENT, SEE REMARK 400 FOR DETAILS.; COMPND 25 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 SYNTHETIC: YES; SOURCE 7 MOL_ID: 4; SOURCE 8 SYNTHETIC: YES KEYWDS NANOTECHNOLOGY, DNA CROSSOVER, DESIGNED CRYSTAL LATTICE, DNA EXPDTA X-RAY DIFFRACTION AUTHOR N.NGUYEN,J.J.BIRKTOFT,R.SHA,T.WANG,J.ZHENG,P.E.CONSTANTINOU, AUTHOR 2 S.L.GINELL,Y.CHEN,C.MAO,N.C.SEEMAN REVDAT 2 28-FEB-24 3UBI 1 REMARK REVDAT 1 16-MAY-12 3UBI 0 JRNL AUTH N.NGUYEN,J.J.BIRKTOFT,R.SHA,T.WANG,J.ZHENG,P.E.CONSTANTINOU, JRNL AUTH 2 S.L.GINELL,Y.CHEN,C.MAO,N.C.SEEMAN JRNL TITL THE ABSENCE OF TERTIARY INTERACTIONS IN A SELF-ASSEMBLED DNA JRNL TITL 2 CRYSTAL STRUCTURE. JRNL REF J.MOL.RECOGNIT. V. 25 234 2012 JRNL REFN ISSN 0952-3499 JRNL PMID 22434713 JRNL DOI 10.1002/JMR.2183 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.ZHENG,J.J.BIRKTOFT,Y.CHEN,T.WANG,R.SHA,P.E.CONSTANTINOU, REMARK 1 AUTH 2 S.L.GINELL,C.MAO,N.C.SEEMAN REMARK 1 TITL FROM MOLECULAR TO MACROSCOPIC VIA THE RATIONAL DESIGN OF A REMARK 1 TITL 2 SELF-ASSEMBLED 3D DNA CRYSTAL. REMARK 1 REF NATURE V. 461 74 2009 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 19727196 REMARK 1 DOI 10.1038/NATURE08274 REMARK 2 REMARK 2 RESOLUTION. 6.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_873) 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 : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 6.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.240 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.9 REMARK 3 NUMBER OF REFLECTIONS : 1413 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.139 REMARK 3 FREE R VALUE : 0.152 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.980 REMARK 3 FREE R VALUE TEST SET COUNT : 141 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 0.0000 - 6.8046 0.87 1272 141 0.1385 0.1520 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.47 REMARK 3 K_SOL : 0.13 REMARK 3 B_SOL : 0.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.000 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.470 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) : 67.13150 REMARK 3 B22 (A**2) : 67.13150 REMARK 3 B33 (A**2) : 811.92650 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 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 : 0.003 1416 REMARK 3 ANGLE : 0.814 2177 REMARK 3 CHIRALITY : 0.036 246 REMARK 3 PLANARITY : 0.001 62 REMARK 3 DIHEDRAL : 30.989 606 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 3UBI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000068546. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 190 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : GRAPHITE REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 1413 REMARK 200 RESOLUTION RANGE HIGH (A) : 6.805 REMARK 200 RESOLUTION RANGE LOW (A) : 49.069 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 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 <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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION CONDITIONS: GROWN BY REMARK 280 VAPOR DIFFUSION WHILE TREATED WITH A CONTROLLED TEMPERATURE REMARK 280 GRADIENT FROM 333 DEGS TO 293 DEGS., PH 8.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 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 84.99000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 49.06900 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 29.54600 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 84.99000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 49.06900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 29.54600 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 84.99000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 49.06900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 29.54600 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 98.13800 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 59.09200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 98.13800 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 59.09200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 98.13800 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 59.09200 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 300 REMARK: AUTHORS STATE THAT THE CRYSTAL IS AN INFINITE NETWORK REMARK 300 MADE FROM THREE DNA STRANDS THAT SELF-ASSOCIATE. IN THE CURRENT REMARK 300 ENTRY THE ASYMMETRIC UNIT IS COMPRISED OF 4 CHAINS, 3 OF WHICH REMARK 300 ARE FRAGMENTS OF LONGER DNA STRANDS. APPLYING THE SPACE GROUP H3 REMARK 300 SYMMETRY OPERATORS (X, Y, Z,), (-Y, X-Y, Z), AND (-X+Y,-X,Z) TO REMARK 300 THE CONTENTS OF THE ASYMMETRIC UNIT GENERATES ONE TRIMERIC UNIT REMARK 300 OF THE SELF-ASSOCIATED DNA NETWORK. ADDITIONAL DETAILS ABOUT THE REMARK 300 CHEMICAL COMPOSITION AND ASSOCIATION ARE INCLUDED IN REMARK 400. 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: DODECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, B, C 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 THE STRUCTURE UNIT IS GENERATED FROM 7 DNA STRANDS WHICH FORM A REMARK 400 NETWORK UNIT WITH INTERNAL 3-FOLD SYMMETRY. EXTENDING OF THE REMARK 400 STRUCTURE UNIT IN 3-D SPACE RESULTS THE CRYSTAL AT R3 SPACE GROUP REMARK 400 (REPRESENTED AS H3). THE DNA SEQUENCES OF THE 7 STRANDS ARE: (#1) 3 REMARK 400 STRANDS 5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*CP*GP*TP*AP*CP*TP*CP*GP*GP* REMARK 400 CP*TP*TP*GP*TP*CP*GP*TP*TP*CP*AP*TP*CP*A)-3'; (#2) 1 STRANDS 5'-D(P* REMARK 400 CP*CP*GP*AP*GP*TP*AP*CP*GP*AP*CP*GP*AP*CP*AP*AP*GP*CP*CP*GP*AP*GP* REMARK 400 TP*AP*CP*GP*AP*CP*GP*AP*CP*AP*AP*GP*CP*CP*GP*AP*GP*TP*AP*CP*GP*AP* REMARK 400 CP*GP*AP*CP*AP*AP*G)-3'; (#3) 3 STRANDS 5'-D(*TP*CP*TP*GP*AP*TP*GP* REMARK 400 AP*GP*GP*CP*TP*GP*C)-3'). THE ASYMMETRIC UNIT IS COMPRISED OF THE REMARK 400 FIRST 16 NUCLEOTIDES OF THE FULL #1 STRAND (CHAIN A), BY THELAST 15 REMARK 400 RESIDUES OF THE FULL #1 STRAND (CHAIN C), BY THE FIRST 17 REMARK 400 NUCLEOTIDES OF THE #2 STRAND (CHAIN D) AND BY #3 STRAND (CHAIN B). REMARK 400 CHAINS A (FIRST 16 RESIDUES OF STRAND #1) AND C (NEXT 15 RESIDUES REMARK 400 OF STRAND #1) TOGETHER FORM THE FIRST DNA STRAND (#3) OF THE REMARK 400 EXPERIMENT. THIS DNA STRAND SPANS TWO ASYMMETRIC UNITS- HENCE IT REMARK 400 WAS DIVIDED INTO THE CURRENT CHAINS A AND C FOR CONVENIENT REMARK 400 REPRESENTATION AND CRYSTALLOGRAPHIC COMPUTING. CHAIN A (1_555) IS REMARK 400 COVALENTLY LINKED TO CHAIN C OF ANOTHER ASYMMETRIC UNIT (3_555); REMARK 400 AND CHAIN C (1_555) IS COVALENTLY LINKED TO CHAIN A OF ANOTHER REMARK 400 ASYMMETRIC UNIT (2_555). THE #2 STRAND FORM A CIRCULAR DNA MOLECULE REMARK 400 AS A CONSEQUENCE OF INTERNAL 3-FOLD SYMMETRY OF THE TRIANGLE CHAIN REMARK 400 D IN THE ASYMMETRIC UNIT REPRESENTS ONE OF THESE REPEATING UNITS. REMARK 400 IT HAS 3 SYMMETRIC AND SEQUENTIAL REPEATING UNITS THAT ARE REMARK 400 COVALENTLY LINKED TO EACH OTHER VIA THE O3' END OF RESIDUE 17D TO REMARK 400 THE O5' END OF RESIDUE 1D) CHAIN D (1_555) IS COVALENTLY LINKED TO REMARK 400 CHAIN D OF TWO NEIGHBOURING ASYMMETRIC UNITS (2_555) AND (3_555). REMARK 400 THE SELECTION OF RESIDUES FROM THE DNA #2 AND #3 ARE DICTATED BY REMARK 400 THEIR PROXIMITY (BASE PAIRING) TO CHAINS A AND C. CHAIN B IN THE REMARK 400 ASYMMETRIC UNIT REPRESENTS THE THIRD OF THESE REPEATING UNITS. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O3' DG A 16 P DG C 17 2555 2.11 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 DT A 11 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC A 13 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DC A 13 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT A 14 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG A 16 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG D 17 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT C 20 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC C 27 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC C 30 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 3UBI A 1 16 PDB 3UBI 3UBI 1 16 DBREF 3UBI D 1 17 PDB 3UBI 3UBI 1 17 DBREF 3UBI B 1 14 PDB 3UBI 3UBI 1 14 DBREF 3UBI C 17 31 PDB 3UBI 3UBI 17 31 SEQRES 1 A 16 DG DA DG DC DA DG DC DC DC DG DT DA DC SEQRES 2 A 16 DT DC DG SEQRES 1 D 17 DC DC DG DA DG DT DA DC DG DA DC DG DA SEQRES 2 D 17 DC DA DA DG SEQRES 1 B 14 DT DC DT DG DA DT DG DA DG DG DC DT DG SEQRES 2 B 14 DC SEQRES 1 C 15 DG DC DT DT DG DT DC DG DT DT DC DA DT SEQRES 2 C 15 DC DA CRYST1 169.980 169.980 88.638 90.00 90.00 120.00 H 3 9 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 0.005883 0.003397 0.000000 0.00000 SCALE2 0.000000 0.006793 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011282 0.00000