HEADER LIGASE 27-JUN-14 4QQD TITLE CRYSTAL STRUCTURE OF TANDEM TUDOR DOMAINS OF UHRF1 IN COMPLEX WITH A TITLE 2 SMALL ORGANIC MOLECULE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UHRF1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 126-285; COMPND 5 SYNONYM: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA, NUCLEAR COMPND 6 PROTEIN 95, NUCLEAR ZINC FINGER PROTEIN NP95, HUNP95, HNP95, RING COMPND 7 FINGER PROTEIN 106, TRANSCRIPTION FACTOR ICBP90, UBIQUITIN-LIKE PHD COMPND 8 AND RING FINGER DOMAIN-CONTAINING PROTEIN 1, HUHRF1, UBIQUITIN-LIKE- COMPND 9 CONTAINING PHD AND RING FINGER DOMAINS PROTEIN 1; COMPND 10 EC: 6.3.2.-; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UHRF1, ICBP90, NP95, RNF106; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28-MHL KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.LIU,W.TEMPEL,A.IQBAL,J.R.WALKER,C.BOUNTRA,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,P.J.BROWN,J.MIN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 03-APR-24 4QQD 1 REMARK REVDAT 3 05-OCT-22 4QQD 1 JRNL REMARK SEQADV REVDAT 2 22-OCT-14 4QQD 1 JRNL REVDAT 1 06-AUG-14 4QQD 0 JRNL AUTH Y.LIU,A.IQBAL,W.LI,Z.NI,Y.WANG,J.RAMPRASAD,K.J.ABRAHAM, JRNL AUTH 2 M.ZHANG,D.Y.ZHAO,S.QIN,P.LOPPNAU,H.JIANG,X.GUO,P.J.BROWN, JRNL AUTH 3 X.ZHEN,G.XU,K.MEKHAIL,X.JI,M.T.BEDFORD,J.F.GREENBLATT,J.MIN JRNL TITL A SMALL MOLECULE ANTAGONIST OF SMN DISRUPTS THE INTERACTION JRNL TITL 2 BETWEEN SMN AND RNAP II. JRNL REF NAT COMMUN V. 13 5453 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36114190 JRNL DOI 10.1038/S41467-022-33229-5 REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16644 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THIN SHELLS (SFTOOLS) REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1208 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1134 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.3370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2149 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 54 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.28000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.90000 REMARK 3 B12 (A**2) : -0.14000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.283 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.225 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.167 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.879 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2286 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2091 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3122 ; 1.391 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4731 ; 0.993 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 270 ; 6.935 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;31.972 ;23.419 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 344 ;13.361 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;15.808 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 330 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2825 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 565 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1091 ; 4.091 ; 3.956 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1092 ; 4.089 ; 3.955 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1352 ; 5.940 ; 5.921 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 133 280 B 133 280 7223 0.100 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS ORIGINALLY SOLVED BY REMARK 3 MOLECULAR REPLACEMENT (PHASER, UNPUBLISHED MODEL OF UHRF1) WITH REMARK 3 AN ISOMORPHOUS CRYSTAL. SMILES(CN1C2=C(CCC2)C(=N)C2=C1CCC2) REMARK 3 REPRESENTS THE UNCHARGED FORM OF THE LIGAND. GEOMETRY RESTRAINTS REMARK 3 FOR THE INHIBITOR WERE PREPARED ON THE GRADE SERVER WITH REMARK 3 SMILES(C[N+]1C2CCCC2C(N)C2CCCC12). WE NOTE THAT MOGUL INFERRED REMARK 3 THE TYPE OF THE C10-C11 BOND IN REFINED LIGAND COORDINATES AS REMARK 3 DOUBLE, WHICH WOULD BE INCONSISTENT WITH ANY TRADITIONAL REMARK 3 HYBRIDIZATION STATE OF C11. COOT WAS USED FOR INTERACTIVE MODEL REMARK 3 BUILDING. MODEL GEOMETRY WAS EVALUATED WITH MOLPROBITY. REMARK 4 REMARK 4 4QQD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000086380. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791831 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC Q315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16676 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.280 REMARK 200 RESOLUTION RANGE LOW (A) : 43.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.30 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.40 REMARK 200 R MERGE FOR SHELL (I) : 0.94400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: UNPUBLISHED STRUCTURE OF UHRF1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG-3350, 0.2 M MAGNESIUM NITRATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 27.97367 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 55.94733 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 41.96050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 69.93417 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 13.98683 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 HAVE INDICATED THAT THE BIOLOGICAL UNIT IS UNKNOWN. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY A 125 REMARK 465 MET A 126 REMARK 465 TRP A 127 REMARK 465 ASP A 128 REMARK 465 GLU A 129 REMARK 465 THR A 130 REMARK 465 GLU A 131 REMARK 465 LEU A 132 REMARK 465 ALA A 163 REMARK 465 PRO A 164 REMARK 465 SER A 165 REMARK 465 ARG A 166 REMARK 465 ASP A 167 REMARK 465 GLU A 168 REMARK 465 PRO A 169 REMARK 465 CYS A 170 REMARK 465 SER A 171 REMARK 465 SER A 172 REMARK 465 THR A 173 REMARK 465 SER A 174 REMARK 465 ARG A 175 REMARK 465 PRO A 176 REMARK 465 ALA A 177 REMARK 465 LEU A 178 REMARK 465 PRO A 283 REMARK 465 GLY A 284 REMARK 465 GLU A 285 REMARK 465 GLY B 125 REMARK 465 ASP B 128 REMARK 465 GLU B 129 REMARK 465 THR B 130 REMARK 465 GLU B 131 REMARK 465 LEU B 132 REMARK 465 ALA B 163 REMARK 465 PRO B 164 REMARK 465 SER B 165 REMARK 465 ARG B 166 REMARK 465 ASP B 167 REMARK 465 GLU B 168 REMARK 465 PRO B 169 REMARK 465 CYS B 170 REMARK 465 SER B 171 REMARK 465 SER B 172 REMARK 465 THR B 173 REMARK 465 SER B 174 REMARK 465 ARG B 175 REMARK 465 PRO B 176 REMARK 465 ALA B 177 REMARK 465 ARG B 282 REMARK 465 PRO B 283 REMARK 465 GLY B 284 REMARK 465 GLU B 285 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 A 136 CD CE NZ REMARK 470 ARG A 161 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 162 CG CD CE NZ REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 ASP A 181 CG OD1 OD2 REMARK 470 LYS A 187 NZ REMARK 470 GLU A 193 CG CD OE1 OE2 REMARK 470 LYS A 213 CE NZ REMARK 470 GLN A 215 CG CD OE1 NE2 REMARK 470 LYS A 233 CE NZ REMARK 470 ARG A 250 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 263 CG OD1 OD2 REMARK 470 ASP A 264 CG OD1 OD2 REMARK 470 LYS A 279 CE NZ REMARK 470 GLU A 281 CG CD OE1 OE2 REMARK 470 ARG A 282 C O CB CG CD NE CZ REMARK 470 ARG A 282 NH1 NH2 REMARK 470 LYS B 136 CE NZ REMARK 470 ARG B 161 CD NE CZ NH1 NH2 REMARK 470 LYS B 162 CG CD CE NZ REMARK 470 LEU B 178 CG CD1 CD2 REMARK 470 GLU B 180 CG CD OE1 OE2 REMARK 470 ASP B 181 CG OD1 OD2 REMARK 470 LYS B 187 CD CE NZ REMARK 470 GLN B 198 CD OE1 NE2 REMARK 470 ARG B 202 CZ NH1 NH2 REMARK 470 LYS B 213 CE NZ REMARK 470 GLN B 215 CG CD OE1 NE2 REMARK 470 LYS B 233 CD CE NZ REMARK 470 ASP B 263 CG OD1 OD2 REMARK 470 ASP B 264 CG OD1 OD2 REMARK 470 LYS B 279 NZ REMARK 470 GLU B 281 CG CD OE1 OE2 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 ARG A 205 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 205 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 205 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG B 205 NE - CZ - NH2 ANGL. DEV. = -6.1 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 ASN A 138 -5.71 73.20 REMARK 500 TYR A 191 55.23 -145.75 REMARK 500 ASP A 263 -73.84 -58.99 REMARK 500 ASN B 138 -5.35 75.05 REMARK 500 TYR B 191 58.89 -145.14 REMARK 500 ASP B 263 -72.80 -59.59 REMARK 500 ASP B 263 -45.44 -130.74 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 RESIDUE 36X A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 36X A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 36X B 301 DBREF 4QQD A 126 285 UNP Q96T88 UHRF1_HUMAN 126 285 DBREF 4QQD B 126 285 UNP Q96T88 UHRF1_HUMAN 126 285 SEQADV 4QQD GLY A 125 UNP Q96T88 EXPRESSION TAG SEQADV 4QQD GLY B 125 UNP Q96T88 EXPRESSION TAG SEQRES 1 A 161 GLY MET TRP ASP GLU THR GLU LEU GLY LEU TYR LYS VAL SEQRES 2 A 161 ASN GLU TYR VAL ASP ALA ARG ASP THR ASN MET GLY ALA SEQRES 3 A 161 TRP PHE GLU ALA GLN VAL VAL ARG VAL THR ARG LYS ALA SEQRES 4 A 161 PRO SER ARG ASP GLU PRO CYS SER SER THR SER ARG PRO SEQRES 5 A 161 ALA LEU GLU GLU ASP VAL ILE TYR HIS VAL LYS TYR ASP SEQRES 6 A 161 ASP TYR PRO GLU ASN GLY VAL VAL GLN MET ASN SER ARG SEQRES 7 A 161 ASP VAL ARG ALA ARG ALA ARG THR ILE ILE LYS TRP GLN SEQRES 8 A 161 ASP LEU GLU VAL GLY GLN VAL VAL MET LEU ASN TYR ASN SEQRES 9 A 161 PRO ASP ASN PRO LYS GLU ARG GLY PHE TRP TYR ASP ALA SEQRES 10 A 161 GLU ILE SER ARG LYS ARG GLU THR ARG THR ALA ARG GLU SEQRES 11 A 161 LEU TYR ALA ASN VAL VAL LEU GLY ASP ASP SER LEU ASN SEQRES 12 A 161 ASP CYS ARG ILE ILE PHE VAL ASP GLU VAL PHE LYS ILE SEQRES 13 A 161 GLU ARG PRO GLY GLU SEQRES 1 B 161 GLY MET TRP ASP GLU THR GLU LEU GLY LEU TYR LYS VAL SEQRES 2 B 161 ASN GLU TYR VAL ASP ALA ARG ASP THR ASN MET GLY ALA SEQRES 3 B 161 TRP PHE GLU ALA GLN VAL VAL ARG VAL THR ARG LYS ALA SEQRES 4 B 161 PRO SER ARG ASP GLU PRO CYS SER SER THR SER ARG PRO SEQRES 5 B 161 ALA LEU GLU GLU ASP VAL ILE TYR HIS VAL LYS TYR ASP SEQRES 6 B 161 ASP TYR PRO GLU ASN GLY VAL VAL GLN MET ASN SER ARG SEQRES 7 B 161 ASP VAL ARG ALA ARG ALA ARG THR ILE ILE LYS TRP GLN SEQRES 8 B 161 ASP LEU GLU VAL GLY GLN VAL VAL MET LEU ASN TYR ASN SEQRES 9 B 161 PRO ASP ASN PRO LYS GLU ARG GLY PHE TRP TYR ASP ALA SEQRES 10 B 161 GLU ILE SER ARG LYS ARG GLU THR ARG THR ALA ARG GLU SEQRES 11 B 161 LEU TYR ALA ASN VAL VAL LEU GLY ASP ASP SER LEU ASN SEQRES 12 B 161 ASP CYS ARG ILE ILE PHE VAL ASP GLU VAL PHE LYS ILE SEQRES 13 B 161 GLU ARG PRO GLY GLU HET 36X A 301 14 HET 36X A 302 42 HET UNX A 303 1 HET UNX A 304 1 HET 36X B 301 14 HET UNX B 302 1 HET UNX B 303 1 HET UNX B 304 1 HETNAM 36X 4-METHYL-2,3,4,5,6,7-HEXAHYDRODICYCLOPENTA[B,E]PYRIDIN- HETNAM 2 36X 8(1H)-IMINE HETNAM UNX UNKNOWN ATOM OR ION FORMUL 3 36X 3(C12 H16 N2) FORMUL 5 UNX 5(X) FORMUL 11 HOH *54(H2 O) HELIX 1 1 TYR A 191 ASN A 194 5 4 HELIX 2 2 LYS A 213 LEU A 217 5 5 HELIX 3 3 LEU B 178 GLU B 180 5 3 HELIX 4 4 TYR B 191 GLY B 195 5 5 HELIX 5 5 LYS B 213 LEU B 217 5 5 SHEET 1 A 5 VAL A 196 ASN A 200 0 SHEET 2 A 5 VAL A 182 TYR A 188 -1 N TYR A 184 O MET A 199 SHEET 3 A 5 TRP A 151 ARG A 161 -1 N THR A 160 O ILE A 183 SHEET 4 A 5 TYR A 140 ARG A 144 -1 N VAL A 141 O ALA A 154 SHEET 5 A 5 VAL A 204 ALA A 206 -1 O ARG A 205 N ASP A 142 SHEET 1 B 5 SER A 265 ILE A 271 0 SHEET 2 B 5 ARG A 253 VAL A 260 -1 N ALA A 257 O CYS A 269 SHEET 3 B 5 PHE A 237 GLU A 248 -1 N ARG A 245 O TYR A 256 SHEET 4 B 5 VAL A 222 TYR A 227 -1 N VAL A 223 O ALA A 241 SHEET 5 B 5 PHE A 278 LYS A 279 -1 O PHE A 278 N MET A 224 SHEET 1 C 5 VAL B 197 ASN B 200 0 SHEET 2 C 5 VAL B 182 TYR B 188 -1 N TYR B 184 O MET B 199 SHEET 3 C 5 TRP B 151 ARG B 161 -1 N THR B 160 O ILE B 183 SHEET 4 C 5 TYR B 140 ARG B 144 -1 N VAL B 141 O ALA B 154 SHEET 5 C 5 VAL B 204 ALA B 206 -1 O ARG B 205 N ASP B 142 SHEET 1 D 5 SER B 265 ARG B 270 0 SHEET 2 D 5 ARG B 253 VAL B 260 -1 N ALA B 257 O CYS B 269 SHEET 3 D 5 PHE B 237 GLU B 248 -1 N ARG B 245 O TYR B 256 SHEET 4 D 5 VAL B 222 TYR B 227 -1 N VAL B 223 O ALA B 241 SHEET 5 D 5 PHE B 278 LYS B 279 -1 O PHE B 278 N MET B 224 SITE 1 AC1 6 ASP A 142 TRP A 151 GLU A 153 ARG A 209 SITE 2 AC1 6 TRP A 238 PHE A 278 SITE 1 AC2 6 ASP A 145 MET A 148 PHE A 152 TYR A 188 SITE 2 AC2 6 TYR A 191 TRP B 127 SITE 1 AC3 5 TRP B 151 ARG B 209 TRP B 238 PHE B 278 SITE 2 AC3 5 HOH B 408 CRYST1 87.338 87.338 83.921 90.00 90.00 120.00 P 61 12 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 0.011450 0.006611 0.000000 0.00000 SCALE2 0.000000 0.013221 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011916 0.00000