HEADER LIGASE/PEPTIDE 28-JUL-11 3ZVY TITLE PHD FINGER OF HUMAN UHRF1 IN COMPLEX WITH UNMODIFIED HISTONE H3 N- TITLE 2 TERMINAL TAIL COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UHRF1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PHD FINGER, RESIDUES 296-367; COMPND 5 SYNONYM: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA, NUCLEAR COMPND 6 PROTEIN 95, NUCLEAR ZINC FINGER PROTEIN NP95, HUNP95, RING FINGER COMPND 7 PROTEIN 106, TRANSCRIPTION FACTOR ICBP90, UBIQUITIN-LIKE PHD AND RING COMPND 8 FINGER DOMAIN-CONTAINING PROTEIN 1, UBIQUITIN-LIKE-CONTAINING PHD AND COMPND 9 RING FINGER DOMAINS PROTEIN 1; COMPND 10 EC: 6.3.2.-; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: HISTONE H3.1; COMPND 14 CHAIN: C, D; COMPND 15 FRAGMENT: RESIDUES 2-9; COMPND 16 SYNONYM: HISTONE H3/A, HISTONE H3/B, HISTONE H3/C, HISTONE H3/D, COMPND 17 HISTONE H3/F, HISTONE H3/H, HISTONE H3/I, HISTONE H3/J, HISTONE H3/K, COMPND 18 HISTONE H3/L; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PHGGWA; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS LIGASE-PEPTIDE COMPLEX, HISTONE READER, EPIGENETICS EXPDTA X-RAY DIFFRACTION AUTHOR N.LALLOUS,C.BIRCK,A.G.MC EWEN,P.LEGRAND,J.P.SAMAMA REVDAT 3 08-MAY-19 3ZVY 1 REMARK REVDAT 2 06-MAR-19 3ZVY 1 REMARK REVDAT 1 07-DEC-11 3ZVY 0 JRNL AUTH N.LALLOUS,P.LEGRAND,A.G.MCEWEN,S.RAMON-MAIQUES,J.P.SAMAMA, JRNL AUTH 2 C.BIRCK JRNL TITL THE PHD FINGER OF HUMAN UHRF1 REVEALS A NEW SUBGROUP OF JRNL TITL 2 UNMETHYLATED HISTONE H3 TAIL READERS. JRNL REF PLOS ONE V. 6 27599 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 22096602 JRNL DOI 10.1371/JOURNAL.PONE.0027599 REMARK 2 REMARK 2 RESOLUTION. 1.95 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.480 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 22160 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1176 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 41.2191 - 3.8991 0.99 2706 147 0.1564 0.1671 REMARK 3 2 3.8991 - 3.0951 1.00 2751 148 0.1768 0.2481 REMARK 3 3 3.0951 - 2.7040 1.00 2736 145 0.1935 0.2976 REMARK 3 4 2.7040 - 2.4568 1.00 2741 148 0.1922 0.2296 REMARK 3 5 2.4568 - 2.2807 1.00 2744 146 0.1920 0.2358 REMARK 3 6 2.2807 - 2.1462 1.00 2712 148 0.1998 0.2732 REMARK 3 7 2.1462 - 2.0388 1.00 2742 148 0.2167 0.2401 REMARK 3 8 2.0388 - 1.9500 0.99 2737 146 0.2551 0.2896 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 : 0.37 REMARK 3 B_SOL : 46.73 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.730 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.47 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.10100 REMARK 3 B22 (A**2) : 3.10100 REMARK 3 B33 (A**2) : -6.20190 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 : 0.007 1137 REMARK 3 ANGLE : 1.107 1540 REMARK 3 CHIRALITY : 0.076 161 REMARK 3 PLANARITY : 0.004 203 REMARK 3 DIHEDRAL : 12.328 441 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 40.5637 16.6928 149.9603 REMARK 3 T TENSOR REMARK 3 T11: 0.2924 T22: 0.3089 REMARK 3 T33: 0.2725 T12: 0.0836 REMARK 3 T13: -0.1166 T23: -0.0766 REMARK 3 L TENSOR REMARK 3 L11: 0.9489 L22: 3.3124 REMARK 3 L33: 3.1324 L12: -0.2954 REMARK 3 L13: 1.6144 L23: 0.6919 REMARK 3 S TENSOR REMARK 3 S11: 0.2631 S12: 0.3024 S13: -0.1280 REMARK 3 S21: 0.4518 S22: 0.1328 S23: -0.3730 REMARK 3 S31: 0.1812 S32: 0.5162 S33: -0.3520 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 20.8293 9.7726 152.0925 REMARK 3 T TENSOR REMARK 3 T11: 0.3390 T22: 0.2219 REMARK 3 T33: 0.2256 T12: 0.0284 REMARK 3 T13: -0.0601 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.4773 L22: 2.4891 REMARK 3 L33: 1.9304 L12: -0.7101 REMARK 3 L13: 0.7348 L23: -1.6185 REMARK 3 S TENSOR REMARK 3 S11: 0.2980 S12: -0.0384 S13: -0.1121 REMARK 3 S21: 0.4112 S22: 0.0262 S23: 0.0954 REMARK 3 S31: -0.0345 S32: -0.1943 S33: -0.2171 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 45.8441 10.8248 145.0354 REMARK 3 T TENSOR REMARK 3 T11: 0.3806 T22: 0.8104 REMARK 3 T33: 0.4530 T12: 0.0065 REMARK 3 T13: -0.0030 T23: -0.1576 REMARK 3 L TENSOR REMARK 3 L11: 2.8286 L22: 6.7169 REMARK 3 L33: 2.1689 L12: 3.6691 REMARK 3 L13: 0.8163 L23: 2.4755 REMARK 3 S TENSOR REMARK 3 S11: -0.3570 S12: 0.8663 S13: -0.3190 REMARK 3 S21: -0.3705 S22: 0.7318 S23: -0.4105 REMARK 3 S31: -0.3113 S32: 0.5722 S33: -0.4146 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 14.8643 15.6987 148.7195 REMARK 3 T TENSOR REMARK 3 T11: 0.3916 T22: 0.4819 REMARK 3 T33: 0.4137 T12: 0.1241 REMARK 3 T13: -0.0474 T23: -0.1246 REMARK 3 L TENSOR REMARK 3 L11: 0.1879 L22: 1.1485 REMARK 3 L33: 0.2017 L12: -0.4529 REMARK 3 L13: 0.1841 L23: -0.4786 REMARK 3 S TENSOR REMARK 3 S11: 0.0495 S12: 0.0501 S13: 0.1649 REMARK 3 S21: -0.1951 S22: 0.3729 S23: 0.1425 REMARK 3 S31: 0.4451 S32: -0.4166 S33: -0.0459 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3ZVY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1290049190. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.284 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22160 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 38.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 4.960 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.4600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.53000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.120 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE OBTAINED AT 17 DEGREES REMARK 280 USING THE VAPOR DIFFUSION METHOD BY MIXING A PROTEIN SOLUTION AT REMARK 280 A CONCENTRATION OF 606 MICROM (IN 20 MM TRIS PH 7, 150 MM NACL, REMARK 280 0.5 MM TCEP, 25 MICROM ZNCL2 AND 0.1 MM PMSF) AND 10-FOLD EXCESS REMARK 280 OF PEPTIDE WITH AN EQUAL VOLUME OF RESERVOIR SOLUTION (0.1 M REMARK 280 TRIS PH 8.5, 0.2 M MGCL2, 30 % PEG 4000). CRYSTALS WERE REMARK 280 CRYOPROTECTED WITH 15 % MPD AND FLASH FROZEN IN LIQUID NITROGEN., REMARK 280 TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -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 91.35000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 21.15000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 21.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 137.02500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 21.15000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 21.15000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 45.67500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 21.15000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 21.15000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 137.02500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 21.15000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 21.15000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.67500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 91.35000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ARG A 296 REMARK 465 LYS A 297 REMARK 465 SER A 298 REMARK 465 GLY A 299 REMARK 465 ASN A 365 REMARK 465 ASP A 366 REMARK 465 ALA A 367 REMARK 465 ARG B 296 REMARK 465 LYS B 297 REMARK 465 SER B 298 REMARK 465 GLY B 299 REMARK 465 ASP B 366 REMARK 465 ALA B 367 REMARK 465 THR C 6 REMARK 465 ALA C 7 REMARK 465 ARG C 8 REMARK 465 THR D 6 REMARK 465 ALA D 7 REMARK 465 ARG D 8 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 ARG A 311 CG CD NE CZ NH1 NH2 REMARK 470 SER B 301 OG REMARK 470 LYS B 303 CE NZ REMARK 470 LYS B 306 CD CE NZ REMARK 470 GLU B 357 CG CD OE1 OE2 REMARK 470 ASN B 365 CG OD1 ND2 REMARK 470 LYS C 4 CG CD CE NZ 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 -153.42 -121.98 REMARK 500 ALA B 317 -157.55 -121.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2035 DISTANCE = 6.23 ANGSTROMS 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 A1365 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 316 SG REMARK 620 2 CYS A 305 SG 99.9 REMARK 620 3 CYS A 313 SG 111.3 109.7 REMARK 620 4 CYS A 302 SG 113.8 111.7 110.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1366 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 341 ND1 REMARK 620 2 CYS A 344 SG 113.4 REMARK 620 3 CYS A 321 SG 98.6 110.4 REMARK 620 4 CYS A 318 SG 100.8 121.2 109.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1367 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 333 SG REMARK 620 2 CYS A 360 SG 110.3 REMARK 620 3 CYS A 363 SG 106.4 112.0 REMARK 620 4 CYS A 336 SG 104.5 115.9 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1368 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 319 NE2 REMARK 620 2 GLU A 362 OE2 109.0 REMARK 620 3 GLU A 362 OE1 107.5 53.8 REMARK 620 4 HIS B 304 ND1 112.2 124.2 78.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1366 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 305 SG REMARK 620 2 CYS B 313 SG 111.9 REMARK 620 3 CYS B 316 SG 100.6 111.3 REMARK 620 4 CYS B 302 SG 113.6 110.6 108.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1367 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 344 SG REMARK 620 2 CYS B 321 SG 107.3 REMARK 620 3 HIS B 341 ND1 111.8 99.5 REMARK 620 4 CYS B 318 SG 123.1 110.5 102.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1368 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 363 SG REMARK 620 2 CYS B 333 SG 108.9 REMARK 620 3 CYS B 336 SG 101.8 106.4 REMARK 620 4 CYS B 360 SG 113.4 110.0 115.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1369 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 362 OE2 REMARK 620 2 HIS B 319 NE2 98.9 REMARK 620 3 GLU B 362 OE1 54.8 104.5 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1365 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1367 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1367 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 1370 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 1371 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 1372 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1369 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2FAZ RELATED DB: PDB REMARK 900 UBIQUITION LIKE DOMAIN OF HUMAN NUCLEAR ZINC FINGER PROTEINNP95 REMARK 900 RELATED ID: 2B2V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE ANALYSIS OF HUMAN CHD1 CHROMODOMAINS 1AND 2 BOUND REMARK 900 TO HISTONE H3 RESI 1-15 MEK4 REMARK 900 RELATED ID: 2B2T RELATED DB: PDB REMARK 900 TANDEM CHROMODOMAINS OF HUMAN CHD1 COMPLEXED WITH HISTONEH3 TAIL REMARK 900 CONTAINING TRIMETHYLLYSINE 4 AND PHOSPHOTHREONINE 3 REMARK 900 RELATED ID: 2C1N RELATED DB: PDB REMARK 900 MOLECULAR BASIS FOR THE RECOGNITION OF PHOSPHORYLATED AND REMARK 900 PHOSPHOACETYLATED HISTONE H3 BY 14-3-3 REMARK 900 RELATED ID: 2CV5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN NUCLEOSOME CORE PARTICLE REMARK 900 RELATED ID: 2UXN RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF HISTONE DEMETHYLATION BY LSD1 REVEALED BY REMARK 900 SUICIDE INACTIVATION REMARK 900 RELATED ID: 2C1J RELATED DB: PDB REMARK 900 MOLECULAR BASIS FOR THE RECOGNITION OF PHOSPHORYLATED AND REMARK 900 PHOSPHOACETYLATED HISTONE H3 BY 14-3-3 REMARK 900 RELATED ID: 2B2W RELATED DB: PDB REMARK 900 TANDEM CHROMODOMAINS OF HUMAN CHD1 COMPLEXED WITH HISTONEH3 TAIL REMARK 900 CONTAINING TRIMETHYLLYSINE 4 REMARK 900 RELATED ID: 2B2U RELATED DB: PDB REMARK 900 TANDEM CHROMODOMAINS OF HUMAN CHD1 COMPLEXED WITH HISTONEH3 TAIL REMARK 900 CONTAINING TRIMETHYLLYSINE 4 AND DIMETHYLARGININE 2 REMARK 900 RELATED ID: 3ZVZ RELATED DB: PDB REMARK 900 PHD FINGER OF HUMAN UHRF1 DBREF 3ZVY A 296 367 UNP Q96T88 UHRF1_HUMAN 296 367 DBREF 3ZVY B 296 367 UNP Q96T88 UHRF1_HUMAN 296 367 DBREF 3ZVY C 1 8 UNP P68431 H31_HUMAN 2 9 DBREF 3ZVY D 1 8 UNP P68431 H31_HUMAN 2 9 SEQRES 1 A 72 ARG LYS SER GLY PRO SER CYS LYS HIS CYS LYS ASP ASP SEQRES 2 A 72 VAL ASN ARG LEU CYS ARG VAL CYS ALA CYS HIS LEU CYS SEQRES 3 A 72 GLY GLY ARG GLN ASP PRO ASP LYS GLN LEU MET CYS ASP SEQRES 4 A 72 GLU CYS ASP MET ALA PHE HIS ILE TYR CYS LEU ASP PRO SEQRES 5 A 72 PRO LEU SER SER VAL PRO SER GLU ASP GLU TRP TYR CYS SEQRES 6 A 72 PRO GLU CYS ARG ASN ASP ALA SEQRES 1 B 72 ARG LYS SER GLY PRO SER CYS LYS HIS CYS LYS ASP ASP SEQRES 2 B 72 VAL ASN ARG LEU CYS ARG VAL CYS ALA CYS HIS LEU CYS SEQRES 3 B 72 GLY GLY ARG GLN ASP PRO ASP LYS GLN LEU MET CYS ASP SEQRES 4 B 72 GLU CYS ASP MET ALA PHE HIS ILE TYR CYS LEU ASP PRO SEQRES 5 B 72 PRO LEU SER SER VAL PRO SER GLU ASP GLU TRP TYR CYS SEQRES 6 B 72 PRO GLU CYS ARG ASN ASP ALA SEQRES 1 C 8 ALA ARG THR LYS GLN THR ALA ARG SEQRES 1 D 8 ALA ARG THR LYS GLN THR ALA ARG HET ZN A1365 1 HET ZN A1366 1 HET ZN A1367 1 HET ZN A1368 1 HET TRS A1369 8 HET ZN B1366 1 HET ZN B1367 1 HET ZN B1368 1 HET ZN B1369 1 HET CL B1370 2 HET CL B1371 1 HET TRS B1372 8 HETNAM ZN ZINC ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM CL CHLORIDE ION HETSYN TRS TRIS BUFFER FORMUL 5 ZN 8(ZN 2+) FORMUL 9 TRS 2(C4 H12 N O3 1+) FORMUL 14 CL 2(CL 1-) FORMUL 17 HOH *79(H2 O) HELIX 1 1 ASP A 326 ASP A 328 5 3 HELIX 2 2 TYR A 343 LEU A 345 5 3 HELIX 3 3 ASP B 326 ASP B 328 5 3 SHEET 1 AA 2 GLN A 330 MET A 332 0 SHEET 2 AA 2 ALA A 339 HIS A 341 -1 O PHE A 340 N LEU A 331 SHEET 1 BA 2 GLN B 330 MET B 332 0 SHEET 2 BA 2 ALA B 339 HIS B 341 -1 O PHE B 340 N LEU B 331 LINK ZN ZN A1365 SG CYS A 316 1555 1555 2.33 LINK ZN ZN A1365 SG CYS A 305 1555 1555 2.39 LINK ZN ZN A1365 SG CYS A 313 1555 1555 2.38 LINK ZN ZN A1365 SG CYS A 302 1555 1555 2.41 LINK ZN ZN A1366 ND1 HIS A 341 1555 1555 2.16 LINK ZN ZN A1366 SG CYS A 344 1555 1555 2.28 LINK ZN ZN A1366 SG CYS A 321 1555 1555 2.45 LINK ZN ZN A1366 SG CYS A 318 1555 1555 2.31 LINK ZN ZN A1367 SG CYS A 333 1555 1555 2.51 LINK ZN ZN A1367 SG CYS A 360 1555 1555 2.29 LINK ZN ZN A1367 SG CYS A 363 1555 1555 2.38 LINK ZN ZN A1367 SG CYS A 336 1555 1555 2.42 LINK ZN ZN A1368 NE2 HIS A 319 1555 1555 2.03 LINK ZN ZN A1368 OE2 GLU A 362 1555 1555 2.18 LINK ZN ZN A1368 OE1 GLU A 362 1555 1555 2.62 LINK ZN ZN A1368 ND1 HIS B 304 1555 5656 1.92 LINK ZN ZN B1366 SG CYS B 305 1555 1555 2.32 LINK ZN ZN B1366 SG CYS B 313 1555 1555 2.40 LINK ZN ZN B1366 SG CYS B 316 1555 1555 2.35 LINK ZN ZN B1366 SG CYS B 302 1555 1555 2.48 LINK ZN ZN B1367 SG CYS B 344 1555 1555 2.33 LINK ZN ZN B1367 SG CYS B 321 1555 1555 2.40 LINK ZN ZN B1367 ND1 HIS B 341 1555 1555 2.06 LINK ZN ZN B1367 SG CYS B 318 1555 1555 2.32 LINK ZN ZN B1368 SG CYS B 363 1555 1555 2.46 LINK ZN ZN B1368 SG CYS B 333 1555 1555 2.36 LINK ZN ZN B1368 SG CYS B 336 1555 1555 2.41 LINK ZN ZN B1368 SG CYS B 360 1555 1555 2.30 LINK ZN ZN B1369 OE2 GLU B 362 1555 1555 2.34 LINK ZN ZN B1369 NE2 HIS B 319 1555 1555 2.11 LINK ZN ZN B1369 OE1 GLU B 362 1555 1555 2.44 CISPEP 1 ASP A 346 PRO A 347 0 1.68 CISPEP 2 ASP B 346 PRO B 347 0 7.78 SITE 1 AC1 4 CYS A 302 CYS A 305 CYS A 313 CYS A 316 SITE 1 AC2 4 CYS A 318 CYS A 321 HIS A 341 CYS A 344 SITE 1 AC3 4 CYS A 333 CYS A 336 CYS A 360 CYS A 363 SITE 1 AC4 4 HIS A 319 GLU A 362 HIS B 304 CL B1371 SITE 1 AC5 4 CYS B 302 CYS B 305 CYS B 313 CYS B 316 SITE 1 AC6 4 CYS B 318 CYS B 321 HIS B 341 CYS B 344 SITE 1 AC7 4 CYS B 333 CYS B 336 CYS B 360 CYS B 363 SITE 1 AC8 4 HIS A 304 HIS B 319 GLU B 362 CL B1370 SITE 1 AC9 6 LYS A 303 HIS A 304 HIS B 319 GLU B 362 SITE 2 AC9 6 ZN B1369 HOH B2006 SITE 1 BC1 2 ZN A1368 HIS B 304 SITE 1 BC2 4 ASP A 326 HOH A2015 HOH A2016 CYS B 344 SITE 1 BC3 5 CYS A 344 HOH A2028 HOH A2029 HOH A2044 SITE 2 BC3 5 ASP B 326 CRYST1 42.300 42.300 182.700 90.00 90.00 90.00 P 43 21 2 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 0.023641 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005473 0.00000