PDB Short entry for 3QMI HEADER DNA BINDING PROTEIN/DNA 04-FEB-11 3QMI TITLE STRUCTURAL BASIS OF SELECTIVE BINDING OF NON-METHYLATED CPG ISLANDS TITLE 2 (DNA-ACGT) BY THE CXXC DOMAIN OF CFP1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CPG-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CXXC-TYPE ZN FINGER, RESIDUES 161-222; COMPND 5 SYNONYM: CXXC-TYPE ZINC FINGER PROTEIN 1, PHD FINGER AND CXXC DOMAIN- COMPND 6 CONTAINING PROTEIN 1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(*GP*CP*CP*AP*AP*CP*GP*TP*TP*GP*GP*C)-3'; COMPND 10 CHAIN: B, C; COMPND 11 FRAGMENT: DNA (NONMETHYLATED CPG ISLAND); COMPND 12 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: CFP1, CGBP, CXXC1, PCCX1, PHF18; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BL21-V2R-PRARE2; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS STRUCTURAL GENOMICS CONSORTIUM, SGC, DNA BINDING, DNA BINDING KEYWDS 2 PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.XU,C.BIAN,F.MACKENZIE,C.BOUNTRA,J.WEIGELT,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,J.MIN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 13-SEP-23 3QMI 1 REMARK SEQADV LINK REVDAT 3 30-MAR-11 3QMI 1 JRNL REVDAT 2 16-MAR-11 3QMI 1 JRNL REVDAT 1 23-FEB-11 3QMI 0 JRNL AUTH C.XU,C.BIAN,R.LAM,A.DONG,J.MIN JRNL TITL THE STRUCTURAL BASIS FOR SELECTIVE BINDING OF NON-METHYLATED JRNL TITL 2 CPG ISLANDS BY THE CFP1 CXXC DOMAIN. JRNL REF NAT COMMUN V. 2 227 2011 JRNL REFN ESSN 2041-1723 JRNL PMID 21407193 JRNL DOI 10.1038/NCOMMS1237 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 8362 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 420 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 558 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2780 REMARK 3 BIN FREE R VALUE SET COUNT : 25 REMARK 3 BIN FREE R VALUE : 0.2170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 402 REMARK 3 NUCLEIC ACID ATOMS : 486 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.17000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : 0.04000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.124 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.463 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 970 ; 0.005 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1394 ; 1.361 ; 2.596 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 51 ; 8.157 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 21 ;31.595 ;20.476 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 78 ;14.193 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;16.281 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 146 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 564 ; 0.022 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 256 ; 1.564 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 399 ; 2.231 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 714 ; 3.559 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 995 ; 4.679 ; 4.500 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 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 -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): -4.1023 -11.0135 21.8801 REMARK 3 T TENSOR REMARK 3 T11: 0.0237 T22: 0.2133 REMARK 3 T33: 0.0568 T12: -0.0341 REMARK 3 T13: -0.0162 T23: 0.0332 REMARK 3 L TENSOR REMARK 3 L11: 3.3128 L22: 1.5018 REMARK 3 L33: 6.2860 L12: 0.2027 REMARK 3 L13: -0.4025 L23: 0.7670 REMARK 3 S TENSOR REMARK 3 S11: 0.0267 S12: -0.1913 S13: -0.0438 REMARK 3 S21: 0.0494 S22: 0.1271 S23: 0.0274 REMARK 3 S31: 0.2696 S32: -0.0638 S33: -0.1538 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 -10 B 9999 REMARK 3 ORIGIN FOR THE GROUP (A): -3.1161 -12.6201 7.6954 REMARK 3 T TENSOR REMARK 3 T11: 0.2457 T22: 0.2084 REMARK 3 T33: 0.1255 T12: -0.0432 REMARK 3 T13: -0.0072 T23: 0.0017 REMARK 3 L TENSOR REMARK 3 L11: 2.9102 L22: 5.7273 REMARK 3 L33: 1.6208 L12: 2.4324 REMARK 3 L13: -0.5577 L23: -1.8378 REMARK 3 S TENSOR REMARK 3 S11: 0.1374 S12: -0.1652 S13: -0.1359 REMARK 3 S21: -0.5314 S22: -0.2705 S23: -0.1659 REMARK 3 S31: -0.0224 S32: -0.1112 S33: 0.1331 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 -10 C 9999 REMARK 3 ORIGIN FOR THE GROUP (A): -4.1469 -11.8690 8.4577 REMARK 3 T TENSOR REMARK 3 T11: 0.1487 T22: 0.1585 REMARK 3 T33: 0.0441 T12: -0.1012 REMARK 3 T13: -0.0210 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 1.5039 L22: 9.0857 REMARK 3 L33: 1.0101 L12: 1.5769 REMARK 3 L13: -0.4883 L23: -0.3138 REMARK 3 S TENSOR REMARK 3 S11: 0.2062 S12: 0.0148 S13: -0.0048 REMARK 3 S21: 0.0364 S22: -0.2703 S23: 0.0767 REMARK 3 S31: 0.0911 S32: -0.0865 S33: 0.0641 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3QMI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063831. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-10 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) : 0.97924 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8362 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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 <I/SIGMA(I)> 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: NULL REMARK 200 STARTING MODEL: 3QMB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 62.95250 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 62.95250 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 15.31200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.50450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 15.31200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.50450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.95250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 15.31200 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.50450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.95250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 15.31200 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.50450 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET A 144 REMARK 465 HIS A 145 REMARK 465 HIS A 146 REMARK 465 HIS A 147 REMARK 465 HIS A 148 REMARK 465 HIS A 149 REMARK 465 HIS A 150 REMARK 465 SER A 151 REMARK 465 SER A 152 REMARK 465 ARG A 153 REMARK 465 GLU A 154 REMARK 465 ASN A 155 REMARK 465 LEU A 156 REMARK 465 TYR A 157 REMARK 465 PHE A 158 REMARK 465 GLN A 159 REMARK 465 GLY A 160 REMARK 465 GLN A 161 REMARK 465 ILE A 162 REMARK 465 LYS A 163 REMARK 465 ARG A 164 REMARK 465 SER A 165 REMARK 465 TYR A 218 REMARK 465 PHE A 219 REMARK 465 PRO A 220 REMARK 465 SER A 221 REMARK 465 SER A 222 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 GLU A 173 CG CD OE1 OE2 REMARK 470 ARG A 188 NE CZ NH1 NH2 REMARK 470 LYS A 191 CG CD CE NZ REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 GLU A 214 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 DA B 5 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT B 8 N3 - C4 - O4 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT B 8 C5 - C4 - O4 ANGL. DEV. = -4.6 DEGREES REMARK 500 DC C 3 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DC C 3 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DT C 9 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DC C 12 O4' - C4' - C3' ANGL. DEV. = -2.7 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 GLU A 171 14.44 -141.07 REMARK 500 CYS A 203 135.53 -33.56 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 300 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 169 SG REMARK 620 2 CYS A 172 SG 109.3 REMARK 620 3 CYS A 175 SG 116.7 107.0 REMARK 620 4 CYS A 208 SG 102.7 118.7 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 181 SG REMARK 620 2 CYS A 184 SG 108.1 REMARK 620 3 CYS A 187 SG 118.2 103.5 REMARK 620 4 CYS A 203 SG 106.4 119.9 101.3 REMARK 620 N 1 2 3 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 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 13 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QMB RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A DIFFERENT UNMETHYLATED CPG DNA. REMARK 900 RELATED ID: 3QMC RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A DIFFERENT UNMETHYLATED CPG DNA. REMARK 900 RELATED ID: 3QMD RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A DIFFERENT UNMETHYLATED CPG DNA. REMARK 900 RELATED ID: 3QMG RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A DIFFERENT UNMETHYLATED CPG DNA. REMARK 900 RELATED ID: 3QMH RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A DIFFERENT UNMETHYLATED CPG DNA. DBREF 3QMI A 161 222 UNP Q9P0U4 CXXC1_HUMAN 161 222 DBREF 3QMI B 1 12 PDB 3QMI 3QMI 1 12 DBREF 3QMI C 1 12 PDB 3QMI 3QMI 1 12 SEQADV 3QMI MET A 144 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 145 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 146 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 147 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 148 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 149 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI HIS A 150 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI SER A 151 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI SER A 152 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI ARG A 153 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI GLU A 154 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI ASN A 155 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI LEU A 156 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI TYR A 157 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI PHE A 158 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI GLN A 159 UNP Q9P0U4 EXPRESSION TAG SEQADV 3QMI GLY A 160 UNP Q9P0U4 EXPRESSION TAG SEQRES 1 A 79 MET HIS HIS HIS HIS HIS HIS SER SER ARG GLU ASN LEU SEQRES 2 A 79 TYR PHE GLN GLY GLN ILE LYS ARG SER ALA ARG MET CYS SEQRES 3 A 79 GLY GLU CYS GLU ALA CYS ARG ARG THR GLU ASP CYS GLY SEQRES 4 A 79 HIS CYS ASP PHE CYS ARG ASP MET LYS LYS PHE GLY GLY SEQRES 5 A 79 PRO ASN LYS ILE ARG GLN LYS CYS ARG LEU ARG GLN CYS SEQRES 6 A 79 GLN LEU ARG ALA ARG GLU SER TYR LYS TYR PHE PRO SER SEQRES 7 A 79 SER SEQRES 1 B 12 DG DC DC DA DA DC DG DT DT DG DG DC SEQRES 1 C 12 DG DC DC DA DA DC DG DT DT DG DG DC HET ZN A 300 1 HET ZN A 301 1 HET PEG A 1 7 HET PEG A 2 7 HET PO4 C 13 5 HETNAM ZN ZINC ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PO4 PHOSPHATE ION FORMUL 4 ZN 2(ZN 2+) FORMUL 6 PEG 2(C4 H10 O3) FORMUL 8 PO4 O4 P 3- FORMUL 9 HOH *33(H2 O) HELIX 1 1 CYS A 172 ARG A 177 1 6 HELIX 2 2 CYS A 184 MET A 190 1 7 HELIX 3 3 LYS A 191 GLY A 194 5 4 HELIX 4 4 CYS A 203 GLN A 207 5 5 HELIX 5 5 ARG A 213 LYS A 217 5 5 LINK SG CYS A 169 ZN ZN A 300 1555 1555 2.40 LINK SG CYS A 172 ZN ZN A 300 1555 1555 2.35 LINK SG CYS A 175 ZN ZN A 300 1555 1555 2.35 LINK SG CYS A 181 ZN ZN A 301 1555 1555 2.31 LINK SG CYS A 184 ZN ZN A 301 1555 1555 2.34 LINK SG CYS A 187 ZN ZN A 301 1555 1555 2.43 LINK SG CYS A 203 ZN ZN A 301 1555 1555 2.30 LINK SG CYS A 208 ZN ZN A 300 1555 1555 2.34 SITE 1 AC1 4 CYS A 169 CYS A 172 CYS A 175 CYS A 208 SITE 1 AC2 4 CYS A 181 CYS A 184 CYS A 187 CYS A 203 SITE 1 AC3 2 HIS A 183 LYS A 217 SITE 1 AC4 3 ALA A 166 ARG A 167 MET A 168 SITE 1 AC5 4 DG C 10 DG C 11 HOH C 21 HOH C 26 CRYST1 30.624 75.009 125.905 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 0.032654 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013332 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007942 0.00000