HEADER TRANSCRIPTION/DNA 28-APR-17 5VMW TITLE KAISO (ZBTB33) ZINC FINGER DNA BINDING DOMAIN IN COMPLEX WITH A DOUBLE TITLE 2 CPG-METHYLATED DNA RESEMBLING THE SPECIFIC KAISO BINDING SEQUENCE TITLE 3 (KBS) 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'-D(*TP*GP*CP*TP*TP*CP*CP*(5CM)P*GP*(5CM) COMPND 9 P*GP*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'-D(*CP*GP*TP*TP*AP*TP*TP*(5CM)P*GP*(5CM) COMPND 14 P*GP*GP*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: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS DNA METHYLATION, ZINC FINGER, TRANSCRIPTIONAL REGULATOR, KEYWDS 2 TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.N.NIKOLOVA,R.L.STANFIELD,M.A.MARTINEZ-YAMOUT,H.J.DYSON,P.E.WRIGHT REVDAT 4 04-OCT-23 5VMW 1 REMARK REVDAT 3 23-MAR-22 5VMW 1 SOURCE REVDAT 2 25-APR-18 5VMW 1 JRNL REVDAT 1 04-APR-18 5VMW 0 JRNL AUTH E.N.NIKOLOVA,R.L.STANFIELD,H.J.DYSON,P.E.WRIGHT JRNL TITL CH···O HYDROGEN BONDS MEDIATE HIGHLY SPECIFIC JRNL TITL 2 RECOGNITION OF METHYLATED CPG SITES BY THE ZINC FINGER JRNL TITL 3 PROTEIN KAISO. JRNL REF BIOCHEMISTRY V. 57 2109 2018 JRNL REFN ISSN 1520-4995 JRNL PMID 29546986 JRNL DOI 10.1021/ACS.BIOCHEM.8B00065 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 17164 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1716 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 45.6773 - 5.4841 0.99 1409 157 0.1531 0.1845 REMARK 3 2 5.4841 - 4.3540 0.99 1331 148 0.1421 0.1663 REMARK 3 3 4.3540 - 3.8040 1.00 1317 146 0.1363 0.1672 REMARK 3 4 3.8040 - 3.4563 1.00 1315 147 0.1558 0.2044 REMARK 3 5 3.4563 - 3.2086 1.00 1296 144 0.1818 0.2127 REMARK 3 6 3.2086 - 3.0195 0.99 1297 144 0.1965 0.2524 REMARK 3 7 3.0195 - 2.8683 1.00 1276 142 0.2414 0.2679 REMARK 3 8 2.8683 - 2.7435 0.99 1290 144 0.2485 0.3391 REMARK 3 9 2.7435 - 2.6379 0.99 1275 142 0.2512 0.3325 REMARK 3 10 2.6379 - 2.5468 0.99 1291 143 0.2439 0.2800 REMARK 3 11 2.5468 - 2.4672 0.97 1218 134 0.2747 0.3547 REMARK 3 12 2.4672 - 2.3967 0.87 1133 125 0.3111 0.3365 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) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.760 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 : 0.011 1954 REMARK 3 ANGLE : 1.205 2774 REMARK 3 CHIRALITY : 0.051 286 REMARK 3 PLANARITY : 0.005 225 REMARK 3 DIHEDRAL : 25.236 750 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 481 THROUGH 522 ) REMARK 3 ORIGIN FOR THE GROUP (A): 58.5442 378.4666 25.1112 REMARK 3 T TENSOR REMARK 3 T11: 0.6487 T22: 0.3701 REMARK 3 T33: 0.7926 T12: -0.0098 REMARK 3 T13: 0.0731 T23: 0.0100 REMARK 3 L TENSOR REMARK 3 L11: 5.8980 L22: 8.6875 REMARK 3 L33: 5.6351 L12: -4.4375 REMARK 3 L13: 4.8772 L23: -1.7655 REMARK 3 S TENSOR REMARK 3 S11: 0.1298 S12: 0.0847 S13: -1.1522 REMARK 3 S21: 0.1667 S22: 0.0957 S23: 0.9647 REMARK 3 S31: 0.7431 S32: -0.0190 S33: -0.2800 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 523 THROUGH 545 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.5239 398.6201 19.8347 REMARK 3 T TENSOR REMARK 3 T11: 0.4485 T22: 0.3619 REMARK 3 T33: 0.6761 T12: 0.0101 REMARK 3 T13: -0.0991 T23: -0.0418 REMARK 3 L TENSOR REMARK 3 L11: 8.4941 L22: 3.4304 REMARK 3 L33: 6.6953 L12: -4.2159 REMARK 3 L13: -2.2905 L23: -1.5812 REMARK 3 S TENSOR REMARK 3 S11: -0.2855 S12: 0.2164 S13: -0.5648 REMARK 3 S21: -0.3223 S22: 0.2441 S23: 1.6221 REMARK 3 S31: 0.1533 S32: -0.4241 S33: 0.0463 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 546 THROUGH 586 ) REMARK 3 ORIGIN FOR THE GROUP (A): 68.5514 408.9669 21.5345 REMARK 3 T TENSOR REMARK 3 T11: 0.3323 T22: 0.3210 REMARK 3 T33: 0.3351 T12: 0.1006 REMARK 3 T13: -0.0541 T23: -0.0172 REMARK 3 L TENSOR REMARK 3 L11: 9.5461 L22: 7.5361 REMARK 3 L33: 6.1691 L12: 4.0229 REMARK 3 L13: -4.7680 L23: 0.8376 REMARK 3 S TENSOR REMARK 3 S11: 0.0187 S12: -0.2016 S13: 0.2009 REMARK 3 S21: 0.1893 S22: -0.1310 S23: -0.1897 REMARK 3 S31: 0.1786 S32: 0.1801 S33: 0.0871 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 587 THROUGH 601 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.9639 406.0081 32.1511 REMARK 3 T TENSOR REMARK 3 T11: 0.6661 T22: 0.4236 REMARK 3 T33: 0.5311 T12: 0.0685 REMARK 3 T13: -0.0220 T23: -0.0644 REMARK 3 L TENSOR REMARK 3 L11: 6.9943 L22: 3.9011 REMARK 3 L33: 6.7927 L12: 2.9517 REMARK 3 L13: -0.4844 L23: -4.3644 REMARK 3 S TENSOR REMARK 3 S11: 0.1687 S12: -0.7620 S13: -0.4286 REMARK 3 S21: 1.2863 S22: 0.1173 S23: -0.4750 REMARK 3 S31: 0.7996 S32: 0.1514 S33: -0.2474 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 8 ) REMARK 3 ORIGIN FOR THE GROUP (A): 62.4916 396.3636 12.0279 REMARK 3 T TENSOR REMARK 3 T11: 1.6827 T22: 0.5622 REMARK 3 T33: 0.4295 T12: -0.0674 REMARK 3 T13: -0.1551 T23: -0.1114 REMARK 3 L TENSOR REMARK 3 L11: 3.7805 L22: 4.1214 REMARK 3 L33: 9.3217 L12: -2.7294 REMARK 3 L13: 0.4130 L23: -4.5670 REMARK 3 S TENSOR REMARK 3 S11: -0.0760 S12: 0.6277 S13: 0.0622 REMARK 3 S21: -2.3123 S22: 0.2978 S23: 1.5915 REMARK 3 S31: -2.0792 S32: 0.2917 S33: -0.0174 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 9 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.6530 390.7357 39.4402 REMARK 3 T TENSOR REMARK 3 T11: 1.3848 T22: 1.1120 REMARK 3 T33: 0.7676 T12: 0.0565 REMARK 3 T13: 0.6464 T23: 0.1703 REMARK 3 L TENSOR REMARK 3 L11: 7.1245 L22: 1.2714 REMARK 3 L33: 2.9451 L12: 0.6078 REMARK 3 L13: 0.2726 L23: 1.8010 REMARK 3 S TENSOR REMARK 3 S11: -0.7253 S12: -2.0280 S13: -0.2985 REMARK 3 S21: 3.0003 S22: 0.3648 S23: 1.0515 REMARK 3 S31: 1.7199 S32: -0.9182 S33: 0.0325 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 19 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.3692 388.6841 43.7101 REMARK 3 T TENSOR REMARK 3 T11: 1.7389 T22: 1.5314 REMARK 3 T33: 0.7889 T12: 0.0314 REMARK 3 T13: 0.4882 T23: 0.3112 REMARK 3 L TENSOR REMARK 3 L11: 2.2175 L22: 2.4173 REMARK 3 L33: 6.4651 L12: 1.5816 REMARK 3 L13: 1.3028 L23: -1.6607 REMARK 3 S TENSOR REMARK 3 S11: 0.0096 S12: -2.8476 S13: -0.7320 REMARK 3 S21: 2.7730 S22: -0.2242 S23: 0.8152 REMARK 3 S31: 1.2392 S32: -0.5191 S33: 0.2181 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 27 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.8567 394.7433 16.4504 REMARK 3 T TENSOR REMARK 3 T11: 0.9873 T22: 0.4423 REMARK 3 T33: 0.3752 T12: -0.0394 REMARK 3 T13: 0.0174 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 5.7859 L22: 4.1111 REMARK 3 L33: 6.4617 L12: -0.5965 REMARK 3 L13: -0.5134 L23: 0.0368 REMARK 3 S TENSOR REMARK 3 S11: -0.2170 S12: 1.0592 S13: -0.0676 REMARK 3 S21: -1.4717 S22: 0.4094 S23: 0.0625 REMARK 3 S31: 1.2170 S32: 0.0887 S33: -0.1077 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 5VMW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227643. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAR-16 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) : 0.97946 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17193 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.397 REMARK 200 RESOLUTION RANGE LOW (A) : 45.669 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.14800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.63400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.040 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: 4F6N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 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 22.17050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 92.07450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 22.17050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 92.07450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 22.17050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 92.07450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 22.17050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 92.07450 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: 7490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 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 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 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 DG D 11 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT D 14 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT E 22 O4' - C1' - N1 ANGL. DEV. = 1.9 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 489 -129.75 51.19 REMARK 500 CYS A 527 -158.46 -150.69 REMARK 500 SER A 578 -70.08 -57.54 REMARK 500 ASP A 580 -116.49 63.91 REMARK 500 SER A 581 144.32 -39.75 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 115.5 REMARK 620 3 HIS A 512 NE2 107.4 101.7 REMARK 620 4 HIS A 516 NE2 112.5 111.1 107.7 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 115.3 REMARK 620 3 HIS A 540 NE2 107.3 113.2 REMARK 620 4 HIS A 544 NE2 104.2 112.8 102.8 REMARK 620 5 HOH A 816 O 174.0 59.5 78.1 76.5 REMARK 620 N 1 2 3 4 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 112.5 REMARK 620 3 HIS A 568 NE2 108.2 112.1 REMARK 620 4 HIS A 573 NE2 102.7 116.1 104.6 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 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: 5VMU RELATED DB: PDB REMARK 900 RELATED ID: 5VMV RELATED DB: PDB REMARK 900 RELATED ID: 5VMX RELATED DB: PDB REMARK 900 RELATED ID: 5VMY RELATED DB: PDB REMARK 900 RELATED ID: 5VMZ RELATED DB: PDB DBREF 5VMW A 471 604 UNP Q86T24 KAISO_HUMAN 471 604 DBREF 5VMW D 1 18 PDB 5VMW 5VMW 1 18 DBREF 5VMW E 19 36 PDB 5VMW 5VMW 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 DC 5CM DG 5CM DG DA DA SEQRES 2 D 18 DT DA DA DC DG SEQRES 1 E 18 DC DG DT DT DA DT DT 5CM DG 5CM DG DG DG SEQRES 2 E 18 DA DA DG DC DA HET 5CM D 8 20 HET 5CM D 10 20 HET 5CM E 26 20 HET 5CM E 28 20 HET ZN A 701 1 HET ZN A 702 1 HET ZN A 703 1 HET CL A 704 1 HETNAM 5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 2 5CM 4(C10 H16 N3 O7 P) FORMUL 4 ZN 3(ZN 2+) FORMUL 7 CL CL 1- FORMUL 8 HOH *40(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 HIS A 573 1 13 HELIX 4 AA4 TYR A 597 SER A 601 5 5 SHEET 1 AA1 3 HIS A 483 VAL A 488 0 SHEET 2 AA1 3 ARG A 491 CYS A 496 -1 O ILE A 495 N TYR A 484 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 O3' DC D 7 P 5CM D 8 1555 1555 1.61 LINK O3' 5CM D 8 P DG D 9 1555 1555 1.60 LINK O3' DG D 9 P 5CM D 10 1555 1555 1.62 LINK O3' 5CM D 10 P DG D 11 1555 1555 1.61 LINK O3' DT E 25 P 5CM E 26 1555 1555 1.60 LINK O3' 5CM E 26 P DG E 27 1555 1555 1.60 LINK O3' DG E 27 P 5CM E 28 1555 1555 1.60 LINK O3' 5CM E 28 P DG E 29 1555 1555 1.61 LINK SG CYS A 496 ZN ZN A 701 1555 1555 2.28 LINK SG CYS A 499 ZN ZN A 701 1555 1555 2.21 LINK NE2 HIS A 512 ZN ZN A 701 1555 1555 2.03 LINK NE2 HIS A 516 ZN ZN A 701 1555 1555 1.95 LINK SG CYS A 524 ZN ZN A 702 1555 1555 2.19 LINK SG CYS A 527 ZN ZN A 702 1555 1555 2.29 LINK NE2 HIS A 540 ZN ZN A 702 1555 1555 2.02 LINK NE2 HIS A 544 ZN ZN A 702 1555 1555 2.10 LINK SG CYS A 552 ZN ZN A 703 1555 1555 2.25 LINK SG CYS A 555 ZN ZN A 703 1555 1555 2.35 LINK NE2 HIS A 568 ZN ZN A 703 1555 1555 2.00 LINK NE2 HIS A 573 ZN ZN A 703 1555 1555 2.07 LINK ZN ZN A 702 O HOH A 816 1555 1555 2.57 SITE 1 AC1 4 CYS A 496 CYS A 499 HIS A 512 HIS A 516 SITE 1 AC2 5 CYS A 524 CYS A 527 HIS A 540 HIS A 544 SITE 2 AC2 5 HOH A 816 SITE 1 AC3 4 CYS A 552 CYS A 555 HIS A 568 HIS A 573 SITE 1 AC4 3 ARG A 548 ARG A 590 HOH A 807 CRYST1 44.341 184.149 105.189 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 0.022552 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009507 0.00000