HEADER TRANSCRIPTION/DNA 23-JUN-16 5KL7 TITLE WILMS TUMOR PROTEIN (WT1) ZNF2-4Q369R IN COMPLEX WITH CARBOXYLATED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: WILMS TUMOR PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 333-420; COMPND 5 SYNONYM: WT33; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*AP*GP*CP*GP*TP*GP*GP*GP*(1CC)P*GP*T)-3'); COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*TP*AP*(5CM)P*GP*CP*CP*CP*AP*CP*GP*C)-3'); COMPND 14 CHAIN: C; COMPND 15 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: WT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) RIL CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PGEX-6P-1; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PXC1302; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS WILMS TUMOR PROTEIN, WT1, ZINC FINGER, 5-CARBOXYL CYTOSINE, KEYWDS 2 TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.HASHIMOTO,X.CHENG REVDAT 7 27-SEP-23 5KL7 1 REMARK REVDAT 6 24-JUN-20 5KL7 1 ATOM REVDAT 5 25-DEC-19 5KL7 1 REMARK REVDAT 4 27-SEP-17 5KL7 1 REMARK REVDAT 3 14-DEC-16 5KL7 1 JRNL REVDAT 2 21-SEP-16 5KL7 1 JRNL REVDAT 1 14-SEP-16 5KL7 0 JRNL AUTH H.HASHIMOTO,X.ZHANG,Y.ZHENG,G.G.WILSON,X.CHENG JRNL TITL DENYS-DRASH SYNDROME ASSOCIATED WT1 GLUTAMINE 369 MUTANTS JRNL TITL 2 HAVE ALTERED SEQUENCE-PREFERENCES AND ALTERED RESPONSES TO JRNL TITL 3 EPIGENETIC MODIFICATIONS. JRNL REF NUCLEIC ACIDS RES. V. 44 10165 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27596598 JRNL DOI 10.1093/NAR/GKW766 REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2400: ???) 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.23 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 26017 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1304 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 29.2359 - 3.2826 0.99 2951 157 0.1609 0.1860 REMARK 3 2 3.2826 - 2.6060 1.00 2829 149 0.1706 0.2204 REMARK 3 3 2.6060 - 2.2768 1.00 2815 148 0.1554 0.1990 REMARK 3 4 2.2768 - 2.0687 1.00 2780 146 0.1561 0.1557 REMARK 3 5 2.0687 - 1.9204 1.00 2771 147 0.1634 0.2006 REMARK 3 6 1.9204 - 1.8072 1.00 2755 144 0.1612 0.1890 REMARK 3 7 1.8072 - 1.7167 0.99 2734 145 0.1606 0.1818 REMARK 3 8 1.7167 - 1.6420 0.99 2743 145 0.1755 0.2061 REMARK 3 9 1.6420 - 1.5788 0.85 2335 123 0.2080 0.2216 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.360 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 1366 REMARK 3 ANGLE : 1.357 1930 REMARK 3 CHIRALITY : 0.064 201 REMARK 3 PLANARITY : 0.009 164 REMARK 3 DIHEDRAL : 25.052 757 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 350 THROUGH 378 ) REMARK 3 ORIGIN FOR THE GROUP (A):-198.1160 -46.8499 153.8973 REMARK 3 T TENSOR REMARK 3 T11: 0.2100 T22: 0.1397 REMARK 3 T33: 0.1808 T12: -0.0303 REMARK 3 T13: 0.0435 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 4.8876 L22: 4.7025 REMARK 3 L33: 4.0820 L12: 0.6386 REMARK 3 L13: 0.0605 L23: -0.5029 REMARK 3 S TENSOR REMARK 3 S11: 0.3065 S12: -0.1957 S13: 0.3862 REMARK 3 S21: 0.6146 S22: -0.1537 S23: 0.1948 REMARK 3 S31: -0.2107 S32: -0.1183 S33: -0.1341 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 379 THROUGH 411 ) REMARK 3 ORIGIN FOR THE GROUP (A):-194.8421 -67.2646 143.9856 REMARK 3 T TENSOR REMARK 3 T11: 0.1484 T22: 0.1213 REMARK 3 T33: 0.2218 T12: 0.0238 REMARK 3 T13: 0.0161 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 3.0796 L22: 1.4084 REMARK 3 L33: 1.9929 L12: 0.2414 REMARK 3 L13: 1.0852 L23: 0.9703 REMARK 3 S TENSOR REMARK 3 S11: -0.0372 S12: 0.0835 S13: -0.4447 REMARK 3 S21: 0.0919 S22: 0.1928 S23: -0.2426 REMARK 3 S31: 0.0785 S32: 0.1313 S33: -0.1709 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 412 THROUGH 424 ) REMARK 3 ORIGIN FOR THE GROUP (A):-213.7745 -72.2729 132.9461 REMARK 3 T TENSOR REMARK 3 T11: 0.1728 T22: 0.2378 REMARK 3 T33: 0.2635 T12: -0.0493 REMARK 3 T13: 0.0361 T23: -0.0791 REMARK 3 L TENSOR REMARK 3 L11: 2.3381 L22: 3.4123 REMARK 3 L33: 2.3626 L12: 0.4973 REMARK 3 L13: 0.3577 L23: 0.6890 REMARK 3 S TENSOR REMARK 3 S11: -0.0867 S12: 0.5069 S13: -0.7109 REMARK 3 S21: -0.2087 S22: -0.0602 S23: 0.1858 REMARK 3 S31: 0.4766 S32: -0.4847 S33: 0.0294 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 425 THROUGH 436 ) REMARK 3 ORIGIN FOR THE GROUP (A):-213.8490 -64.1762 132.7401 REMARK 3 T TENSOR REMARK 3 T11: 0.1311 T22: 0.2009 REMARK 3 T33: 0.1527 T12: 0.0326 REMARK 3 T13: 0.0118 T23: 0.0114 REMARK 3 L TENSOR REMARK 3 L11: 6.9073 L22: 7.7127 REMARK 3 L33: 6.2793 L12: 1.2361 REMARK 3 L13: 0.5006 L23: 0.7906 REMARK 3 S TENSOR REMARK 3 S11: -0.0498 S12: 0.5254 S13: 0.4410 REMARK 3 S21: -0.4916 S22: -0.1908 S23: -0.0383 REMARK 3 S31: -0.1610 S32: -0.1641 S33: 0.1314 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A):-203.8358 -58.6781 144.1660 REMARK 3 T TENSOR REMARK 3 T11: 0.1275 T22: 0.1411 REMARK 3 T33: 0.1213 T12: 0.0094 REMARK 3 T13: -0.0021 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 1.8110 L22: 2.6924 REMARK 3 L33: 2.0406 L12: 1.1847 REMARK 3 L13: 0.9765 L23: -0.8221 REMARK 3 S TENSOR REMARK 3 S11: 0.0969 S12: -0.0265 S13: 0.0755 REMARK 3 S21: 0.0443 S22: 0.1277 S23: 0.0746 REMARK 3 S31: -0.0994 S32: -0.1914 S33: -0.2213 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A):-204.7833 -59.3107 145.5791 REMARK 3 T TENSOR REMARK 3 T11: 0.1745 T22: 0.1662 REMARK 3 T33: 0.1617 T12: 0.0176 REMARK 3 T13: 0.0210 T23: -0.0066 REMARK 3 L TENSOR REMARK 3 L11: 2.2403 L22: 1.7460 REMARK 3 L33: 6.4499 L12: 1.5479 REMARK 3 L13: -0.7253 L23: 1.2270 REMARK 3 S TENSOR REMARK 3 S11: 0.3091 S12: -0.0398 S13: 0.1611 REMARK 3 S21: 0.0444 S22: 0.1436 S23: 0.1633 REMARK 3 S31: 0.0224 S32: -0.1657 S33: -0.3807 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 5KL7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222092. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26124 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.579 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.810 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: 4R2R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) POLYETHYLENE GLYCOL 3350, 40 REMARK 280 MM CITRIC ACID, AND 60 MM BISTRIS-PROPANE PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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+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 33.72900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.89850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.72900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.89850 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: 5240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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 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 HOH A 645 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 GLY A 345 REMARK 465 PRO A 346 REMARK 465 LEU A 347 REMARK 465 GLY A 348 REMARK 465 SER A 349 REMARK 465 ARG A 437 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HO1 EDO A 505 O HOH A 601 1.43 REMARK 500 O1 EDO A 505 O HOH A 601 2.03 REMARK 500 O HOH A 640 O HOH A 666 2.07 REMARK 500 OP2 DT B 11 O HOH B 101 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 HZ2 LYS A 391 OP1 DA C 8 4555 1.52 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 DC B 3 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT B 5 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG B 7 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG C 4 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG C 4 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG C 4 N9 - C4 - C5 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 5 O4' - C1' - N1 ANGL. DEV. = 1.9 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 A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 355 SG REMARK 620 2 CYS A 360 SG 114.7 REMARK 620 3 HIS A 373 NE2 108.3 109.5 REMARK 620 4 HIS A 377 NE2 109.2 113.4 100.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 385 SG REMARK 620 2 CYS A 388 SG 114.6 REMARK 620 3 HIS A 401 NE2 110.4 106.7 REMARK 620 4 HIS A 405 NE2 107.9 114.9 101.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 413 SG REMARK 620 2 CYS A 418 SG 116.3 REMARK 620 3 HIS A 431 NE2 106.1 112.7 REMARK 620 4 HIS A 435 NE2 105.5 117.6 96.4 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KL2 RELATED DB: PDB REMARK 900 RELATED ID: 5KL3 RELATED DB: PDB REMARK 900 RELATED ID: 5KL4 RELATED DB: PDB REMARK 900 RELATED ID: 5KL5 RELATED DB: PDB REMARK 900 RELATED ID: 5KL6 RELATED DB: PDB DBREF 5KL7 A 350 437 UNP P19544 WT1_HUMAN 333 420 DBREF 5KL7 B 1 11 PDB 5KL7 5KL7 1 11 DBREF 5KL7 C 1 11 PDB 5KL7 5KL7 1 11 SEQADV 5KL7 GLY A 345 UNP P19544 EXPRESSION TAG SEQADV 5KL7 PRO A 346 UNP P19544 EXPRESSION TAG SEQADV 5KL7 LEU A 347 UNP P19544 EXPRESSION TAG SEQADV 5KL7 GLY A 348 UNP P19544 EXPRESSION TAG SEQADV 5KL7 SER A 349 UNP P19544 EXPRESSION TAG SEQADV 5KL7 ARG A 369 UNP P19544 GLN 352 ENGINEERED MUTATION SEQRES 1 A 93 GLY PRO LEU GLY SER GLU LYS PRO TYR GLN CYS ASP PHE SEQRES 2 A 93 LYS ASP CYS GLU ARG ARG PHE SER ARG SER ASP ARG LEU SEQRES 3 A 93 LYS ARG HIS GLN ARG ARG HIS THR GLY VAL LYS PRO PHE SEQRES 4 A 93 GLN CYS LYS THR CYS GLN ARG LYS PHE SER ARG SER ASP SEQRES 5 A 93 HIS LEU LYS THR HIS THR ARG THR HIS THR GLY GLU LYS SEQRES 6 A 93 PRO PHE SER CYS ARG TRP PRO SER CYS GLN LYS LYS PHE SEQRES 7 A 93 ALA ARG SER ASP GLU LEU VAL ARG HIS HIS ASN MET HIS SEQRES 8 A 93 GLN ARG SEQRES 1 B 11 DA DG DC DG DT DG DG DG 1CC DG DT SEQRES 1 C 11 DT DA 5CM DG DC DC DC DA DC DG DC HET 1CC B 9 32 HET 5CM C 3 33 HET ZN A 501 1 HET ZN A 502 1 HET ZN A 503 1 HET EDO A 504 10 HET EDO A 505 10 HETNAM 1CC 5-CARBOXY-2'-DEOXYCYTIDINE MONOPHOSPHATE HETNAM 5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 1CC C10 H14 N3 O9 P FORMUL 3 5CM C10 H16 N3 O7 P FORMUL 4 ZN 3(ZN 2+) FORMUL 7 EDO 2(C2 H6 O2) FORMUL 9 HOH *126(H2 O) HELIX 1 AA1 ARG A 366 GLY A 379 1 14 HELIX 2 AA2 ARG A 394 GLY A 407 1 14 HELIX 3 AA3 ARG A 424 GLN A 436 1 13 SHEET 1 AA1 2 TYR A 353 GLN A 354 0 SHEET 2 AA1 2 ARG A 363 PHE A 364 -1 O PHE A 364 N TYR A 353 SHEET 1 AA2 2 PHE A 383 GLN A 384 0 SHEET 2 AA2 2 LYS A 391 PHE A 392 -1 O PHE A 392 N PHE A 383 SHEET 1 AA3 2 PHE A 411 SER A 412 0 SHEET 2 AA3 2 LYS A 421 PHE A 422 -1 O PHE A 422 N PHE A 411 LINK O3' DG B 8 P 1CC B 9 1555 1555 1.59 LINK O3' 1CC B 9 P DG B 10 1555 1555 1.62 LINK O3' DA C 2 P 5CM C 3 1555 1555 1.61 LINK O3' 5CM C 3 P DG C 4 1555 1555 1.61 LINK SG CYS A 355 ZN ZN A 501 1555 1555 2.30 LINK SG CYS A 360 ZN ZN A 501 1555 1555 2.28 LINK NE2 HIS A 373 ZN ZN A 501 1555 1555 1.99 LINK NE2 HIS A 377 ZN ZN A 501 1555 1555 2.06 LINK SG CYS A 385 ZN ZN A 502 1555 1555 2.34 LINK SG CYS A 388 ZN ZN A 502 1555 1555 2.29 LINK NE2 HIS A 401 ZN ZN A 502 1555 1555 2.06 LINK NE2 HIS A 405 ZN ZN A 502 1555 1555 2.02 LINK SG CYS A 413 ZN ZN A 503 1555 1555 2.27 LINK SG CYS A 418 ZN ZN A 503 1555 1555 2.23 LINK NE2 HIS A 431 ZN ZN A 503 1555 1555 2.04 LINK NE2 HIS A 435 ZN ZN A 503 1555 1555 2.03 SITE 1 AC1 4 CYS A 355 CYS A 360 HIS A 373 HIS A 377 SITE 1 AC2 4 CYS A 385 CYS A 388 HIS A 401 HIS A 405 SITE 1 AC3 4 CYS A 413 CYS A 418 HIS A 431 HIS A 435 SITE 1 AC4 5 ARG A 372 SER A 393 ARG A 394 DG B 6 SITE 2 AC4 5 HOH B 109 SITE 1 AC5 7 ASP A 368 ARG A 372 HOH A 601 1CC B 9 SITE 2 AC5 7 DG B 10 5CM C 3 DG C 4 CRYST1 67.458 77.797 35.683 90.00 90.00 90.00 P 21 21 2 4 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 0.014824 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012854 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028025 0.00000