HEADER DNA 09-OCT-12 2YMG OBSLTE 10-DEC-14 2YMG 4V5X TITLE THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT SPLIT 2YMF 2YMG 2YMH 2YMI 2YMR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SCAFFOLD STRAND; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: ISOLATED M13 PHAGE GENOME (SINGLE-STRANDED) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE M13; SOURCE 3 ORGANISM_COMMON: M13 PHAGE; SOURCE 4 ORGANISM_TAXID: 10870; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA-TEMPLATED DESIGN, SYNTHETIC BIOLOGY, DNA EXPDTA ELECTRON MICROSCOPY AUTHOR X.C.BAI,T.G.MARTIN,S.H.W.SCHERES,H.DIETZ REVDAT 3 10-DEC-14 2YMG 1 OBSLTE REVDAT 2 12-DEC-12 2YMG 1 JRNL REVDAT 1 28-NOV-12 2YMG 0 JRNL AUTH X.BAI,T.G.MARTIN,S.H.W.SCHERES,H.DIETZ JRNL TITL CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 20012 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 23169645 JRNL DOI 10.1073/PNAS.1215713109 REMARK 2 REMARK 2 RESOLUTION. 11.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION REMARK 3 RECONSTRUCTION SCHEMA : MAXIMUM A POSTERIORI ESTIMATION REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : RECIPROCAL REMARK 3 REFINEMENT PROTOCOL : THEORETICAL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : MOLECULAR DYNAMICS FLEXIBLE FITTING REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 3.55 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : 3.55 REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 11.5 REMARK 3 NUMBER OF PARTICLES : 28502 REMARK 3 CTF CORRECTION METHOD : WIENER FILTER (RELION) REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: EXPERIMENTAL REMARK 3 CROSS-GRATING REMARK 3 REMARK 3 OTHER DETAILS: TWO MODELS WERE REFINED INDEPENDENTLY TO REMARK 3 PREVENT OVERFITTING THROUGH GOLD-STANDARD FOURIER-SHELL REMARK 3 CORRELATIONS. THERE IS A MISSING COVALENT BOND BETWEEN THE REMARK 3 FIRST BASE OF THIS PDB FILE AND THE LAST ONE IN PDB ENTRY 2YMF. REMARK 3 IN ADDITION THERE IS A COVALENT BOND BETWEEN THE LAST BASE IN REMARK 3 THIS FILE AND THE FIRST IN 2YMF GIVING A CIRCULAR MOLECULE. REMARK 3 THERE ARE FIVE PDB FILES. SUBMISSION BASED ON EXPERIMENTAL REMARK 3 DATA FROM EMDB EMD-2210.(DEPOSITION ID: 11146). REMARK 4 REMARK 4 2YMG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 5 REMARK 5 THIS ENTRY WITH OTHER SPLIT ENTRIES HAVE BEEN CONSOLIDATED INTO A REMARK 5 COMBINED FILE FOR COMPLETE REPRESENTATION. NO COORDINATES HAVE BEEN REMARK 5 CHANGED. REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-OCT-12. REMARK 100 THE PDBE ID CODE IS EBI-54408. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : VITREOUS ICE REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : NULL REMARK 245 NAME OF SAMPLE : POINTER-SHAPED 3D DNA- REMARK 245 ORIGAMI OBJECT REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 48.0 REMARK 245 SAMPLE SUPPORT DETAILS : CARBON REMARK 245 SAMPLE VITRIFICATION DETAILS : LIQUID ETHANE REMARK 245 SAMPLE BUFFER : 10 MM TRIS-HCL, 20 MM REMARK 245 MGCL2, 5 MM NACL, 1 MM REMARK 245 EDTA REMARK 245 PH : 7.6 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 01-APR-12 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 283 REMARK 245 TEMPERATURE (KELVIN) : 80 REMARK 245 MICROSCOPE MODEL : OTHER REMARK 245 DETECTOR TYPE : FEI FALCON (BACKTHINNED) REMARK 245 MINIMUM DEFOCUS (NM) : 890 REMARK 245 MAXIMUM DEFOCUS (NM) : 4460 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 10 REMARK 245 ILLUMINATION MODE : LOW DOSE REMARK 245 NOMINAL MAGNIFICATION : 31000 REMARK 245 CALIBRATED MAGNIFICATION : 39436 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 300 REMARK: 164 CHAINS COMBINE TO GENERATE THE COMPLETE ASSEMBLY REMARK 300 OVER FIVE PDB FILES 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 QUATERNARY STRUCTURE FOR THIS ENTRY: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DG A4905 P OP1 OP2 REMARK 470 DT A4963 P OP1 OP2 REMARK 470 DT A4969 P OP1 OP2 REMARK 470 DA A4993 P OP1 OP2 REMARK 470 DA A5017 P OP1 OP2 REMARK 470 DC A5046 P OP1 OP2 REMARK 470 DT A5075 P OP1 OP2 REMARK 470 DA A5110 P OP1 OP2 REMARK 470 DT A5145 P OP1 OP2 REMARK 470 DT A5153 P OP1 OP2 REMARK 470 DT A5174 P OP1 OP2 REMARK 470 DC A5331 P OP1 OP2 REMARK 470 DT A5339 P OP1 OP2 REMARK 470 DT A5366 P OP1 OP2 REMARK 470 DT A5465 P OP1 OP2 REMARK 470 DG A5558 P OP1 OP2 REMARK 470 DA A5659 P OP1 OP2 REMARK 470 DT A5763 P OP1 OP2 REMARK 470 DT A5886 P OP1 OP2 REMARK 470 DG A5983 P OP1 OP2 REMARK 470 DA A5985 P OP1 OP2 REMARK 470 DG A6009 P OP1 OP2 REMARK 470 DA A6132 P OP1 OP2 REMARK 470 DT A6329 P OP1 OP2 REMARK 470 DT A6344 P OP1 OP2 REMARK 470 DA A6424 P OP1 OP2 REMARK 470 DT A6493 P OP1 OP2 REMARK 470 DG A6498 P OP1 OP2 REMARK 470 DC A6503 P OP1 OP2 REMARK 470 DC A6508 P OP1 OP2 REMARK 470 DG A6646 P OP1 OP2 REMARK 470 DA A6662 P OP1 OP2 REMARK 470 DA A6667 P OP1 OP2 REMARK 470 DG A6672 P OP1 OP2 REMARK 470 DA A6688 P OP1 OP2 REMARK 470 DT A6704 P OP1 OP2 REMARK 470 DG A6709 P OP1 OP2 REMARK 470 DA A6880 P OP1 OP2 REMARK 470 DT A6939 P OP1 OP2 REMARK 470 DA A6966 P OP1 OP2 REMARK 470 DA A6993 P OP1 OP2 REMARK 470 DA A7052 P OP1 OP2 REMARK 470 DC A7105 P OP1 OP2 REMARK 470 DC A7110 P OP1 OP2 REMARK 470 DC A7115 P OP1 OP2 REMARK 470 DC A7120 P OP1 OP2 REMARK 470 DT A7125 P OP1 OP2 REMARK 470 DT A7178 P OP1 OP2 REMARK 470 DA A7194 P OP1 OP2 REMARK 470 DA A7210 P OP1 OP2 REMARK 470 DG A7226 P OP1 OP2 REMARK 470 DC A7242 P OP1 OP2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 OP1 DC A 5464 OP2 DC A 5466 2.01 REMARK 500 OP2 DC A 5464 OP2 DC A 5466 2.09 REMARK 500 OP2 DT A 6938 OP1 DG A 6941 1.98 REMARK 500 O3' DT A 7108 OP2 DC A 7111 2.10 REMARK 500 P DG A 7192 C3' DC A 7195 1.82 REMARK 500 OP1 DG A 7192 C3' DC A 7195 1.83 REMARK 500 OP1 DG A 7192 O3' DC A 7195 1.52 REMARK 500 OP1 DG A 7192 P DC A 7196 1.85 REMARK 500 OP1 DG A 7192 OP2 DC A 7196 1.74 REMARK 500 OP2 DG A 7192 C3' DC A 7195 1.53 REMARK 500 OP2 DG A 7192 C2' DC A 7195 1.97 REMARK 500 OP2 DG A 7192 O5' DC A 7195 1.79 REMARK 500 O3' DG A 7199 OP2 DG A 7220 1.17 REMARK 500 O3' DG A 7199 P DG A 7220 2.12 REMARK 500 P DA A 7200 O3' DG A 7219 2.20 REMARK 500 P DA A 7200 OP2 DG A 7220 1.99 REMARK 500 P DA A 7200 P DG A 7220 1.67 REMARK 500 P DA A 7200 O5' DG A 7220 1.18 REMARK 500 OP1 DA A 7200 O5' DG A 7220 1.70 REMARK 500 OP1 DA A 7200 C2' DG A 7220 2.18 REMARK 500 OP2 DA A 7200 C3' DG A 7219 1.49 REMARK 500 OP2 DA A 7200 O3' DG A 7219 1.57 REMARK 500 OP2 DA A 7200 C2' DG A 7219 1.22 REMARK 500 OP2 DA A 7200 C1' DG A 7219 1.93 REMARK 500 O5' DA A 7200 O3' DG A 7219 2.12 REMARK 500 O5' DA A 7200 OP1 DG A 7220 1.67 REMARK 500 O5' DA A 7200 OP2 DG A 7220 2.16 REMARK 500 O5' DA A 7200 P DG A 7220 0.96 REMARK 500 O5' DA A 7200 O5' DG A 7220 0.84 REMARK 500 O5' DA A 7200 C5' DG A 7220 1.75 REMARK 500 C5' DA A 7200 OP1 DG A 7220 2.06 REMARK 500 C5' DA A 7200 P DG A 7220 2.08 REMARK 500 C5' DA A 7200 O5' DG A 7220 1.74 REMARK 500 C4' DA A 7200 OP1 DG A 7220 1.83 REMARK 500 C3' DA A 7200 OP1 DG A 7220 1.60 REMARK 500 C2' DA A 7200 OP1 DG A 7220 1.67 REMARK 500 C2' DA A 7209 C5 DC A 7211 1.72 REMARK 500 C2' DA A 7215 OP1 DT A 7237 1.09 REMARK 500 OP2 DT A 7216 C5' DT A 7237 1.91 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 A4897 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT A4898 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES REMARK 500 DT A4898 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA A4899 N1 - C6 - N6 ANGL. DEV. = 6.9 DEGREES REMARK 500 DA A4901 N1 - C6 - N6 ANGL. DEV. = 7.1 DEGREES REMARK 500 DT A4902 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG A4905 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DG A4905 C5 - C6 - O6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DG A4905 N1 - C6 - O6 ANGL. DEV. = 4.8 DEGREES REMARK 500 DG A4905 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A4905 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA A4906 N1 - C6 - N6 ANGL. DEV. = 7.4 DEGREES REMARK 500 DT A4907 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A4910 C5 - C6 - O6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DG A4910 N1 - C6 - O6 ANGL. DEV. = 5.4 DEGREES REMARK 500 DC A4911 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG A4914 C5 - C6 - O6 ANGL. DEV. = -3.9 DEGREES REMARK 500 DG A4914 N1 - C6 - O6 ANGL. DEV. = 5.0 DEGREES REMARK 500 DT A4916 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA A4917 C4 - C5 - C6 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA A4917 C5 - C6 - N6 ANGL. DEV. = -4.9 DEGREES REMARK 500 DA A4917 N1 - C6 - N6 ANGL. DEV. = 7.2 DEGREES REMARK 500 DT A4919 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG A4920 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 DG A4920 C5 - C6 - O6 ANGL. DEV. = -4.5 DEGREES REMARK 500 DG A4920 N1 - C6 - O6 ANGL. DEV. = 5.1 DEGREES REMARK 500 DG A4920 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A4921 C5 - C6 - O6 ANGL. DEV. = -5.1 DEGREES REMARK 500 DG A4921 N1 - C6 - O6 ANGL. DEV. = 5.8 DEGREES REMARK 500 DG A4922 C5 - C6 - O6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DG A4922 N1 - C6 - O6 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG A4924 C5 - C6 - O6 ANGL. DEV. = -4.1 DEGREES REMARK 500 DG A4924 N1 - C6 - O6 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG A4924 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC A4925 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DC A4925 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG A4926 C5 - C6 - O6 ANGL. DEV. = -4.1 DEGREES REMARK 500 DG A4926 N1 - C6 - O6 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG A4927 C5 - C6 - O6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DG A4927 N1 - C6 - O6 ANGL. DEV. = 5.2 DEGREES REMARK 500 DA A4929 N1 - C6 - N6 ANGL. DEV. = 7.1 DEGREES REMARK 500 DA A4930 C4 - C5 - C6 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA A4930 N1 - C6 - N6 ANGL. DEV. = 6.8 DEGREES REMARK 500 DT A4931 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG A4932 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES REMARK 500 DG A4932 C5 - C6 - O6 ANGL. DEV. = -4.9 DEGREES REMARK 500 DG A4932 N1 - C6 - O6 ANGL. DEV. = 5.6 DEGREES REMARK 500 DG A4932 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA A4933 C4 - C5 - C6 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA A4933 N1 - C6 - N6 ANGL. DEV. = 7.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 3104 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 DG A4910 0.10 SIDE CHAIN REMARK 500 DG A4926 0.07 SIDE CHAIN REMARK 500 DG A4927 0.08 SIDE CHAIN REMARK 500 DA A4952 0.07 SIDE CHAIN REMARK 500 DA A4954 0.08 SIDE CHAIN REMARK 500 DT A4960 0.09 SIDE CHAIN REMARK 500 DG A4961 0.06 SIDE CHAIN REMARK 500 DG A4965 0.10 SIDE CHAIN REMARK 500 DG A4974 0.09 SIDE CHAIN REMARK 500 DT A4977 0.07 SIDE CHAIN REMARK 500 DG A4980 0.07 SIDE CHAIN REMARK 500 DG A5034 0.07 SIDE CHAIN REMARK 500 DT A5075 0.07 SIDE CHAIN REMARK 500 DG A5088 0.10 SIDE CHAIN REMARK 500 DG A5111 0.07 SIDE CHAIN REMARK 500 DG A5127 0.07 SIDE CHAIN REMARK 500 DG A5139 0.06 SIDE CHAIN REMARK 500 DA A5158 0.07 SIDE CHAIN REMARK 500 DG A5161 0.07 SIDE CHAIN REMARK 500 DG A5216 0.08 SIDE CHAIN REMARK 500 DT A5236 0.07 SIDE CHAIN REMARK 500 DG A5244 0.13 SIDE CHAIN REMARK 500 DT A5252 0.09 SIDE CHAIN REMARK 500 DG A5256 0.07 SIDE CHAIN REMARK 500 DT A5266 0.09 SIDE CHAIN REMARK 500 DG A5287 0.07 SIDE CHAIN REMARK 500 DT A5292 0.09 SIDE CHAIN REMARK 500 DA A5295 0.06 SIDE CHAIN REMARK 500 DA A5304 0.06 SIDE CHAIN REMARK 500 DA A5328 0.07 SIDE CHAIN REMARK 500 DA A5330 0.11 SIDE CHAIN REMARK 500 DG A5334 0.08 SIDE CHAIN REMARK 500 DG A5344 0.07 SIDE CHAIN REMARK 500 DG A5352 0.10 SIDE CHAIN REMARK 500 DG A5361 0.09 SIDE CHAIN REMARK 500 DA A5401 0.08 SIDE CHAIN REMARK 500 DG A5467 0.06 SIDE CHAIN REMARK 500 DG A5476 0.07 SIDE CHAIN REMARK 500 DT A5479 0.08 SIDE CHAIN REMARK 500 DG A5487 0.07 SIDE CHAIN REMARK 500 DG A5488 0.07 SIDE CHAIN REMARK 500 DG A5499 0.06 SIDE CHAIN REMARK 500 DG A5534 0.08 SIDE CHAIN REMARK 500 DG A5537 0.07 SIDE CHAIN REMARK 500 DG A5550 0.10 SIDE CHAIN REMARK 500 DT A5578 0.06 SIDE CHAIN REMARK 500 DG A5611 0.09 SIDE CHAIN REMARK 500 DC A5627 0.06 SIDE CHAIN REMARK 500 DG A5631 0.06 SIDE CHAIN REMARK 500 DG A5658 0.08 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 148 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 DT A7108 37.5 D L WRONG HAND REMARK 500 DT A7212 34.7 D L WRONG HAND REMARK 500 DT A7216 38.1 D L WRONG HAND REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YMF RELATED DB: PDB REMARK 900 THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT REMARK 900 RELATED ID: 2YMH RELATED DB: PDB REMARK 900 THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT REMARK 900 RELATED ID: 2YMI RELATED DB: PDB REMARK 900 THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT REMARK 900 RELATED ID: 2YMR RELATED DB: PDB REMARK 900 THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT REMARK 900 RELATED ID: EMD-2210 RELATED DB: EMDB REMARK 900 THE CRYO-EM STRUCTURE OF A 3D DNA-ORIGAMI OBJECT DBREF 2YMG A 4897 7249 GB JX412914 401823911 3383 5735 SEQRES 1 A 2353 DC DT DA DT DA DT DC DT DG DA DT DT DT SEQRES 2 A 2353 DG DC DT DT DG DC DT DA DT DT DG DG DG SEQRES 3 A 2353 DC DG DC DG DG DT DA DA DT DG DA DT DT SEQRES 4 A 2353 DC DC DT DA DC DG DA DT DG DA DA DA DA SEQRES 5 A 2353 DT DA DA DA DA DA DC DG DG DC DT DT DG SEQRES 6 A 2353 DC DT DT DG DT DT DC DT DC DG DA DT DG SEQRES 7 A 2353 DA DG DT DG DC DG DG DT DA DC DT DT DG SEQRES 8 A 2353 DG DT DT DT DA DA DT DA DC DC DC DG DT SEQRES 9 A 2353 DT DC DT DT DG DG DA DA DT DG DA DT DA SEQRES 10 A 2353 DA DG DG DA DA DA DG DA DC DA DG DC DC SEQRES 11 A 2353 DG DA DT DT DA DT DT DG DA DT DT DG DG SEQRES 12 A 2353 DT DT DT DC DT DA DC DA DT DG DC DT DC SEQRES 13 A 2353 DG DT DA DA DA DT DT DA DG DG DA DT DG SEQRES 14 A 2353 DG DG DA DT DA DT DT DA DT DT DT DT DT SEQRES 15 A 2353 DC DT DT DG DT DT DC DA DG DG DA DC DT SEQRES 16 A 2353 DT DA DT DC DT DA DT DT DG DT DT DG DA SEQRES 17 A 2353 DT DA DA DA DC DA DG DG DC DG DC DG DT SEQRES 18 A 2353 DT DC DT DG DC DA DT DT DA DG DC DT DG SEQRES 19 A 2353 DA DA DC DA DT DG DT DT DG DT DT DT DA SEQRES 20 A 2353 DT DT DG DT DC DG DT DC DG DT DC DT DG SEQRES 21 A 2353 DG DA DC DA DG DA DA DT DT DA DC DT DT SEQRES 22 A 2353 DT DA DC DC DT DT DT DT DG DT DC DG DG SEQRES 23 A 2353 DT DA DC DT DT DT DA DT DA DT DT DC DT SEQRES 24 A 2353 DC DT DT DA DT DT DA DC DT DG DG DC DT SEQRES 25 A 2353 DC DG DA DA DA DA DT DG DC DC DT DC DT SEQRES 26 A 2353 DG DC DC DT DA DA DA DT DT DA DC DA DT SEQRES 27 A 2353 DG DT DT DG DG DC DG DT DT DG DT DT DA SEQRES 28 A 2353 DA DA DT DA DT DG DG DC DG DA DT DT DC SEQRES 29 A 2353 DT DC DA DA DT DT DA DA DG DC DC DC DT SEQRES 30 A 2353 DA DC DT DG DT DT DG DA DG DC DG DT DT SEQRES 31 A 2353 DG DG DC DT DT DT DA DT DA DC DT DG DG SEQRES 32 A 2353 DT DA DA DG DA DA DT DT DT DG DT DA DT SEQRES 33 A 2353 DA DA DC DG DC DA DT DA DT DG DA DT DA SEQRES 34 A 2353 DC DT DA DA DA DC DA DG DG DC DT DT DT SEQRES 35 A 2353 DT DT DC DT DA DG DT DA DA DT DT DA DT SEQRES 36 A 2353 DG DA DT DT DC DC DG DG DT DG DT DT DT SEQRES 37 A 2353 DA DT DT DC DT DT DA DT DT DT DA DA DC SEQRES 38 A 2353 DG DC DC DT DT DA DT DT DT DA DT DC DA SEQRES 39 A 2353 DC DA DC DG DG DT DC DG DG DT DA DT DT SEQRES 40 A 2353 DT DC DA DA DA DC DC DA DT DT DA DA DA SEQRES 41 A 2353 DT DT DT DA DG DG DT DC DA DG DA DA DG SEQRES 42 A 2353 DA DT DG DA DA DA DT DT DA DA DC DT DA SEQRES 43 A 2353 DA DA DA DT DA DT DA DT DT DT DG DA DA SEQRES 44 A 2353 DA DA DA DG DT DT DT DT DC DT DC DG DC SEQRES 45 A 2353 DG DT DT DC DT DT DT DG DT DC DT DT DG SEQRES 46 A 2353 DC DG DA DT DT DG DG DA DT DT DT DG DC SEQRES 47 A 2353 DA DT DC DA DG DC DA DT DT DT DA DC DA SEQRES 48 A 2353 DT DA DT DA DG DT DT DA DT DA DT DA DA SEQRES 49 A 2353 DC DC DC DA DA DC DC DT DA DA DG DC DC SEQRES 50 A 2353 DG DG DA DG DG DT DT DA DA DA DA DA DG SEQRES 51 A 2353 DG DT DA DG DT DC DT DC DT DC DA DG DA SEQRES 52 A 2353 DC DC DT DA DT DG DA DT DT DT DT DG DA SEQRES 53 A 2353 DT DA DA DA DT DT DC DA DC DT DA DT DT SEQRES 54 A 2353 DG DA DC DT DC DT DT DC DT DC DA DG DC SEQRES 55 A 2353 DG DT DC DT DT DA DA DT DC DT DA DA DG SEQRES 56 A 2353 DC DT DA DT DC DG DC DT DA DT DG DT DT SEQRES 57 A 2353 DT DT DC DA DA DG DG DA DT DT DC DT DA SEQRES 58 A 2353 DA DG DG DG DA DA DA DA DT DT DA DA DT SEQRES 59 A 2353 DT DA DA DT DA DG DC DG DA DC DG DA DT SEQRES 60 A 2353 DT DT DA DC DA DG DA DA DG DC DA DA DG SEQRES 61 A 2353 DG DT DT DA DT DT DC DA DC DT DC DA DC SEQRES 62 A 2353 DA DT DA DT DA DT DT DG DA DT DT DT DA SEQRES 63 A 2353 DT DG DT DA DC DT DG DT DT DT DC DC DA SEQRES 64 A 2353 DT DT DA DA DA DA DA DA DG DG DT DA DA SEQRES 65 A 2353 DT DT DC DA DA DA DT DG DA DA DA DT DT SEQRES 66 A 2353 DG DT DT DA DA DA DT DG DT DA DA DT DT SEQRES 67 A 2353 DA DA DT DT DT DT DG DT DT DT DT DC DT SEQRES 68 A 2353 DT DG DA DT DG DT DT DT DG DT DT DT DC SEQRES 69 A 2353 DA DT DC DA DT DC DT DT DC DT DT DT DT SEQRES 70 A 2353 DG DC DT DC DA DG DG DT DA DA DT DT DG SEQRES 71 A 2353 DA DA DA DT DG DA DA DT DA DA DT DT DC SEQRES 72 A 2353 DG DC DC DT DC DT DG DC DG DC DG DA DT SEQRES 73 A 2353 DT DT DT DG DT DA DA DC DT DT DG DG DT SEQRES 74 A 2353 DA DT DT DC DA DA DA DG DC DA DA DT DC SEQRES 75 A 2353 DA DG DG DC DG DA DA DT DC DC DG DT DT SEQRES 76 A 2353 DA DT DT DG DT DT DT DC DT DC DC DC DG SEQRES 77 A 2353 DA DT DG DT DA DA DA DA DG DG DT DA DC SEQRES 78 A 2353 DT DG DT DT DA DC DT DG DT DA DT DA DT SEQRES 79 A 2353 DT DC DA DT DC DT DG DA DC DG DT DT DA SEQRES 80 A 2353 DA DA DC DC DT DG DA DA DA DA DT DC DT SEQRES 81 A 2353 DA DC DG DC DA DA DT DT DT DC DT DT DT SEQRES 82 A 2353 DA DT DT DT DC DT DG DT DT DT DT DA DC SEQRES 83 A 2353 DG DT DG DC DA DA DA DT DA DA DT DT DT SEQRES 84 A 2353 DT DG DA DT DA DT DG DG DT DA DG DG DT SEQRES 85 A 2353 DT DC DT DA DA DC DC DC DT DT DC DC DA SEQRES 86 A 2353 DT DT DA DT DT DC DA DG DA DA DG DT DA SEQRES 87 A 2353 DT DA DA DT DC DC DA DA DA DC DA DA DT SEQRES 88 A 2353 DC DA DG DG DA DT DT DA DT DA DT DT DG SEQRES 89 A 2353 DA DT DG DA DA DT DT DG DC DC DA DT DC SEQRES 90 A 2353 DA DT DC DT DG DA DT DA DA DT DC DA DG SEQRES 91 A 2353 DG DA DA DT DA DT DG DA DT DG DA DT DA SEQRES 92 A 2353 DA DT DT DC DC DG DC DT DC DC DT DT DC SEQRES 93 A 2353 DT DG DG DT DG DG DT DT DT DC DT DT DT SEQRES 94 A 2353 DG DT DT DC DC DG DC DA DA DA DA DT DG SEQRES 95 A 2353 DA DT DA DA DT DG DT DT DA DC DT DC DA SEQRES 96 A 2353 DA DA DC DT DT DT DT DA DA DA DA DT DT SEQRES 97 A 2353 DA DA DT DA DA DC DG DT DT DC DG DG DG SEQRES 98 A 2353 DC DA DA DA DG DG DA DT DT DT DA DA DT SEQRES 99 A 2353 DA DC DG DA DG DT DT DG DT DC DG DA DA SEQRES 100 A 2353 DT DT DG DT DT DT DG DT DA DA DA DG DT SEQRES 101 A 2353 DC DT DA DA DT DA DC DT DT DC DT DA DA SEQRES 102 A 2353 DA DT DC DC DT DC DA DA DA DT DG DT DA SEQRES 103 A 2353 DT DT DA DT DC DT DA DT DT DG DA DC DG SEQRES 104 A 2353 DG DC DT DC DT DA DA DT DC DT DA DT DT SEQRES 105 A 2353 DA DG DT DT DG DT DT DA DG DT DG DC DT SEQRES 106 A 2353 DC DC DT DA DA DA DG DA DT DA DT DT DT SEQRES 107 A 2353 DT DA DG DA DT DA DA DC DC DT DT DC DC SEQRES 108 A 2353 DT DC DA DA DT DT DC DC DT DT DT DC DA SEQRES 109 A 2353 DA DC DT DG DT DT DG DA DT DT DT DG DC SEQRES 110 A 2353 DC DA DA DC DT DG DA DC DC DA DG DA DT SEQRES 111 A 2353 DA DT DT DG DA DT DT DG DA DG DG DG DT SEQRES 112 A 2353 DT DT DG DA DT DA DT DT DT DG DA DG DG SEQRES 113 A 2353 DT DT DC DA DG DC DA DA DG DG DT DG DA SEQRES 114 A 2353 DT DG DC DT DT DT DA DG DA DT DT DT DT SEQRES 115 A 2353 DT DC DA DT DT DT DG DC DT DG DC DT DG SEQRES 116 A 2353 DG DC DT DC DT DC DA DG DC DG DT DG DG SEQRES 117 A 2353 DC DA DC DT DG DT DT DG DC DA DG DG DC SEQRES 118 A 2353 DG DG DT DG DT DT DA DA DT DA DC DT DG SEQRES 119 A 2353 DA DC DC DG DC DC DT DC DA DC DC DT DC SEQRES 120 A 2353 DT DG DT DT DT DT DA DT DC DT DT DC DT SEQRES 121 A 2353 DG DC DT DG DG DT DG DG DT DT DC DG DT SEQRES 122 A 2353 DT DC DG DG DT DA DT DT DT DT DT DA DA SEQRES 123 A 2353 DT DG DG DC DG DA DT DG DT DT DT DT DA SEQRES 124 A 2353 DG DG DG DC DT DA DT DC DA DG DT DT DC SEQRES 125 A 2353 DG DC DG DC DA DT DT DA DA DA DG DA DC SEQRES 126 A 2353 DT DA DA DT DA DG DC DC DA DT DT DC DA SEQRES 127 A 2353 DA DA DA DA DT DA DT DT DG DT DC DT DG SEQRES 128 A 2353 DT DG DC DC DA DC DG DT DA DT DT DC DT SEQRES 129 A 2353 DT DA DC DG DC DT DT DT DC DA DG DG DT SEQRES 130 A 2353 DC DA DG DA DA DG DG DG DT DT DC DT DA SEQRES 131 A 2353 DT DC DT DC DT DG DT DT DG DG DC DC DA SEQRES 132 A 2353 DG DA DA DT DG DT DC DC DC DT DT DT DT SEQRES 133 A 2353 DA DT DT DA DC DT DG DG DT DC DG DT DG SEQRES 134 A 2353 DT DG DA DC DT DG DG DT DG DA DA DT DC SEQRES 135 A 2353 DT DG DC DC DA DA DT DG DT DA DA DA DT SEQRES 136 A 2353 DA DA DT DC DC DA DT DT DT DC DA DG DA SEQRES 137 A 2353 DC DG DA DT DT DG DA DG DC DG DT DC DA SEQRES 138 A 2353 DA DA DA DT DG DT DA DG DG DT DA DT DT SEQRES 139 A 2353 DT DC DC DA DT DG DA DG DC DG DT DT DT SEQRES 140 A 2353 DT DT DC DC DT DG DT DT DG DC DA DA DT SEQRES 141 A 2353 DG DG DC DT DG DG DC DG DG DT DA DA DT SEQRES 142 A 2353 DA DT DT DG DT DT DC DT DG DG DA DT DA SEQRES 143 A 2353 DT DT DA DC DC DA DG DC DA DA DG DG DC SEQRES 144 A 2353 DC DG DA DT DA DG DT DT DT DG DA DG DT SEQRES 145 A 2353 DT DC DT DT DC DT DA DC DT DC DA DG DG SEQRES 146 A 2353 DC DA DA DG DT DG DA DT DG DT DT DA DT SEQRES 147 A 2353 DT DA DC DT DA DA DT DC DA DA DA DG DA SEQRES 148 A 2353 DA DG DT DA DT DT DG DC DT DA DC DA DA SEQRES 149 A 2353 DC DG DG DT DT DA DA DT DT DT DG DC DG SEQRES 150 A 2353 DT DG DA DT DG DG DA DC DA DG DA DC DT SEQRES 151 A 2353 DC DT DT DT DT DA DC DT DC DG DG DT DG SEQRES 152 A 2353 DG DC DC DT DC DA DC DT DG DA DT DT DA SEQRES 153 A 2353 DT DA DA DA DA DA DC DA DC DT DT DC DT SEQRES 154 A 2353 DC DA DG DG DA DT DT DC DT DG DG DC DG SEQRES 155 A 2353 DT DA DC DC DG DT DT DC DC DT DG DT DC SEQRES 156 A 2353 DT DA DA DA DA DT DC DC DC DT DT DT DA SEQRES 157 A 2353 DA DT DC DG DG DC DC DT DC DC DT DG DT SEQRES 158 A 2353 DT DT DA DG DC DT DC DC DC DG DC DT DC SEQRES 159 A 2353 DT DG DA DT DT DC DT DA DA DC DG DA DG SEQRES 160 A 2353 DG DA DA DA DG DC DA DC DG DT DT DA DT SEQRES 161 A 2353 DA DC DG DT DG DC DT DC DG DT DC DA DA SEQRES 162 A 2353 DA DG DC DA DA DC DC DA DT DA DG DT DA SEQRES 163 A 2353 DC DG DC DG DC DC DC DT DG DT DA DG DC SEQRES 164 A 2353 DG DG DC DG DC DA DT DT DA DA DG DC DG SEQRES 165 A 2353 DC DG DG DC DG DG DG DT DG DT DG DG DT SEQRES 166 A 2353 DG DG DT DT DA DC DG DC DG DC DA DG DC SEQRES 167 A 2353 DG DT DG DA DC DC DG DC DT DA DC DA DC SEQRES 168 A 2353 DT DT DG DC DC DA DG DC DG DC DC DC DT SEQRES 169 A 2353 DA DG DC DG DC DC DC DG DC DT DC DC DT SEQRES 170 A 2353 DT DT DC DG DC DT DT DT DC DT DT DC DC SEQRES 171 A 2353 DC DT DT DC DC DT DT DT DC DT DC DG DC SEQRES 172 A 2353 DC DA DC DG DT DT DC DG DC DC DG DG DC SEQRES 173 A 2353 DT DT DT DC DC DC DC DG DT DC DA DA DG SEQRES 174 A 2353 DC DT DC DT DA DA DA DT DC DG DG DG DG SEQRES 175 A 2353 DG DC DT DC DC DC DT DT DT DA DG DG DG SEQRES 176 A 2353 DT DT DC DC DG DA DT DT DT DA DG DT DG SEQRES 177 A 2353 DC DT DT DT DA DC DG DG DC DA DC DC DT SEQRES 178 A 2353 DC DG DA DC DC DC DC DA DA DA DA DA DA SEQRES 179 A 2353 DC DT DT DG DA DT DT DT DG DG DG DT DG SEQRES 180 A 2353 DA DT DG DG DT DT DC DA DC DG DT DA DG SEQRES 181 A 2353 DT DG DG DG DC DC DA DT DC DG DC DC 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