HEADER DNA/DNA BINDING PROTEIN 10-JUN-22 7Y3I TITLE STRUCTURE OF DNA BOUND SALL4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (12-MER); COMPND 3 CHAIN: L, G; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (12-MER); COMPND 7 CHAIN: K, H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: SAL-LIKE PROTEIN 4; COMPND 11 CHAIN: A, B, C, D; COMPND 12 SYNONYM: ZINC FINGER PROTEIN 797,ZINC FINGER PROTEIN SALL4; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: SALL4, ZNF797; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SALL4, ZINC FINGER, DNA BINDING PROTEIN, DNA-DNA BINDING PROTEIN KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.RU,C.XU REVDAT 3 30-NOV-22 7Y3I 1 JRNL REVDAT 2 02-NOV-22 7Y3I 1 JRNL REVDAT 1 26-OCT-22 7Y3I 0 JRNL AUTH W.RU,T.KOGA,X.WANG,Q.GUO,M.D.GEARHART,S.ZHAO,M.MURPHY, JRNL AUTH 2 H.KAWAKAMI,D.CORCORAN,J.ZHANG,Z.ZHU,X.YAO,Y.KAWAKAMI,C.XU JRNL TITL STRUCTURAL STUDIES OF SALL FAMILY PROTEIN ZINC FINGER JRNL TITL 2 CLUSTER DOMAINS IN COMPLEX WITH DNA REVEAL PREFERENTIAL JRNL TITL 3 BINDING TO AN AATA TETRANUCLEOTIDE MOTIF. JRNL REF J.BIOL.CHEM. V. 298 02607 2022 JRNL REFN ESSN 1083-351X JRNL PMID 36257403 JRNL DOI 10.1016/J.JBC.2022.102607 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.RU,T.KOGA,X.WANG,Q.GUO,M.D.GEARHART,S.ZHAO,M.MURPHY, REMARK 1 AUTH 2 H.KAWAKAMI,D.CORCORAN,J.ZHANG,Z.ZHU,X.YAO,Y.KAWAKAMI,C.XU REMARK 1 TITL STRUCTURAL STUDIES OF SALL FAMILY PROTEIN ZINC FINGER REMARK 1 TITL 2 CLUSTER DOMAINS IN COMPLEX WITH DNA REVEAL PREFERENTIAL REMARK 1 TITL 3 BINDING TO AN AATA TETRANUCLEOTIDE MOTIF REMARK 1 REF J.BIOL.CHEM. 2022 REMARK 1 REFN ESSN 1083-351X REMARK 1 DOI DOI.ORG/10.1016/J.JBC.2022.102607 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.13 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 14297 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.740 REMARK 3 FREE R VALUE TEST SET COUNT : 678 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 43.1270 - 4.1885 0.99 2857 140 0.1807 0.2358 REMARK 3 2 4.1885 - 3.3249 0.99 2713 149 0.1628 0.2002 REMARK 3 3 3.3249 - 2.9048 1.00 2686 132 0.2036 0.2479 REMARK 3 4 2.9048 - 2.6392 1.00 2694 137 0.2503 0.2968 REMARK 3 5 2.6392 - 2.4501 1.00 2669 120 0.2542 0.3473 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.92 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'L' AND RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 15.1392 -0.9616 22.4278 REMARK 3 T TENSOR REMARK 3 T11: 0.3318 T22: 0.3094 REMARK 3 T33: 0.2736 T12: 0.0226 REMARK 3 T13: -0.0422 T23: 0.0859 REMARK 3 L TENSOR REMARK 3 L11: 0.2614 L22: 0.7904 REMARK 3 L33: 0.1960 L12: -0.1971 REMARK 3 L13: 0.0215 L23: 0.3384 REMARK 3 S TENSOR REMARK 3 S11: 0.0603 S12: -0.0041 S13: 0.0317 REMARK 3 S21: 0.0189 S22: 0.2289 S23: 0.3026 REMARK 3 S31: -0.0313 S32: -0.1105 S33: 0.0007 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'K' AND RESID 0 THROUGH 11) REMARK 3 ORIGIN FOR THE GROUP (A): 17.4056 -1.4197 23.4245 REMARK 3 T TENSOR REMARK 3 T11: 0.2606 T22: 0.3072 REMARK 3 T33: 0.3330 T12: -0.0003 REMARK 3 T13: -0.0320 T23: 0.0670 REMARK 3 L TENSOR REMARK 3 L11: 1.2410 L22: 1.4658 REMARK 3 L33: 0.3736 L12: -0.1841 REMARK 3 L13: -0.3064 L23: 0.7113 REMARK 3 S TENSOR REMARK 3 S11: -0.0636 S12: 0.2855 S13: 0.1392 REMARK 3 S21: 0.5196 S22: -0.0376 S23: 0.2358 REMARK 3 S31: -0.2663 S32: 0.3418 S33: -0.0013 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'G' AND RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 39.4078 0.3969 0.7345 REMARK 3 T TENSOR REMARK 3 T11: 0.2698 T22: 0.3124 REMARK 3 T33: 0.2029 T12: -0.0127 REMARK 3 T13: 0.0410 T23: 0.0501 REMARK 3 L TENSOR REMARK 3 L11: 0.6651 L22: 0.6070 REMARK 3 L33: 0.5793 L12: -0.5019 REMARK 3 L13: -0.3191 L23: 0.5568 REMARK 3 S TENSOR REMARK 3 S11: 0.0727 S12: 0.0587 S13: -0.1372 REMARK 3 S21: 0.0001 S22: -0.0225 S23: 0.1293 REMARK 3 S31: -0.0187 S32: 0.1701 S33: 0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'H' AND RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 41.4701 0.5634 -0.2975 REMARK 3 T TENSOR REMARK 3 T11: 0.2854 T22: 0.2700 REMARK 3 T33: 0.2281 T12: -0.0159 REMARK 3 T13: 0.0065 T23: 0.0588 REMARK 3 L TENSOR REMARK 3 L11: 0.9460 L22: 0.7699 REMARK 3 L33: 0.4683 L12: -0.0890 REMARK 3 L13: 0.2894 L23: 0.5029 REMARK 3 S TENSOR REMARK 3 S11: 0.0091 S12: 0.0285 S13: -0.1433 REMARK 3 S21: -0.2416 S22: 0.1319 S23: 0.0624 REMARK 3 S31: 0.1832 S32: 0.0431 S33: 0.0002 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 868 THROUGH 921) REMARK 3 ORIGIN FOR THE GROUP (A): 41.7582 9.6520 3.7671 REMARK 3 T TENSOR REMARK 3 T11: 0.2282 T22: 0.2726 REMARK 3 T33: 0.3062 T12: 0.0082 REMARK 3 T13: -0.0173 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 0.4563 L22: 1.5376 REMARK 3 L33: 0.9119 L12: 0.3427 REMARK 3 L13: 0.1097 L23: -0.9642 REMARK 3 S TENSOR REMARK 3 S11: -0.1922 S12: -0.1902 S13: 0.0043 REMARK 3 S21: 0.1780 S22: 0.0846 S23: 0.1405 REMARK 3 S31: -0.0647 S32: -0.0485 S33: -0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 869 THROUGH 921) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7247 -10.7542 19.9738 REMARK 3 T TENSOR REMARK 3 T11: 0.2384 T22: 0.1918 REMARK 3 T33: 0.2475 T12: -0.0028 REMARK 3 T13: -0.0214 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 0.2047 L22: 2.1492 REMARK 3 L33: 1.0100 L12: 0.4665 REMARK 3 L13: -0.4273 L23: -0.6731 REMARK 3 S TENSOR REMARK 3 S11: 0.0727 S12: 0.0669 S13: 0.0001 REMARK 3 S21: -0.2171 S22: -0.0683 S23: 0.2848 REMARK 3 S31: 0.1002 S32: -0.1042 S33: 0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN 'C' AND RESID 895 THROUGH 921) REMARK 3 ORIGIN FOR THE GROUP (A): 44.9900 -7.3329 -13.2709 REMARK 3 T TENSOR REMARK 3 T11: 0.3417 T22: 0.3282 REMARK 3 T33: 0.3255 T12: 0.0012 REMARK 3 T13: 0.0482 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.3119 L22: 0.3394 REMARK 3 L33: 0.2109 L12: 0.1452 REMARK 3 L13: -0.1722 L23: 0.1005 REMARK 3 S TENSOR REMARK 3 S11: -0.0945 S12: -0.1361 S13: -0.1258 REMARK 3 S21: -0.2213 S22: -0.0400 S23: 0.0463 REMARK 3 S31: -0.0719 S32: 0.0158 S33: -0.0009 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 896 THROUGH 921) REMARK 3 ORIGIN FOR THE GROUP (A): 16.3191 10.6730 35.4541 REMARK 3 T TENSOR REMARK 3 T11: 0.3380 T22: 0.3526 REMARK 3 T33: 0.3787 T12: 0.0102 REMARK 3 T13: -0.0168 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.2236 L22: 0.3707 REMARK 3 L33: 0.3051 L12: -0.0022 REMARK 3 L13: 0.0637 L23: 0.0828 REMARK 3 S TENSOR REMARK 3 S11: -0.3692 S12: -0.2823 S13: -0.0111 REMARK 3 S21: 0.1208 S22: -0.0093 S23: 0.3035 REMARK 3 S31: -0.1419 S32: -0.1684 S33: 0.0001 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 7Y3I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1300030190. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-21 REMARK 200 TEMPERATURE (KELVIN) : 97 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14297 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 48.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.63 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS, PH 6.5, 25% W/V REMARK 280 POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 24.48750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.14750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.59850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.14750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.48750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.59850 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, K, B, D 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, H, A, 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 GLY A 853 REMARK 465 HIS A 854 REMARK 465 MET A 855 REMARK 465 THR A 856 REMARK 465 PRO A 857 REMARK 465 LEU A 858 REMARK 465 LEU A 859 REMARK 465 ALA A 860 REMARK 465 ALA A 861 REMARK 465 GLN A 862 REMARK 465 PRO A 863 REMARK 465 ARG A 864 REMARK 465 ARG A 865 REMARK 465 GLN A 866 REMARK 465 ALA A 867 REMARK 465 ALA A 922 REMARK 465 ASN A 923 REMARK 465 ASN A 924 REMARK 465 ASN A 925 REMARK 465 SER A 926 REMARK 465 ALA A 927 REMARK 465 ARG A 928 REMARK 465 ARG A 929 REMARK 465 GLY A 930 REMARK 465 GLY B 853 REMARK 465 HIS B 854 REMARK 465 MET B 855 REMARK 465 THR B 856 REMARK 465 PRO B 857 REMARK 465 LEU B 858 REMARK 465 LEU B 859 REMARK 465 ALA B 860 REMARK 465 ALA B 861 REMARK 465 GLN B 862 REMARK 465 PRO B 863 REMARK 465 ARG B 864 REMARK 465 ARG B 865 REMARK 465 GLN B 866 REMARK 465 ALA B 867 REMARK 465 LYS B 868 REMARK 465 ALA B 922 REMARK 465 ASN B 923 REMARK 465 ASN B 924 REMARK 465 ASN B 925 REMARK 465 SER B 926 REMARK 465 ALA B 927 REMARK 465 ARG B 928 REMARK 465 ARG B 929 REMARK 465 GLY B 930 REMARK 465 GLY C 853 REMARK 465 HIS C 854 REMARK 465 MET C 855 REMARK 465 THR C 856 REMARK 465 PRO C 857 REMARK 465 LEU C 858 REMARK 465 LEU C 859 REMARK 465 ALA C 860 REMARK 465 ALA C 861 REMARK 465 GLN C 862 REMARK 465 PRO C 863 REMARK 465 ARG C 864 REMARK 465 ARG C 865 REMARK 465 GLN C 866 REMARK 465 ALA C 867 REMARK 465 LYS C 868 REMARK 465 GLN C 869 REMARK 465 HIS C 870 REMARK 465 GLY C 871 REMARK 465 CYS C 872 REMARK 465 THR C 873 REMARK 465 ARG C 874 REMARK 465 CYS C 875 REMARK 465 GLY C 876 REMARK 465 LYS C 877 REMARK 465 ASN C 878 REMARK 465 PHE C 879 REMARK 465 SER C 880 REMARK 465 SER C 881 REMARK 465 ALA C 882 REMARK 465 SER C 883 REMARK 465 ALA C 884 REMARK 465 LEU C 885 REMARK 465 GLN C 886 REMARK 465 ILE C 887 REMARK 465 HIS C 888 REMARK 465 GLU C 889 REMARK 465 ARG C 890 REMARK 465 THR C 891 REMARK 465 HIS C 892 REMARK 465 THR C 893 REMARK 465 GLY C 894 REMARK 465 ALA C 922 REMARK 465 ASN C 923 REMARK 465 ASN C 924 REMARK 465 ASN C 925 REMARK 465 SER C 926 REMARK 465 ALA C 927 REMARK 465 ARG C 928 REMARK 465 ARG C 929 REMARK 465 GLY C 930 REMARK 465 GLY D 853 REMARK 465 HIS D 854 REMARK 465 MET D 855 REMARK 465 THR D 856 REMARK 465 PRO D 857 REMARK 465 LEU D 858 REMARK 465 LEU D 859 REMARK 465 ALA D 860 REMARK 465 ALA D 861 REMARK 465 GLN D 862 REMARK 465 PRO D 863 REMARK 465 ARG D 864 REMARK 465 ARG D 865 REMARK 465 GLN D 866 REMARK 465 ALA D 867 REMARK 465 LYS D 868 REMARK 465 GLN D 869 REMARK 465 HIS D 870 REMARK 465 GLY D 871 REMARK 465 CYS D 872 REMARK 465 THR D 873 REMARK 465 ARG D 874 REMARK 465 CYS D 875 REMARK 465 GLY D 876 REMARK 465 LYS D 877 REMARK 465 ASN D 878 REMARK 465 PHE D 879 REMARK 465 SER D 880 REMARK 465 SER D 881 REMARK 465 ALA D 882 REMARK 465 SER D 883 REMARK 465 ALA D 884 REMARK 465 LEU D 885 REMARK 465 GLN D 886 REMARK 465 ILE D 887 REMARK 465 HIS D 888 REMARK 465 GLU D 889 REMARK 465 ARG D 890 REMARK 465 THR D 891 REMARK 465 HIS D 892 REMARK 465 THR D 893 REMARK 465 GLY D 894 REMARK 465 GLU D 895 REMARK 465 ALA D 922 REMARK 465 ASN D 923 REMARK 465 ASN D 924 REMARK 465 ASN D 925 REMARK 465 SER D 926 REMARK 465 ALA D 927 REMARK 465 ARG D 928 REMARK 465 ARG D 929 REMARK 465 GLY D 930 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 LYS A 868 CG CD CE NZ REMARK 470 GLN B 869 CG CD OE1 NE2 REMARK 470 ARG B 874 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 895 CB CG CD OE1 OE2 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 DG K 1 O3' DG K 1 C3' -0.045 REMARK 500 DT K 2 O3' DT K 2 C3' -0.058 REMARK 500 DT G 9 O3' DT G 9 C3' -0.048 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 DA K 3 C3' - O3' - P ANGL. DEV. = 7.4 DEGREES REMARK 500 DT G 9 O4' - C1' - N1 ANGL. DEV. = 2.1 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 A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 872 SG REMARK 620 2 CYS A 875 SG 113.5 REMARK 620 3 HIS A 888 NE2 111.4 102.6 REMARK 620 4 HIS A 892 NE2 102.4 118.5 108.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 900 SG REMARK 620 2 CYS A 903 SG 111.2 REMARK 620 3 HIS A 916 NE2 116.8 101.1 REMARK 620 4 HIS A 920 NE2 105.5 119.6 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 872 SG REMARK 620 2 CYS B 875 SG 127.3 REMARK 620 3 HIS B 888 NE2 101.0 100.3 REMARK 620 4 HIS B 892 NE2 104.2 114.3 107.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 900 SG REMARK 620 2 CYS B 903 SG 108.1 REMARK 620 3 HIS B 916 NE2 106.2 108.4 REMARK 620 4 HIS B 920 NE2 109.7 118.1 105.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 900 SG REMARK 620 2 CYS C 903 SG 124.6 REMARK 620 3 HIS C 916 NE2 110.0 100.4 REMARK 620 4 HIS C 920 NE2 118.7 100.0 99.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 900 SG REMARK 620 2 CYS D 903 SG 119.8 REMARK 620 3 HIS D 916 NE2 112.3 99.0 REMARK 620 4 HIS D 920 NE2 113.2 107.1 103.3 REMARK 620 N 1 2 3 DBREF 7Y3I L 1 12 PDB 7Y3I 7Y3I 1 12 DBREF 7Y3I K 0 11 PDB 7Y3I 7Y3I 0 11 DBREF 7Y3I G 1 12 PDB 7Y3I 7Y3I 1 12 DBREF 7Y3I H 1 12 PDB 7Y3I 7Y3I 1 12 DBREF 7Y3I A 855 930 UNP Q9UJQ4 SALL4_HUMAN 855 930 DBREF 7Y3I B 855 930 UNP Q9UJQ4 SALL4_HUMAN 855 930 DBREF 7Y3I C 855 930 UNP Q9UJQ4 SALL4_HUMAN 855 930 DBREF 7Y3I D 855 930 UNP Q9UJQ4 SALL4_HUMAN 855 930 SEQADV 7Y3I GLY A 853 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I HIS A 854 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I GLY B 853 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I HIS B 854 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I GLY C 853 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I HIS C 854 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I GLY D 853 UNP Q9UJQ4 EXPRESSION TAG SEQADV 7Y3I HIS D 854 UNP Q9UJQ4 EXPRESSION TAG SEQRES 1 L 12 DG DG DA DA DA DT DA DT DT DA DC DC SEQRES 1 K 12 DG DG DT DA DA DT DA DT DT DT DC DC SEQRES 1 G 12 DG DG DA DA DA DT DA DT DT DA DC DC SEQRES 1 H 12 DG DG DT DA DA DT DA DT DT DT DC DC SEQRES 1 A 78 GLY HIS MET THR PRO LEU LEU ALA ALA GLN PRO ARG ARG SEQRES 2 A 78 GLN ALA LYS GLN HIS GLY CYS THR ARG CYS GLY LYS ASN SEQRES 3 A 78 PHE SER SER ALA SER ALA LEU GLN ILE HIS GLU ARG THR SEQRES 4 A 78 HIS THR GLY GLU LYS PRO PHE VAL CYS ASN ILE CYS GLY SEQRES 5 A 78 ARG ALA PHE THR THR LYS GLY ASN LEU LYS VAL HIS TYR SEQRES 6 A 78 MET THR HIS GLY ALA ASN ASN ASN SER ALA ARG ARG GLY SEQRES 1 B 78 GLY HIS MET THR PRO LEU LEU ALA ALA GLN PRO ARG ARG SEQRES 2 B 78 GLN ALA LYS GLN HIS GLY CYS THR ARG CYS GLY LYS ASN SEQRES 3 B 78 PHE SER SER ALA SER ALA LEU GLN ILE HIS GLU ARG THR SEQRES 4 B 78 HIS THR GLY GLU LYS PRO PHE VAL CYS ASN ILE CYS GLY SEQRES 5 B 78 ARG ALA PHE THR THR LYS GLY ASN LEU LYS VAL HIS TYR SEQRES 6 B 78 MET THR HIS GLY ALA ASN ASN ASN SER ALA ARG ARG GLY SEQRES 1 C 78 GLY HIS MET THR PRO LEU LEU ALA ALA GLN PRO ARG ARG SEQRES 2 C 78 GLN ALA LYS GLN HIS GLY CYS THR ARG CYS GLY LYS ASN SEQRES 3 C 78 PHE SER SER ALA SER ALA LEU GLN ILE HIS GLU ARG THR SEQRES 4 C 78 HIS THR GLY GLU LYS PRO PHE VAL CYS ASN ILE CYS GLY SEQRES 5 C 78 ARG ALA PHE THR THR LYS GLY ASN LEU LYS VAL HIS TYR SEQRES 6 C 78 MET THR HIS GLY ALA ASN ASN ASN SER ALA ARG ARG GLY SEQRES 1 D 78 GLY HIS MET THR PRO LEU LEU ALA ALA GLN PRO ARG ARG SEQRES 2 D 78 GLN ALA LYS GLN HIS GLY CYS THR ARG CYS GLY LYS ASN SEQRES 3 D 78 PHE SER SER ALA SER ALA LEU GLN ILE HIS GLU ARG THR SEQRES 4 D 78 HIS THR GLY GLU LYS PRO PHE VAL CYS ASN ILE CYS GLY SEQRES 5 D 78 ARG ALA PHE THR THR LYS GLY ASN LEU LYS VAL HIS TYR SEQRES 6 D 78 MET THR HIS GLY ALA ASN ASN ASN SER ALA ARG ARG GLY HET ZN A1001 1 HET ZN A1002 1 HET ZN B1001 1 HET ZN B1002 1 HET ZN C1001 1 HET ZN D1001 1 HETNAM ZN ZINC ION FORMUL 9 ZN 6(ZN 2+) FORMUL 15 HOH *146(H2 O) HELIX 1 AA1 SER A 881 GLY A 894 1 14 HELIX 2 AA2 THR A 909 MET A 918 1 10 HELIX 3 AA3 SER B 881 GLY B 894 1 14 HELIX 4 AA4 THR B 909 MET B 918 1 10 HELIX 5 AA5 THR C 909 THR C 919 1 11 HELIX 6 AA6 THR D 909 MET D 918 1 10 HELIX 7 AA7 THR D 919 GLY D 921 5 3 SHEET 1 AA1 2 HIS A 870 GLY A 871 0 SHEET 2 AA1 2 ASN A 878 PHE A 879 -1 O PHE A 879 N HIS A 870 SHEET 1 AA2 2 PHE A 898 VAL A 899 0 SHEET 2 AA2 2 ALA A 906 PHE A 907 -1 O PHE A 907 N PHE A 898 SHEET 1 AA3 2 HIS B 870 GLY B 871 0 SHEET 2 AA3 2 ASN B 878 PHE B 879 -1 O PHE B 879 N HIS B 870 SHEET 1 AA4 2 PHE B 898 VAL B 899 0 SHEET 2 AA4 2 ALA B 906 PHE B 907 -1 O PHE B 907 N PHE B 898 SHEET 1 AA5 2 PHE C 898 VAL C 899 0 SHEET 2 AA5 2 ALA C 906 PHE C 907 -1 O PHE C 907 N PHE C 898 SHEET 1 AA6 2 PHE D 898 VAL D 899 0 SHEET 2 AA6 2 ALA D 906 PHE D 907 -1 O PHE D 907 N PHE D 898 LINK SG CYS A 872 ZN ZN A1001 1555 1555 2.31 LINK SG CYS A 875 ZN ZN A1001 1555 1555 2.18 LINK NE2 HIS A 888 ZN ZN A1001 1555 1555 2.03 LINK NE2 HIS A 892 ZN ZN A1001 1555 1555 1.94 LINK SG CYS A 900 ZN ZN A1002 1555 1555 2.27 LINK SG CYS A 903 ZN ZN A1002 1555 1555 2.29 LINK NE2 HIS A 916 ZN ZN A1002 1555 1555 2.06 LINK NE2 HIS A 920 ZN ZN A1002 1555 1555 2.06 LINK SG CYS B 872 ZN ZN B1001 1555 1555 2.36 LINK SG CYS B 875 ZN ZN B1001 1555 1555 2.26 LINK NE2 HIS B 888 ZN ZN B1001 1555 1555 2.03 LINK NE2 HIS B 892 ZN ZN B1001 1555 1555 1.98 LINK SG CYS B 900 ZN ZN B1002 1555 1555 2.28 LINK SG CYS B 903 ZN ZN B1002 1555 1555 2.30 LINK NE2 HIS B 916 ZN ZN B1002 1555 1555 1.99 LINK NE2 HIS B 920 ZN ZN B1002 1555 1555 2.06 LINK SG CYS C 900 ZN ZN C1001 1555 1555 2.29 LINK SG CYS C 903 ZN ZN C1001 1555 1555 2.17 LINK NE2 HIS C 916 ZN ZN C1001 1555 1555 2.14 LINK NE2 HIS C 920 ZN ZN C1001 1555 1555 2.19 LINK SG CYS D 900 ZN ZN D1001 1555 1555 2.26 LINK SG CYS D 903 ZN ZN D1001 1555 1555 2.37 LINK NE2 HIS D 916 ZN ZN D1001 1555 1555 2.07 LINK NE2 HIS D 920 ZN ZN D1001 1555 1555 2.13 CRYST1 48.975 69.197 110.295 90.00 90.00 90.00 P 21 21 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 0.020419 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014451 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009067 0.00000