HEADER GENE REGULATION 14-JAN-24 8XV6 TITLE CRYSTAL STRUCTURE OF PHD DOMAIN OF UHRF1 IN COMPLEX WITH MSTELLA TITLE 2 PEPTIDE (RESIDUES 85-119) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UHRF1; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: PHD DOMAIN; COMPND 5 SYNONYM: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA,NUCLEAR PROTEIN COMPND 6 95,NUCLEAR ZINC FINGER PROTEIN NP95,HUNP95,HNP95,RING FINGER PROTEIN COMPND 7 106,RING-TYPE E3 UBIQUITIN TRANSFERASE UHRF1,TRANSCRIPTION FACTOR COMPND 8 ICBP90,UBIQUITIN-LIKE PHD AND RING FINGER DOMAIN-CONTAINING PROTEIN COMPND 9 1,HUHRF1,UBIQUITIN-LIKE-CONTAINING PHD AND RING FINGER DOMAINS COMPND 10 PROTEIN 1; COMPND 11 EC: 2.3.2.27; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 2; COMPND 14 MOLECULE: DEVELOPMENTAL PLURIPOTENCY-ASSOCIATED PROTEIN 3; COMPND 15 CHAIN: B, D; COMPND 16 SYNONYM: COMPACTION-ASSOCIATED PROTEIN 1,PRIMORDIAL GERM CELL PROTEIN COMPND 17 7,STELLA; COMPND 18 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: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 12 ORGANISM_TAXID: 10090 KEYWDS INHIBITOR, COMPLEX, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR X.DU,Q.GAN,J.XU,J.LIU REVDAT 2 19-FEB-25 8XV6 1 JRNL REVDAT 1 06-NOV-24 8XV6 0 JRNL AUTH W.BAI,J.XU,W.GU,D.WANG,Y.CUI,W.RONG,X.DU,X.LI,C.XIA,Q.GAN, JRNL AUTH 2 G.HE,H.GUO,J.DENG,Y.WU,R.C.YEN,S.YEGNASUBRAMANIAN, JRNL AUTH 3 S.B.ROTHBART,C.LUO,L.WU,J.LIU,S.B.BAYLIN,X.KONG JRNL TITL DEFINING ORTHOLOG-SPECIFIC UHRF1 INHIBITION BY STELLA FOR JRNL TITL 2 CANCER THERAPY. JRNL REF NAT COMMUN V. 16 474 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 39774694 JRNL DOI 10.1038/S41467-024-55481-7 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 32780 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1794 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2377 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.2090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1522 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.21000 REMARK 3 B33 (A**2) : 0.20000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.063 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.693 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1585 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 1512 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2104 ; 1.810 ; 1.875 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3475 ; 0.831 ; 1.847 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 188 ; 5.281 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 21 ; 9.729 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 297 ;11.543 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 224 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1854 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 354 ; 0.002 ; 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): 764 ; 1.638 ; 1.770 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 758 ; 1.513 ; 1.761 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 941 ; 2.198 ; 3.159 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 942 ; 2.197 ; 3.160 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 821 ; 2.687 ; 2.099 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 822 ; 2.688 ; 2.102 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1163 ; 3.885 ; 3.694 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1770 ; 6.321 ;18.990 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1771 ; 6.320 ;18.990 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 299 A 366 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0390 2.0312 10.4449 REMARK 3 T TENSOR REMARK 3 T11: 0.0266 T22: 0.0594 REMARK 3 T33: 0.0299 T12: 0.0389 REMARK 3 T13: 0.0138 T23: 0.0234 REMARK 3 L TENSOR REMARK 3 L11: 1.4609 L22: 4.0655 REMARK 3 L33: 3.3900 L12: -1.5044 REMARK 3 L13: -0.5134 L23: 1.1457 REMARK 3 S TENSOR REMARK 3 S11: -0.0700 S12: -0.0731 S13: 0.0576 REMARK 3 S21: 0.1197 S22: 0.2032 S23: -0.0527 REMARK 3 S31: -0.0498 S32: -0.1055 S33: -0.1332 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 87 B 113 REMARK 3 ORIGIN FOR THE GROUP (A): 4.7003 -3.7882 14.5301 REMARK 3 T TENSOR REMARK 3 T11: 0.1055 T22: 0.1615 REMARK 3 T33: 0.1560 T12: 0.0426 REMARK 3 T13: 0.0603 T23: 0.0382 REMARK 3 L TENSOR REMARK 3 L11: 4.1246 L22: 4.2007 REMARK 3 L33: 8.1966 L12: 1.6848 REMARK 3 L13: 2.5281 L23: 3.2057 REMARK 3 S TENSOR REMARK 3 S11: 0.0164 S12: -0.2243 S13: 0.0124 REMARK 3 S21: 0.1482 S22: -0.2053 S23: 0.4851 REMARK 3 S31: 0.2429 S32: -0.7639 S33: 0.1889 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 299 C 366 REMARK 3 ORIGIN FOR THE GROUP (A): 32.7565 -14.5901 13.3681 REMARK 3 T TENSOR REMARK 3 T11: 0.0597 T22: 0.0409 REMARK 3 T33: 0.0162 T12: 0.0472 REMARK 3 T13: 0.0159 T23: 0.0119 REMARK 3 L TENSOR REMARK 3 L11: 3.6474 L22: 2.2827 REMARK 3 L33: 2.8896 L12: -1.6325 REMARK 3 L13: 1.3284 L23: -0.7251 REMARK 3 S TENSOR REMARK 3 S11: 0.0953 S12: 0.0405 S13: -0.0377 REMARK 3 S21: -0.0685 S22: -0.0955 S23: 0.0363 REMARK 3 S31: 0.1170 S32: 0.0360 S33: 0.0002 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 87 D 113 REMARK 3 ORIGIN FOR THE GROUP (A): 39.4797 -6.5797 9.1058 REMARK 3 T TENSOR REMARK 3 T11: 0.1309 T22: 0.1045 REMARK 3 T33: 0.1491 T12: 0.0540 REMARK 3 T13: 0.0214 T23: 0.0821 REMARK 3 L TENSOR REMARK 3 L11: 4.6329 L22: 4.4962 REMARK 3 L33: 6.8182 L12: 1.9307 REMARK 3 L13: 2.4750 L23: 2.5409 REMARK 3 S TENSOR REMARK 3 S11: -0.1461 S12: 0.2051 S13: 0.5164 REMARK 3 S21: -0.1853 S22: -0.0472 S23: -0.1553 REMARK 3 S31: -0.5351 S32: 0.3008 S33: 0.1933 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 8XV6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1300044229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-23 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 : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34602 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 19.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.32100 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 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M POTASSIUM THIOCYANATE, 30% PEG REMARK 280 MME2000, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 48.24000 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 48.24000 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 35.47000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.86000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.47000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.86000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.24000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.47000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.86000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.24000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.47000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.86000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -88.0 KCAL/MOL 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 293 REMARK 465 PRO A 294 REMARK 465 LEU A 295 REMARK 465 GLY A 296 REMARK 465 SER A 297 REMARK 465 SER A 298 REMARK 465 ALA A 367 REMARK 465 LYS B 85 REMARK 465 ARG B 86 REMARK 465 ARG B 114 REMARK 465 LEU B 115 REMARK 465 GLU B 116 REMARK 465 GLY B 117 REMARK 465 ASN B 118 REMARK 465 GLU B 119 REMARK 465 GLY C 293 REMARK 465 PRO C 294 REMARK 465 LEU C 295 REMARK 465 GLY C 296 REMARK 465 SER C 297 REMARK 465 SER C 298 REMARK 465 ALA C 367 REMARK 465 LYS D 85 REMARK 465 ARG D 86 REMARK 465 ARG D 114 REMARK 465 LEU D 115 REMARK 465 GLU D 116 REMARK 465 GLY D 117 REMARK 465 ASN D 118 REMARK 465 GLU D 119 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 O ARG B 87 O HOH B 201 1.97 REMARK 500 O ARG B 87 O HOH B 202 2.18 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 ARG A 314 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 314 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 VAL B 88 N - CA - CB ANGL. DEV. = -15.2 DEGREES REMARK 500 GLU C 362 OE1 - CD - OE2 ANGL. DEV. = -7.7 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 ALA A 317 -155.72 -123.21 REMARK 500 GLU A 335 -60.18 -98.86 REMARK 500 LYS C 306 18.34 57.35 REMARK 500 ALA C 317 -157.02 -126.56 REMARK 500 GLU C 335 -61.01 -105.19 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 ARG A 311 0.08 SIDE CHAIN REMARK 500 ARG B 111 0.15 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 302 SG REMARK 620 2 CYS A 305 SG 109.3 REMARK 620 3 CYS A 313 SG 117.3 109.9 REMARK 620 4 CYS A 316 SG 99.7 108.2 111.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 409 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 304 ND1 REMARK 620 2 HIS A 319 NE2 80.2 REMARK 620 3 GLU A 362 OE1 89.9 9.9 REMARK 620 4 SCN A 402 N 95.4 15.3 5.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 406 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 307 OD1 REMARK 620 2 CYS A 316 SG 108.1 REMARK 620 3 SCN A 401 N 113.8 114.1 REMARK 620 4 SCN A 403 N 101.2 105.6 112.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 318 SG REMARK 620 2 CYS A 321 SG 112.6 REMARK 620 3 HIS A 341 ND1 97.8 99.9 REMARK 620 4 CYS A 344 SG 120.4 110.8 112.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 408 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 333 SG REMARK 620 2 CYS A 336 SG 105.5 REMARK 620 3 CYS A 360 SG 111.4 111.0 REMARK 620 4 CYS A 363 SG 106.4 111.0 111.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 302 SG REMARK 620 2 CYS C 305 SG 110.1 REMARK 620 3 CYS C 313 SG 116.6 109.6 REMARK 620 4 CYS C 316 SG 98.9 109.9 111.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 304 ND1 REMARK 620 2 HIS C 319 NE2 77.1 REMARK 620 3 GLU C 362 OE1 87.3 10.4 REMARK 620 4 GLU C 362 OE2 81.9 9.0 8.1 REMARK 620 5 SCN C 402 S 93.4 17.3 7.3 11.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 307 OD1 REMARK 620 2 CYS C 316 SG 109.3 REMARK 620 3 SCN C 401 N 112.9 111.6 REMARK 620 4 SCN D 201 N 102.5 108.7 111.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 318 SG REMARK 620 2 CYS C 321 SG 112.3 REMARK 620 3 HIS C 341 ND1 99.6 101.2 REMARK 620 4 CYS C 344 SG 119.7 111.9 109.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 406 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 333 SG REMARK 620 2 CYS C 336 SG 106.2 REMARK 620 3 CYS C 360 SG 111.6 111.3 REMARK 620 4 CYS C 363 SG 105.8 109.5 112.1 REMARK 620 N 1 2 3 DBREF 8XV6 A 298 367 UNP Q96T88 UHRF1_HUMAN 298 367 DBREF 8XV6 B 85 119 UNP Q8QZY3 DPPA3_MOUSE 85 119 DBREF 8XV6 C 298 367 UNP Q96T88 UHRF1_HUMAN 298 367 DBREF 8XV6 D 85 119 UNP Q8QZY3 DPPA3_MOUSE 85 119 SEQADV 8XV6 GLY A 293 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 PRO A 294 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 LEU A 295 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 GLY A 296 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 SER A 297 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 GLY C 293 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 PRO C 294 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 LEU C 295 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 GLY C 296 UNP Q96T88 EXPRESSION TAG SEQADV 8XV6 SER C 297 UNP Q96T88 EXPRESSION TAG SEQRES 1 A 75 GLY PRO LEU GLY SER SER GLY PRO SER CYS LYS HIS CYS SEQRES 2 A 75 LYS ASP ASP VAL ASN ARG LEU CYS ARG VAL CYS ALA CYS SEQRES 3 A 75 HIS LEU CYS GLY GLY ARG GLN ASP PRO ASP LYS GLN LEU SEQRES 4 A 75 MET CYS ASP GLU CYS ASP MET ALA PHE HIS ILE TYR CYS SEQRES 5 A 75 LEU ASP PRO PRO LEU SER SER VAL PRO SER GLU ASP GLU SEQRES 6 A 75 TRP TYR CYS PRO GLU CYS ARG ASN ASP ALA SEQRES 1 B 35 LYS ARG ARG VAL ARG THR LEU LEU SER VAL LEU LYS ASP SEQRES 2 B 35 PRO ILE ALA LYS MET ARG ARG LEU VAL ARG ILE GLU GLN SEQRES 3 B 35 ARG GLN LYS ARG LEU GLU GLY ASN GLU SEQRES 1 C 75 GLY PRO LEU GLY SER SER GLY PRO SER CYS LYS HIS CYS SEQRES 2 C 75 LYS ASP ASP VAL ASN ARG LEU CYS ARG VAL CYS ALA CYS SEQRES 3 C 75 HIS LEU CYS GLY GLY ARG GLN ASP PRO ASP LYS GLN LEU SEQRES 4 C 75 MET CYS ASP GLU CYS ASP MET ALA PHE HIS ILE TYR CYS SEQRES 5 C 75 LEU ASP PRO PRO LEU SER SER VAL PRO SER GLU ASP GLU SEQRES 6 C 75 TRP TYR CYS PRO GLU CYS ARG ASN ASP ALA SEQRES 1 D 35 LYS ARG ARG VAL ARG THR LEU LEU SER VAL LEU LYS ASP SEQRES 2 D 35 PRO ILE ALA LYS MET ARG ARG LEU VAL ARG ILE GLU GLN SEQRES 3 D 35 ARG GLN LYS ARG LEU GLU GLY ASN GLU HET SCN A 401 3 HET SCN A 402 3 HET SCN A 403 3 HET GOL A 404 6 HET ZN A 405 1 HET ZN A 406 1 HET ZN A 407 1 HET ZN A 408 1 HET ZN A 409 1 HET SCN C 401 3 HET SCN C 402 3 HET ZN C 403 1 HET ZN C 404 1 HET ZN C 405 1 HET ZN C 406 1 HET ZN C 407 1 HET SCN D 201 3 HETNAM SCN THIOCYANATE ION HETNAM GOL GLYCEROL HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 SCN 6(C N S 1-) FORMUL 8 GOL C3 H8 O3 FORMUL 9 ZN 10(ZN 2+) FORMUL 22 HOH *122(H2 O) HELIX 1 AA1 ASP A 326 ASP A 328 5 3 HELIX 2 AA2 CYS A 360 ASN A 365 1 6 HELIX 3 AA3 THR B 90 LYS B 96 1 7 HELIX 4 AA4 ASP B 97 LYS B 113 1 17 HELIX 5 AA5 ASP C 326 ASP C 328 5 3 HELIX 6 AA6 CYS C 360 ASN C 365 1 6 HELIX 7 AA7 THR D 90 LYS D 96 1 7 HELIX 8 AA8 ASP D 97 LYS D 113 1 17 SHEET 1 AA1 2 GLN A 330 MET A 332 0 SHEET 2 AA1 2 ALA A 339 HIS A 341 -1 O PHE A 340 N LEU A 331 SHEET 1 AA2 2 GLN C 330 MET C 332 0 SHEET 2 AA2 2 ALA C 339 HIS C 341 -1 O PHE C 340 N LEU C 331 LINK SG CYS A 302 ZN ZN A 405 1555 1555 2.31 LINK ND1 HIS A 304 ZN ZN A 409 1555 4555 1.99 LINK SG CYS A 305 ZN ZN A 405 1555 1555 2.29 LINK OD1 ASP A 307 ZN ZN A 406 1555 1555 1.92 LINK SG CYS A 313 ZN ZN A 405 1555 1555 2.26 LINK SG CYS A 316 ZN ZN A 405 1555 1555 2.41 LINK SG CYS A 316 ZN ZN A 406 1555 1555 2.21 LINK SG CYS A 318 ZN ZN A 407 1555 1555 2.31 LINK NE2 HIS A 319 ZN ZN A 409 1555 1555 2.05 LINK SG CYS A 321 ZN ZN A 407 1555 1555 2.27 LINK SG CYS A 333 ZN ZN A 408 1555 1555 2.35 LINK SG CYS A 336 ZN ZN A 408 1555 1555 2.38 LINK ND1 HIS A 341 ZN ZN A 407 1555 1555 2.08 LINK SG CYS A 344 ZN ZN A 407 1555 1555 2.25 LINK SG CYS A 360 ZN ZN A 408 1555 1555 2.38 LINK OE1 GLU A 362 ZN ZN A 409 1555 1555 2.02 LINK SG CYS A 363 ZN ZN A 408 1555 1555 2.21 LINK N SCN A 401 ZN ZN A 406 1555 1555 2.01 LINK N SCN A 402 ZN ZN A 409 1555 1555 1.92 LINK N SCN A 403 ZN ZN A 406 1555 1555 1.99 LINK SG CYS C 302 ZN ZN C 404 1555 1555 2.27 LINK ND1 HIS C 304 ZN ZN C 407 1555 3655 2.00 LINK SG CYS C 305 ZN ZN C 404 1555 1555 2.26 LINK OD1 ASP C 307 ZN ZN C 403 1555 1555 1.99 LINK SG CYS C 313 ZN ZN C 404 1555 1555 2.27 LINK SG CYS C 316 ZN ZN C 403 1555 1555 2.27 LINK SG CYS C 316 ZN ZN C 404 1555 1555 2.37 LINK SG CYS C 318 ZN ZN C 405 1555 1555 2.37 LINK NE2 HIS C 319 ZN ZN C 407 1555 1555 2.07 LINK SG CYS C 321 ZN ZN C 405 1555 1555 2.27 LINK SG CYS C 333 ZN ZN C 406 1555 1555 2.36 LINK SG CYS C 336 ZN ZN C 406 1555 1555 2.34 LINK ND1 HIS C 341 ZN ZN C 405 1555 1555 2.10 LINK SG CYS C 344 ZN ZN C 405 1555 1555 2.28 LINK SG CYS C 360 ZN ZN C 406 1555 1555 2.33 LINK OE1 GLU C 362 ZN ZN C 407 1555 1555 2.18 LINK OE2 GLU C 362 ZN ZN C 407 1555 1555 2.05 LINK SG CYS C 363 ZN ZN C 406 1555 1555 2.26 LINK N SCN C 401 ZN ZN C 403 1555 1555 1.96 LINK S SCN C 402 ZN ZN C 407 1555 1555 2.34 LINK ZN ZN C 403 N SCN D 201 1555 1555 2.04 CISPEP 1 ASP A 346 PRO A 347 0 1.85 CISPEP 2 ASP C 346 PRO C 347 0 5.10 CRYST1 70.940 75.720 96.480 90.00 90.00 90.00 C 2 2 21 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 0.014096 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010365 0.00000 CONECT 23 1550 CONECT 48 1550 CONECT 64 1551 CONECT 113 1550 CONECT 145 1550 1551 CONECT 156 1552 CONECT 166 1554 CONECT 180 1552 CONECT 271 1553 CONECT 294 1553 CONECT 333 1552 CONECT 362 1552 CONECT 490 1553 CONECT 505 1554 CONECT 512 1553 CONECT 794 1562 CONECT 819 1562 CONECT 835 1561 CONECT 884 1562 CONECT 908 1561 1562 CONECT 919 1563 CONECT 929 1565 CONECT 943 1563 CONECT 1034 1564 CONECT 1057 1564 CONECT 1096 1563 CONECT 1125 1563 CONECT 1253 1564 CONECT 1268 1565 CONECT 1269 1565 CONECT 1275 1564 CONECT 1535 1536 CONECT 1536 1535 1537 CONECT 1537 1536 1551 CONECT 1538 1539 CONECT 1539 1538 1540 CONECT 1540 1539 1554 CONECT 1541 1542 CONECT 1542 1541 1543 CONECT 1543 1542 1551 CONECT 1544 1545 1546 CONECT 1545 1544 CONECT 1546 1544 1547 1548 CONECT 1547 1546 CONECT 1548 1546 1549 CONECT 1549 1548 CONECT 1550 23 48 113 145 CONECT 1551 64 145 1537 1543 CONECT 1552 156 180 333 362 CONECT 1553 271 294 490 512 CONECT 1554 166 505 1540 CONECT 1555 1556 CONECT 1556 1555 1557 CONECT 1557 1556 1561 CONECT 1558 1559 1565 CONECT 1559 1558 1560 CONECT 1560 1559 CONECT 1561 835 908 1557 1568 CONECT 1562 794 819 884 908 CONECT 1563 919 943 1096 1125 CONECT 1564 1034 1057 1253 1275 CONECT 1565 929 1268 1269 1558 CONECT 1566 1567 CONECT 1567 1566 1568 CONECT 1568 1561 1567 MASTER 543 0 17 8 4 0 0 6 1678 4 65 18 END