HEADER DNA BINDING PROTEIN/DNA 14-MAY-18 6DFC TITLE KAISO (ZBTB33) ZINC FINGER DNA BINDING DOMAIN IN COMPLEX WITH THE TITLE 2 SPECIFIC KAISO BINDING SEQUENCE (KBS) WITH A T-TO-U SUBSTITUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR KAISO; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 471-604; COMPND 5 SYNONYM: ZINC FINGER AND BTB DOMAIN-CONTAINING PROTEIN 33; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(*TP*GP*CP*TP*TP*CP*UP*TP*GP*CP*CP*AP*AP*TP*AP*AP*CP*G)-3'); COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'- COMPND 14 D(*CP*GP*TP*TP*AP*TP*TP*GP*GP*CP*AP*AP*GP*AP*AP*GP*CP*A)-3'); COMPND 15 CHAIN: E; COMPND 16 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: ZBTB33, KAISO, ZNF348; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) [DNAY]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21D; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_TAXID: 9606 KEYWDS DNA METHYLATION, ZINC FINGER, TRANSCRIPTIONAL REGULATOR, DNA BINDING KEYWDS 2 PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.N.NIKOLOVA,R.L.STANFIELD,H.J.DYSON,P.E.WRIGHT REVDAT 4 11-OCT-23 6DFC 1 REMARK REVDAT 3 23-MAR-22 6DFC 1 REMARK REVDAT 2 13-MAY-20 6DFC 1 JRNL REVDAT 1 22-MAY-19 6DFC 0 JRNL AUTH E.N.NIKOLOVA,R.L.STANFIELD,H.J.DYSON,P.E.WRIGHT JRNL TITL A CONFORMATIONAL SWITCH IN THE ZINC FINGER PROTEIN KAISO JRNL TITL 2 MEDIATES DIFFERENTIAL READOUT OF SPECIFIC AND METHYLATED DNA JRNL TITL 3 SEQUENCES. JRNL REF BIOCHEMISTRY 2020 JRNL REFN ISSN 0006-2960 JRNL PMID 32352758 JRNL DOI 10.1021/ACS.BIOCHEM.0C00253 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 36483 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3647 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 43.0315 - 4.5597 1.00 2387 265 0.1543 0.1768 REMARK 3 2 4.5597 - 3.6198 1.00 2283 253 0.1527 0.1721 REMARK 3 3 3.6198 - 3.1624 1.00 2233 248 0.1885 0.1927 REMARK 3 4 3.1624 - 2.8733 1.00 2245 250 0.2086 0.2266 REMARK 3 5 2.8733 - 2.6674 1.00 2241 250 0.2228 0.2396 REMARK 3 6 2.6674 - 2.5101 1.00 2224 247 0.2080 0.2535 REMARK 3 7 2.5101 - 2.3844 0.99 2186 242 0.2024 0.2320 REMARK 3 8 2.3844 - 2.2806 1.00 2195 244 0.1952 0.2198 REMARK 3 9 2.2806 - 2.1928 1.00 2205 245 0.2096 0.2639 REMARK 3 10 2.1928 - 2.1172 1.00 2205 245 0.2050 0.2335 REMARK 3 11 2.1172 - 2.0510 0.99 2184 243 0.2224 0.2546 REMARK 3 12 2.0510 - 1.9924 0.99 2188 242 0.2515 0.2592 REMARK 3 13 1.9924 - 1.9399 0.96 2099 232 0.2800 0.2889 REMARK 3 14 1.9399 - 1.8926 0.94 2080 232 0.3147 0.3243 REMARK 3 15 1.8926 - 1.8496 0.85 1881 209 0.3458 0.3545 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.840 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.009 1917 REMARK 3 ANGLE : 1.162 2720 REMARK 3 CHIRALITY : 0.048 284 REMARK 3 PLANARITY : 0.005 220 REMARK 3 DIHEDRAL : 24.937 750 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 481 THROUGH 517 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.7525 193.2563 131.5368 REMARK 3 T TENSOR REMARK 3 T11: 0.7849 T22: 0.3083 REMARK 3 T33: 0.9375 T12: -0.0328 REMARK 3 T13: 0.0097 T23: 0.0726 REMARK 3 L TENSOR REMARK 3 L11: 4.7602 L22: 3.6782 REMARK 3 L33: 5.5442 L12: 2.8856 REMARK 3 L13: 2.6968 L23: 3.1044 REMARK 3 S TENSOR REMARK 3 S11: 0.3654 S12: -0.1528 S13: -1.0932 REMARK 3 S21: 0.1240 S22: -0.0059 S23: -0.6554 REMARK 3 S31: 0.9319 S32: -0.0339 S33: -0.3000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 518 THROUGH 545 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.4114 212.6158 136.2454 REMARK 3 T TENSOR REMARK 3 T11: 0.4119 T22: 0.3794 REMARK 3 T33: 0.9356 T12: 0.0077 REMARK 3 T13: -0.1157 T23: 0.0850 REMARK 3 L TENSOR REMARK 3 L11: 2.7207 L22: 1.4503 REMARK 3 L33: 4.2998 L12: 0.9833 REMARK 3 L13: 0.5031 L23: -0.0079 REMARK 3 S TENSOR REMARK 3 S11: 0.1035 S12: -0.0457 S13: -1.1310 REMARK 3 S21: 0.4888 S22: 0.0788 S23: -2.0711 REMARK 3 S31: 0.4065 S32: 0.3914 S33: -0.1955 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 546 THROUGH 586 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.9729 225.1197 135.4241 REMARK 3 T TENSOR REMARK 3 T11: 0.2276 T22: 0.3097 REMARK 3 T33: 0.2230 T12: -0.0478 REMARK 3 T13: -0.0405 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 7.3925 L22: 8.6169 REMARK 3 L33: 4.8642 L12: -2.3090 REMARK 3 L13: -3.2637 L23: -0.5653 REMARK 3 S TENSOR REMARK 3 S11: 0.0289 S12: 0.3595 S13: -0.1490 REMARK 3 S21: -0.2091 S22: -0.0356 S23: 0.2952 REMARK 3 S31: 0.2544 S32: -0.4787 S33: -0.0108 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 587 THROUGH 597 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.3451 222.2944 125.8282 REMARK 3 T TENSOR REMARK 3 T11: 0.6990 T22: 0.5536 REMARK 3 T33: 0.6142 T12: -0.1329 REMARK 3 T13: 0.1372 T23: -0.1518 REMARK 3 L TENSOR REMARK 3 L11: 7.6857 L22: 4.1901 REMARK 3 L33: 2.8209 L12: -4.0582 REMARK 3 L13: -1.5687 L23: 2.5780 REMARK 3 S TENSOR REMARK 3 S11: -0.6701 S12: 1.5420 S13: -1.9310 REMARK 3 S21: -0.8364 S22: 0.1300 S23: 0.2061 REMARK 3 S31: 1.4079 S32: -0.2166 S33: 0.4030 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.9535 209.1810 129.4880 REMARK 3 T TENSOR REMARK 3 T11: 0.5134 T22: 0.3568 REMARK 3 T33: 0.4460 T12: -0.1230 REMARK 3 T13: 0.0478 T23: 0.0147 REMARK 3 L TENSOR REMARK 3 L11: 6.8685 L22: 7.4417 REMARK 3 L33: 6.6312 L12: 0.4559 REMARK 3 L13: 0.8709 L23: -3.5972 REMARK 3 S TENSOR REMARK 3 S11: -0.4403 S12: 0.5204 S13: -0.3258 REMARK 3 S21: -0.2340 S22: 0.1280 S23: -1.1324 REMARK 3 S31: -0.2021 S32: 0.5280 S33: -0.0561 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 19 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3006 208.1477 128.9331 REMARK 3 T TENSOR REMARK 3 T11: 0.5774 T22: 0.2796 REMARK 3 T33: 0.3094 T12: -0.0435 REMARK 3 T13: 0.0808 T23: -0.0712 REMARK 3 L TENSOR REMARK 3 L11: 9.7446 L22: 9.1107 REMARK 3 L33: 1.0101 L12: -0.4814 REMARK 3 L13: 2.4923 L23: -0.2696 REMARK 3 S TENSOR REMARK 3 S11: -0.3113 S12: 0.9824 S13: -0.5363 REMARK 3 S21: -0.1937 S22: 0.3068 S23: -0.8932 REMARK 3 S31: 0.8853 S32: -0.0300 S33: -0.0587 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 6DFC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1000230580. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03320 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36573 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 43.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.08750 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.7400 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) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.840 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX 1.9_1692 REMARK 200 STARTING MODEL: 4F6M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M DISODIUM TARTRATE, 20 % PEG REMARK 280 3350, PH 7.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 2 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,Y,-Z 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 REMARK 290 7555 -X+1/2,Y+1/2,-Z 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 0.00000 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 0.00000 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 22.12000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 92.22550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 22.12000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 92.22550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 22.12000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 92.22550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 22.12000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 92.22550 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: 4660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, E 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL A 704 LIES ON A SPECIAL POSITION. 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 471 REMARK 465 ALA A 472 REMARK 465 ASN A 473 REMARK 465 LYS A 474 REMARK 465 ARG A 475 REMARK 465 MET A 476 REMARK 465 LYS A 477 REMARK 465 VAL A 478 REMARK 465 LYS A 479 REMARK 465 HIS A 480 REMARK 465 ALA A 598 REMARK 465 TYR A 599 REMARK 465 LEU A 600 REMARK 465 SER A 601 REMARK 465 ASP A 602 REMARK 465 ARG A 603 REMARK 465 SER A 604 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DU D 7 C5' DU D 7 C4' -0.094 REMARK 500 DU D 7 C3' DU D 7 C2' -0.257 REMARK 500 DU D 7 C2' DU D 7 C1' 0.098 REMARK 500 DU D 7 O4' DU D 7 C1' -0.136 REMARK 500 DU D 7 O3' DU D 7 C3' 0.086 REMARK 500 DU D 7 N1 DU D 7 C2 0.081 REMARK 500 DU D 7 C2 DU D 7 N3 0.091 REMARK 500 DU D 7 C5 DU D 7 C6 0.137 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 DU D 7 OP1 - P - OP2 ANGL. DEV. = -9.2 DEGREES REMARK 500 DU D 7 O4' - C1' - N1 ANGL. DEV. = -4.7 DEGREES REMARK 500 DU D 7 N1 - C2 - N3 ANGL. DEV. = 4.9 DEGREES REMARK 500 DU D 7 C2 - N3 - C4 ANGL. DEV. = -6.3 DEGREES REMARK 500 DU D 7 N3 - C4 - C5 ANGL. DEV. = 5.6 DEGREES REMARK 500 DU D 7 C5 - C4 - O4 ANGL. DEV. = -4.9 DEGREES REMARK 500 DG E 20 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA E 30 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA E 30 O4' - C1' - N9 ANGL. DEV. = 2.9 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 ASP A 580 -74.70 -79.46 REMARK 500 SER A 581 72.55 43.12 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 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 496 SG REMARK 620 2 CYS A 499 SG 115.2 REMARK 620 3 HIS A 512 NE2 119.2 102.6 REMARK 620 4 HIS A 516 NE2 106.0 110.6 102.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 524 SG REMARK 620 2 CYS A 527 SG 113.4 REMARK 620 3 HIS A 540 NE2 107.3 112.1 REMARK 620 4 HIS A 544 NE2 104.1 116.1 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 703 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 552 SG REMARK 620 2 CYS A 555 SG 114.9 REMARK 620 3 HIS A 568 NE2 110.4 105.4 REMARK 620 4 HIS A 573 NE2 100.9 117.7 107.4 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 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 704 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6DF5 RELATED DB: PDB REMARK 900 RELATED ID: 6DF8 RELATED DB: PDB REMARK 900 RELATED ID: 6DF9 RELATED DB: PDB REMARK 900 RELATED ID: 6DFA RELATED DB: PDB REMARK 900 RELATED ID: 6DFB RELATED DB: PDB DBREF 6DFC A 471 604 UNP Q86T24 KAISO_HUMAN 471 604 DBREF 6DFC D 1 18 PDB 6DFC 6DFC 1 18 DBREF 6DFC E 19 36 PDB 6DFC 6DFC 19 36 SEQRES 1 A 134 MET ALA ASN LYS ARG MET LYS VAL LYS HIS ASP ASP HIS SEQRES 2 A 134 TYR GLU LEU ILE VAL ASP GLY ARG VAL TYR TYR ILE CYS SEQRES 3 A 134 ILE VAL CYS LYS ARG SER TYR VAL CYS LEU THR SER LEU SEQRES 4 A 134 ARG ARG HIS PHE ASN ILE HIS SER TRP GLU LYS LYS TYR SEQRES 5 A 134 PRO CYS ARG TYR CYS GLU LYS VAL PHE PRO LEU ALA GLU SEQRES 6 A 134 TYR ARG THR LYS HIS GLU ILE HIS HIS THR GLY GLU ARG SEQRES 7 A 134 ARG TYR GLN CYS LEU ALA CYS GLY LYS SER PHE ILE ASN SEQRES 8 A 134 TYR GLN PHE MET SER SER HIS ILE LYS SER VAL HIS SER SEQRES 9 A 134 GLN ASP PRO SER GLY ASP SER LYS LEU TYR ARG LEU HIS SEQRES 10 A 134 PRO CYS ARG SER LEU GLN ILE ARG GLN TYR ALA TYR LEU SEQRES 11 A 134 SER ASP ARG SER SEQRES 1 D 18 DT DG DC DT DT DC DU DT DG DC DC DA DA SEQRES 2 D 18 DT DA DA DC DG SEQRES 1 E 18 DC DG DT DT DA DT DT DG DG DC DA DA DG SEQRES 2 E 18 DA DA DG DC DA HET ZN A 701 1 HET ZN A 702 1 HET ZN A 703 1 HET CL A 704 1 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 4 ZN 3(ZN 2+) FORMUL 7 CL CL 1- FORMUL 8 HOH *85(H2 O) HELIX 1 AA1 CYS A 505 TRP A 518 1 14 HELIX 2 AA2 LEU A 533 GLY A 546 1 14 HELIX 3 AA3 ASN A 561 SER A 574 1 14 SHEET 1 AA1 3 HIS A 483 VAL A 488 0 SHEET 2 AA1 3 ARG A 491 CYS A 496 -1 O TYR A 493 N LEU A 486 SHEET 3 AA1 3 SER A 502 TYR A 503 -1 O TYR A 503 N TYR A 494 SHEET 1 AA2 2 TYR A 522 PRO A 523 0 SHEET 2 AA2 2 VAL A 530 PHE A 531 -1 O PHE A 531 N TYR A 522 SHEET 1 AA3 3 SER A 558 PHE A 559 0 SHEET 2 AA3 3 TYR A 550 CYS A 552 -1 N TYR A 550 O PHE A 559 SHEET 3 AA3 3 TYR A 584 LEU A 586 -1 O ARG A 585 N GLN A 551 LINK SG CYS A 496 ZN ZN A 701 1555 1555 2.33 LINK SG CYS A 499 ZN ZN A 701 1555 1555 2.20 LINK NE2 HIS A 512 ZN ZN A 701 1555 1555 2.11 LINK NE2 HIS A 516 ZN ZN A 701 1555 1555 1.98 LINK SG CYS A 524 ZN ZN A 702 1555 1555 2.18 LINK SG CYS A 527 ZN ZN A 702 1555 1555 2.24 LINK NE2 HIS A 540 ZN ZN A 702 1555 1555 2.05 LINK NE2 HIS A 544 ZN ZN A 702 1555 1555 2.09 LINK SG CYS A 552 ZN ZN A 703 1555 1555 2.30 LINK SG CYS A 555 ZN ZN A 703 1555 1555 2.27 LINK NE2 HIS A 568 ZN ZN A 703 1555 1555 2.02 LINK NE2 HIS A 573 ZN ZN A 703 1555 1555 2.08 SITE 1 AC1 4 CYS A 496 CYS A 499 HIS A 512 HIS A 516 SITE 1 AC2 4 CYS A 524 CYS A 527 HIS A 540 HIS A 544 SITE 1 AC3 4 CYS A 552 CYS A 555 HIS A 568 HIS A 573 SITE 1 AC4 2 ARG A 548 ARG A 590 CRYST1 44.240 184.451 104.705 90.00 90.00 90.00 C 2 2 2 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 0.022604 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005421 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009551 0.00000