HEADER TRANSFERASE/DNA 15-DEC-10 3Q0D TITLE CRYSTAL STRUCTURE OF SUVH5 SRA- HEMI METHYLATED CG DNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-9 SPECIFIC COMPND 3 SUVH5; COMPND 4 CHAIN: X, A; COMPND 5 FRAGMENT: SUVH5 SRA DOMAIN (UNP RESIDUES 362-528); COMPND 6 SYNONYM: HISTONE H3-K9 METHYLTRANSFERASE 5, H3-K9-HMTASE 5, PROTEIN COMPND 7 SET DOMAIN GROUP 9, SUPPRESSOR OF VARIEGATION 3-9 HOMOLOG PROTEIN 5, COMPND 8 SU(VAR)3-9 HOMOLOG PROTEIN 5; COMPND 9 EC: 2.1.1.43; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: DNA (5'-D(*TP*CP*CP*AP*(5CM)P*GP*TP*CP*AP*G)-3'); COMPND 13 CHAIN: B; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: DNA (5'-D(*CP*TP*GP*AP*CP*GP*TP*GP*GP*A)-3'); COMPND 17 CHAIN: C; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS,THALE-CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AT2G35160, SDG9, SET9, SUVH5, T4C15.17; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET SUMO; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: CHEMICALLY SYNTHESIZED; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: CHEMICALLY SYNTHESIZED KEYWDS SRA, HEMI-METHYLATED CG, SUVH5, 5MC BINDING, HEMI-METHYLATED CG DNA, KEYWDS 2 TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.EERAPPA,D.K.SIMANSHU,D.J.PATEL REVDAT 5 03-APR-24 3Q0D 1 REMARK REVDAT 4 21-FEB-24 3Q0D 1 LINK REVDAT 3 08-NOV-17 3Q0D 1 REMARK REVDAT 2 27-FEB-13 3Q0D 1 CAVEAT VERSN REVDAT 1 23-FEB-11 3Q0D 0 JRNL AUTH E.RAJAKUMARA,J.A.LAW,D.K.SIMANSHU,P.VOIGT,L.M.JOHNSON, JRNL AUTH 2 D.REINBERG,D.J.PATEL,S.E.JACOBSEN JRNL TITL A DUAL FLIP-OUT MECHANISM FOR 5MC RECOGNITION BY THE JRNL TITL 2 ARABIDOPSIS SUVH5 SRA DOMAIN AND ITS IMPACT ON DNA JRNL TITL 3 METHYLATION AND H3K9 DIMETHYLATION IN VIVO. JRNL REF GENES DEV. V. 25 137 2011 JRNL REFN ISSN 0890-9369 JRNL PMID 21245167 JRNL DOI 10.1101/GAD.1980311 REMARK 2 REMARK 2 RESOLUTION. 2.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 17221 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 873 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 19.0954 - 4.2936 0.99 2780 148 0.1933 0.2124 REMARK 3 2 4.2936 - 3.4143 1.00 2738 170 0.2141 0.2668 REMARK 3 3 3.4143 - 2.9846 1.00 2751 142 0.2531 0.3028 REMARK 3 4 2.9846 - 2.7125 1.00 2758 146 0.2760 0.3162 REMARK 3 5 2.7125 - 2.5186 1.00 2737 132 0.2631 0.3171 REMARK 3 6 2.5186 - 2.3704 0.94 2584 135 0.3062 0.3309 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.31 REMARK 3 B_SOL : 51.20 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.860 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) : 1.84260 REMARK 3 B22 (A**2) : 1.84260 REMARK 3 B33 (A**2) : -7.74660 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 : 0.009 3114 REMARK 3 ANGLE : 1.378 4382 REMARK 3 CHIRALITY : 0.082 486 REMARK 3 PLANARITY : 0.007 433 REMARK 3 DIHEDRAL : 22.458 1195 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 : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND (RESSEQ 362:399 OR RESSEQ REMARK 3 405:435 OR RESSEQ 444:473 OR RESSEQ 484: REMARK 3 505 OR RESSEQ 507:511 ) REMARK 3 SELECTION : CHAIN A AND (RESSEQ 362:399 OR RESSEQ REMARK 3 405:435 OR RESSEQ 444:473 OR RESSEQ 484: REMARK 3 505 OR RESSEQ 507:511 ) REMARK 3 ATOM PAIRS NUMBER : 966 REMARK 3 RMSD : 0.031 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3Q0D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063035. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : CRYO-COOLED SI(111) DOUBLE REMARK 200 CRYSTAL REMARK 200 OPTICS : CRYOGENECALLY-COOLED DOUBLE REMARK 200 SI(111) MONOCHROMOTER REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17234 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.370 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 30.1000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP MR REMARK 200 STARTING MODEL: SRA MOLECULE FROM THE SUVH5 SRA-FULLY METHYLATED REMARK 200 CG DNA CRYSTALLIZED IN SPACE GROUP P42212 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PEG4000, 100 MM MES, PH 6.5, 200 REMARK 280 MM NACL AND 3 MM SPERMINE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y,X,Z+1/2 REMARK 290 4555 Y,-X,Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.12700 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 37.12700 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X, A, 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ASP X 400 REMARK 465 ASP X 401 REMARK 465 GLY X 402 REMARK 465 GLY X 403 REMARK 465 GLU X 404 REMARK 465 GLY X 436 REMARK 465 LYS X 437 REMARK 465 LYS X 438 REMARK 465 LYS X 439 REMARK 465 ASN X 440 REMARK 465 ASN X 441 REMARK 465 GLU X 442 REMARK 465 PRO X 443 REMARK 465 ASN X 474 REMARK 465 THR X 475 REMARK 465 THR X 476 REMARK 465 LEU X 477 REMARK 465 GLN X 478 REMARK 465 SER X 479 REMARK 465 SER X 480 REMARK 465 VAL X 481 REMARK 465 VAL X 482 REMARK 465 ALA X 483 REMARK 465 LYS X 525 REMARK 465 GLU X 526 REMARK 465 VAL X 527 REMARK 465 ALA X 528 REMARK 465 ASP A 401 REMARK 465 GLY A 402 REMARK 465 GLY A 436 REMARK 465 LYS A 437 REMARK 465 LYS A 438 REMARK 465 LYS A 439 REMARK 465 ASN A 440 REMARK 465 ASN A 441 REMARK 465 ASN A 474 REMARK 465 THR A 475 REMARK 465 THR A 476 REMARK 465 LEU A 477 REMARK 465 GLN A 478 REMARK 465 SER A 479 REMARK 465 SER A 480 REMARK 465 VAL A 481 REMARK 465 VAL A 482 REMARK 465 ALA A 483 REMARK 465 LYS A 525 REMARK 465 GLU A 526 REMARK 465 VAL A 527 REMARK 465 ALA A 528 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 LYS X 399 CG CD CE NZ REMARK 470 LYS X 445 CG CD CE NZ REMARK 470 LYS X 462 CG CD CE NZ REMARK 470 LYS X 463 CG CD CE NZ REMARK 470 LYS X 473 CG CD CE NZ REMARK 470 SER X 503 OG REMARK 470 LYS X 506 CG CD CE NZ REMARK 470 LYS X 512 CG CD CE NZ REMARK 470 GLU X 521 CG CD OE1 OE2 REMARK 470 TRP X 524 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP X 524 CZ3 CH2 REMARK 470 LYS A 399 CG CD CE NZ REMARK 470 GLU A 404 CG CD OE1 OE2 REMARK 470 GLU A 442 CG CD OE1 OE2 REMARK 470 LYS A 445 CG CD CE NZ REMARK 470 LYS A 462 CG CD CE NZ REMARK 470 LYS A 463 CG CD CE NZ REMARK 470 LYS A 473 CG CD CE NZ REMARK 470 SER A 503 OG REMARK 470 TRP A 524 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 524 CZ3 CH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OD2 ASP X 421 O HOH X 17 1.91 REMARK 500 REMARK 500 REMARK: NULL 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 DA B 9 O3' DA B 9 C3' -0.047 REMARK 500 DG C 9 O3' DG C 9 C3' -0.038 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 PRO A 444 C - N - CA ANGL. DEV. = 12.2 DEGREES REMARK 500 DT B 1 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT B 1 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC B 2 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG B 6 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DT B 7 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC B 8 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DG B 10 C3' - C2' - C1' ANGL. DEV. = -6.9 DEGREES REMARK 500 DG B 10 C3' - C2' - C1' ANGL. DEV. = -5.6 DEGREES REMARK 500 DC C 1 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT C 2 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG C 3 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA C 10 C3' - C2' - C1' ANGL. DEV. = -6.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER X 413 29.13 -142.71 REMARK 500 ASN X 422 18.60 54.58 REMARK 500 SER X 423 -156.96 -105.83 REMARK 500 ASP X 446 173.75 -43.54 REMARK 500 THR X 451 -117.46 32.70 REMARK 500 LYS X 463 29.66 46.33 REMARK 500 PRO A 390 150.93 -49.59 REMARK 500 SER A 413 29.17 -143.22 REMARK 500 ASN A 422 18.41 55.22 REMARK 500 SER A 423 -157.70 -106.16 REMARK 500 ASP A 446 173.40 -43.02 REMARK 500 THR A 451 -117.07 29.94 REMARK 500 LYS A 463 29.25 46.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3Q0B RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SUVH5 SRA-FULLY METHYLATED CG COMPLEX IN SPACE REMARK 900 GROUP P42212 REMARK 900 RELATED ID: 3Q0C RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SUVH5 SRA-FULLY METHYLATED CG COMPLEX IN SPACE REMARK 900 GROUP P6122 REMARK 900 RELATED ID: 3Q0F RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SUVH5 SRA-METHYLATED CHH DNA COMPLEX DBREF 3Q0D X 362 528 UNP O82175 SUVH5_ARATH 362 528 DBREF 3Q0D A 362 528 UNP O82175 SUVH5_ARATH 362 528 DBREF 3Q0D B 1 10 PDB 3Q0D 3Q0D 1 10 DBREF 3Q0D C 1 10 PDB 3Q0D 3Q0D 1 10 SEQRES 1 X 167 GLN ILE ILE GLY THR VAL PRO GLY VAL GLU VAL GLY ASP SEQRES 2 X 167 GLU PHE GLN TYR ARG MET GLU LEU ASN LEU LEU GLY ILE SEQRES 3 X 167 HIS ARG PRO SER GLN SER GLY ILE ASP TYR MET LYS ASP SEQRES 4 X 167 ASP GLY GLY GLU LEU VAL ALA THR SER ILE VAL SER SER SEQRES 5 X 167 GLY GLY TYR ASN ASP VAL LEU ASP ASN SER ASP VAL LEU SEQRES 6 X 167 ILE TYR THR GLY GLN GLY GLY ASN VAL GLY LYS LYS LYS SEQRES 7 X 167 ASN ASN GLU PRO PRO LYS ASP GLN GLN LEU VAL THR GLY SEQRES 8 X 167 ASN LEU ALA LEU LYS ASN SER ILE ASN LYS LYS ASN PRO SEQRES 9 X 167 VAL ARG VAL ILE ARG GLY ILE LYS ASN THR THR LEU GLN SEQRES 10 X 167 SER SER VAL VAL ALA LYS ASN TYR VAL TYR ASP GLY LEU SEQRES 11 X 167 TYR LEU VAL GLU GLU TYR TRP GLU GLU THR GLY SER HIS SEQRES 12 X 167 GLY LYS LEU VAL PHE LYS PHE LYS LEU ARG ARG ILE PRO SEQRES 13 X 167 GLY GLN PRO GLU LEU PRO TRP LYS GLU VAL ALA SEQRES 1 A 167 GLN ILE ILE GLY THR VAL PRO GLY VAL GLU VAL GLY ASP SEQRES 2 A 167 GLU PHE GLN TYR ARG MET GLU LEU ASN LEU LEU GLY ILE SEQRES 3 A 167 HIS ARG PRO SER GLN SER GLY ILE ASP TYR MET LYS ASP SEQRES 4 A 167 ASP GLY GLY GLU LEU VAL ALA THR SER ILE VAL SER SER SEQRES 5 A 167 GLY GLY TYR ASN ASP VAL LEU ASP ASN SER ASP VAL LEU SEQRES 6 A 167 ILE TYR THR GLY GLN GLY GLY ASN VAL GLY LYS LYS LYS SEQRES 7 A 167 ASN ASN GLU PRO PRO LYS ASP GLN GLN LEU VAL THR GLY SEQRES 8 A 167 ASN LEU ALA LEU LYS ASN SER ILE ASN LYS LYS ASN PRO SEQRES 9 A 167 VAL ARG VAL ILE ARG GLY ILE LYS ASN THR THR LEU GLN SEQRES 10 A 167 SER SER VAL VAL ALA LYS ASN TYR VAL TYR ASP GLY LEU SEQRES 11 A 167 TYR LEU VAL GLU GLU TYR TRP GLU GLU THR GLY SER HIS SEQRES 12 A 167 GLY LYS LEU VAL PHE LYS PHE LYS LEU ARG ARG ILE PRO SEQRES 13 A 167 GLY GLN PRO GLU LEU PRO TRP LYS GLU VAL ALA SEQRES 1 B 10 DT DC DC DA 5CM DG DT DC DA DG SEQRES 1 C 10 DC DT DG DA DC DG DT DG DG DA MODRES 3Q0D 5CM B 5 DC HET 5CM B 5 40 HET CL A 1 1 HETNAM 5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM CL CHLORIDE ION FORMUL 3 5CM C10 H16 N3 O7 P FORMUL 5 CL CL 1- FORMUL 6 HOH *51(H2 O) HELIX 1 1 TYR X 378 LEU X 385 1 8 HELIX 2 2 VAL X 450 LYS X 463 1 14 HELIX 3 3 TYR A 378 LEU A 385 1 8 HELIX 4 4 VAL A 450 LYS A 463 1 14 SHEET 1 A 5 GLU X 375 PHE X 376 0 SHEET 2 A 5 TYR X 486 GLU X 499 -1 N TYR X 486 O PHE X 376 SHEET 3 A 5 VAL X 466 GLY X 471 -1 N VAL X 468 O ASP X 489 SHEET 4 A 5 VAL X 406 SER X 412 1 N ILE X 410 O ILE X 469 SHEET 5 A 5 ILE X 395 MET X 398 -1 N ASP X 396 O THR X 408 SHEET 1 B 5 GLU X 375 PHE X 376 0 SHEET 2 B 5 TYR X 486 GLU X 499 -1 N TYR X 486 O PHE X 376 SHEET 3 B 5 PHE X 509 ARG X 515 -1 O LYS X 512 N GLU X 496 SHEET 4 B 5 VAL X 425 THR X 429 -1 N TYR X 428 O PHE X 511 SHEET 5 B 5 VAL X 419 LEU X 420 -1 N VAL X 419 O ILE X 427 SHEET 1 C 5 GLU A 375 PHE A 376 0 SHEET 2 C 5 TYR A 486 GLU A 499 -1 N TYR A 486 O PHE A 376 SHEET 3 C 5 VAL A 466 GLY A 471 -1 N VAL A 468 O ASP A 489 SHEET 4 C 5 LEU A 405 SER A 412 1 N SER A 412 O ILE A 469 SHEET 5 C 5 ILE A 395 LYS A 399 -1 N ASP A 396 O THR A 408 SHEET 1 D 5 GLU A 375 PHE A 376 0 SHEET 2 D 5 TYR A 486 GLU A 499 -1 N TYR A 486 O PHE A 376 SHEET 3 D 5 PHE A 509 ARG A 515 -1 O LYS A 512 N GLU A 496 SHEET 4 D 5 VAL A 425 THR A 429 -1 N TYR A 428 O PHE A 511 SHEET 5 D 5 VAL A 419 LEU A 420 -1 N VAL A 419 O ILE A 427 LINK O3'A DA B 4 P A5CM B 5 1555 1555 1.61 LINK O3'B DA B 4 P B5CM B 5 1555 1555 1.61 LINK O3'A5CM B 5 P A DG B 6 1555 1555 1.62 LINK O3'B5CM B 5 P B DG B 6 1555 1555 1.61 CRYST1 76.379 76.379 74.254 90.00 90.00 90.00 P 42 8 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 0.013093 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013093 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013467 0.00000