PDB Short entry for 6ASD HEADER DNA BINDING PROTEIN/DNA 24-AUG-17 6ASD TITLE ZINC FINGER REGION OF HUMAN TET1 IN COMPLEX WITH CPG DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*GP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*C)-3'); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: METHYLCYTOSINE DIOXYGENASE TET1; COMPND 7 CHAIN: C; COMPND 8 FRAGMENT: ZINC FINGER REGION (UNP RESIDUES 587-632); COMPND 9 SYNONYM: CXXC-TYPE ZINC FINGER PROTEIN 6,LEUKEMIA-ASSOCIATED PROTEIN COMPND 10 WITH A CXXC DOMAIN,TEN-ELEVEN TRANSLOCATION 1 GENE PROTEIN; COMPND 11 EC: 1.14.11.-; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: SYNTHETIC; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 GENE: TET1, CXXC6, KIAA1676, LCX; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-V2R-PRARE2; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET28-MHL KEYWDS ZINC FINGER, DNA-BINDING, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.LIU,C.XU,W.TEMPEL,J.R.WALKER,C.H.ARROWSMITH,C.BOUNTRA,A.M.EDWARDS, AUTHOR 2 J.MIN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 04-OCT-23 6ASD 1 REMARK REVDAT 3 10-JAN-18 6ASD 1 JRNL REVDAT 2 03-JAN-18 6ASD 1 JRNL REVDAT 1 18-OCT-17 6ASD 0 JRNL AUTH C.XU,K.LIU,M.LEI,A.YANG,Y.LI,T.R.HUGHES,J.MIN JRNL TITL DNA SEQUENCE RECOGNITION OF HUMAN CXXC DOMAINS AND THEIR JRNL TITL 2 STRUCTURAL DETERMINANTS. JRNL REF STRUCTURE V. 26 85 2018 JRNL REFN ISSN 1878-4186 JRNL PMID 29276034 JRNL DOI 10.1016/J.STR.2017.11.022 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 10543 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 539 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 765 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2410 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 348 REMARK 3 NUCLEIC ACID ATOMS : 486 REMARK 3 HETEROGEN ATOMS : 19 REMARK 3 SOLVENT ATOMS : 58 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.09000 REMARK 3 B22 (A**2) : 0.37000 REMARK 3 B33 (A**2) : 0.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.30000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.140 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.131 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.580 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 913 ; 0.013 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 619 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1322 ; 1.455 ; 1.460 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1447 ; 1.336 ; 3.011 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 48 ; 4.799 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 15 ;44.548 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 84 ;12.492 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 6.978 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 122 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 685 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 199 ; 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): 182 ; 1.188 ; 2.210 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 181 ; 1.187 ; 2.207 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 227 ; 1.740 ; 3.305 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 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 1 A 12 REMARK 3 ORIGIN FOR THE GROUP (A): -65.5442 28.7234 11.3996 REMARK 3 T TENSOR REMARK 3 T11: 0.0653 T22: 0.1101 REMARK 3 T33: 0.0898 T12: 0.0580 REMARK 3 T13: -0.0012 T23: -0.0071 REMARK 3 L TENSOR REMARK 3 L11: 7.7973 L22: 1.8113 REMARK 3 L33: 0.6956 L12: -2.0198 REMARK 3 L13: -0.7140 L23: -0.5434 REMARK 3 S TENSOR REMARK 3 S11: -0.1440 S12: -0.1623 S13: -0.1890 REMARK 3 S21: -0.0040 S22: 0.2018 S23: -0.0208 REMARK 3 S31: 0.0541 S32: -0.0592 S33: -0.0578 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 1 B 12 REMARK 3 ORIGIN FOR THE GROUP (A): -65.1088 29.6323 9.9697 REMARK 3 T TENSOR REMARK 3 T11: 0.0510 T22: 0.1134 REMARK 3 T33: 0.0436 T12: 0.0500 REMARK 3 T13: -0.0104 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 7.5508 L22: 3.4103 REMARK 3 L33: 1.2032 L12: -3.0152 REMARK 3 L13: -1.3140 L23: 0.0749 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: 0.2297 S13: -0.2054 REMARK 3 S21: -0.0835 S22: 0.0146 S23: 0.0660 REMARK 3 S31: 0.0214 S32: -0.0134 S33: 0.0354 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 586 C 630 REMARK 3 ORIGIN FOR THE GROUP (A): -64.8468 39.1645 18.8573 REMARK 3 T TENSOR REMARK 3 T11: 0.1420 T22: 0.0947 REMARK 3 T33: 0.0142 T12: 0.0975 REMARK 3 T13: -0.0105 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 3.8397 L22: 6.8408 REMARK 3 L33: 4.8100 L12: 2.4037 REMARK 3 L13: -0.9787 L23: -1.4168 REMARK 3 S TENSOR REMARK 3 S11: 0.0258 S12: -0.1784 S13: 0.0632 REMARK 3 S21: 0.6348 S22: 0.1264 S23: -0.1477 REMARK 3 S31: -0.2363 S32: -0.0045 S33: -0.1522 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: COOT WAS USED FOR INTERACTIVE MODEL REMARK 3 BUILDING. MODEL GEOMETRY WAS ASSESSED ON THE MOLPROBITY SERVER. REMARK 4 REMARK 4 6ASD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229396. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11082 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 36.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.42300 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4HP3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG-3350, 0.2 M AMMONIUM ACETATE, REMARK 280 0.1 M HEPES, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 36.75100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.97550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.75100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 15.97550 REMARK 290 SMTRY3 4 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: 3010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 PRO C 631 REMARK 465 SER C 632 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 GLY C 586 N REMARK 470 GLU C 595 OE1 OE2 REMARK 470 LYS C 600 CD CE NZ REMARK 470 LYS C 613 CD CE NZ REMARK 470 LYS C 621 NZ REMARK 470 LYS C 630 CG CD CE NZ 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 C 590 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES 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 C 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 591 SG REMARK 620 2 CYS C 594 SG 101.6 REMARK 620 3 CYS C 597 SG 122.7 95.5 REMARK 620 4 CYS C 624 SG 113.2 113.8 108.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 603 SG REMARK 620 2 CYS C 606 SG 108.5 REMARK 620 3 CYS C 609 SG 117.8 106.0 REMARK 620 4 CYS C 619 SG 103.5 118.9 102.6 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 C 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 702 DBREF 6ASD A 1 12 PDB 6ASD 6ASD 1 12 DBREF 6ASD B 1 12 PDB 6ASD 6ASD 1 12 DBREF 6ASD C 587 632 UNP Q8NFU7 TET1_HUMAN 587 632 SEQADV 6ASD GLY C 586 UNP Q8NFU7 EXPRESSION TAG SEQRES 1 A 12 DG DC DC DA DC DC DG DG DT DG DG DC SEQRES 1 B 12 DG DC DC DA DC DC DG DG DT DG DG DC SEQRES 1 C 47 GLY LYS ARG LYS ARG CYS GLY VAL CYS GLU PRO CYS GLN SEQRES 2 C 47 GLN LYS THR ASN CYS GLY GLU CYS THR TYR CYS LYS ASN SEQRES 3 C 47 ARG LYS ASN SER HIS GLN ILE CYS LYS LYS ARG LYS CYS SEQRES 4 C 47 GLU GLU LEU LYS LYS LYS PRO SER HET UNX A 101 1 HET UNX A 102 1 HET UNX A 103 1 HET UNX B 101 1 HET UNX B 102 1 HET UNX B 103 1 HET UNX B 104 1 HET UNX B 105 1 HET UNX B 106 1 HET ZN C 701 1 HET ZN C 702 1 HET UNX C 703 1 HET UNX C 704 1 HET UNX C 705 1 HET UNX C 706 1 HET UNX C 707 1 HET UNX C 708 1 HET UNX C 709 1 HET UNX C 710 1 HETNAM UNX UNKNOWN ATOM OR ION HETNAM ZN ZINC ION FORMUL 4 UNX 17(X) FORMUL 13 ZN 2(ZN 2+) FORMUL 23 HOH *58(H2 O) HELIX 1 AA1 CYS C 594 GLN C 599 1 6 HELIX 2 AA2 CYS C 606 ASN C 611 1 6 HELIX 3 AA3 CYS C 624 LYS C 629 1 6 LINK SG CYS C 591 ZN ZN C 701 1555 1555 2.29 LINK SG CYS C 594 ZN ZN C 701 1555 1555 2.15 LINK SG CYS C 597 ZN ZN C 701 1555 1555 2.29 LINK SG CYS C 603 ZN ZN C 702 1555 1555 2.31 LINK SG CYS C 606 ZN ZN C 702 1555 1555 2.38 LINK SG CYS C 609 ZN ZN C 702 1555 1555 2.33 LINK SG CYS C 619 ZN ZN C 702 1555 1555 2.36 LINK SG CYS C 624 ZN ZN C 701 1555 1555 2.28 SITE 1 AC1 5 CYS C 591 GLY C 592 CYS C 594 CYS C 597 SITE 2 AC1 5 CYS C 624 SITE 1 AC2 4 CYS C 603 CYS C 606 CYS C 609 CYS C 619 CRYST1 73.502 31.951 65.414 90.00 121.82 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013605 0.000000 0.008442 0.00000 SCALE2 0.000000 0.031298 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017991 0.00000