PDB Short entry for 3QSV HEADER TRANSCRIPTION/DNA 22-FEB-11 3QSV TITLE STRUCTURAL BASIS FOR DNA RECOGNITION BY CONSTITUTIVE SMAD4 MH1 DIMERS COMPND MOL_ID: 1; COMPND 2 MOLECULE: MOTHERS AGAINST DECAPENTAPLEGIC HOMOLOG 4; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: SMAD4 MH1 DOMAIN; COMPND 5 SYNONYM: SMAD4; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(P*TP*GP*CP*AP*GP*TP*CP*TP*AP*GP*AP*CP*TP*GP*CP*A)-3'); COMPND 10 CHAIN: E, F, G, H; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: SMAD4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: DNA SYNTHETICALLY MANUFACTURED KEYWDS MH1, TRANSCRIPTION FACTOR, DNA BINDING, SIGNALING, TRANSCRIPTION-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.BABURAJENDRAN,R.JAUCH,C.T.Y.ZHEN,P.R.KOLATKAR REVDAT 2 20-MAR-24 3QSV 1 REMARK LINK REVDAT 1 22-JUN-11 3QSV 0 JRNL AUTH N.BABURAJENDRAN,R.JAUCH,C.T.Y.ZHEN,P.R.KOLATKAR JRNL TITL STRUCTURAL BASIS FOR DNA RECOGNITION BY CONSTITUTIVE SMAD4 JRNL TITL 2 MH1 DIMERS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) 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) : 2.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.89 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.140 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 22643 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1156 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 24.8915 - 5.3992 0.98 3000 155 0.1853 0.2473 REMARK 3 2 5.3992 - 4.2927 0.93 2704 159 0.1860 0.2308 REMARK 3 3 4.2927 - 3.7521 0.94 2738 138 0.1936 0.2556 REMARK 3 4 3.7521 - 3.4100 0.96 2784 153 0.2136 0.2904 REMARK 3 5 3.4100 - 3.1661 0.92 2631 142 0.2272 0.2867 REMARK 3 6 3.1661 - 2.9798 0.94 2680 137 0.2263 0.2953 REMARK 3 7 2.9798 - 2.8308 0.92 2644 150 0.2804 0.3543 REMARK 3 8 2.8308 - 2.7077 0.82 2306 122 0.3168 0.3981 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 : 0.25 REMARK 3 B_SOL : 37.96 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.420 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.670 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 68.38 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 91.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.64530 REMARK 3 B22 (A**2) : -3.53160 REMARK 3 B33 (A**2) : 1.88630 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.43970 REMARK 3 B23 (A**2) : 0.00000 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 : 0.004 5634 REMARK 3 ANGLE : 0.926 7874 REMARK 3 CHIRALITY : 0.074 875 REMARK 3 PLANARITY : 0.003 771 REMARK 3 DIHEDRAL : 20.694 2170 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 10:138) REMARK 3 ORIGIN FOR THE GROUP (A): 30.3156 6.5868 -56.7196 REMARK 3 T TENSOR REMARK 3 T11: 0.4420 T22: 0.0135 REMARK 3 T33: 0.1839 T12: -0.0552 REMARK 3 T13: 0.0052 T23: -0.0338 REMARK 3 L TENSOR REMARK 3 L11: 2.8875 L22: 1.1159 REMARK 3 L33: 5.8786 L12: 0.6222 REMARK 3 L13: -0.3477 L23: 1.1449 REMARK 3 S TENSOR REMARK 3 S11: 0.2374 S12: -0.1284 S13: -0.1677 REMARK 3 S21: 0.0543 S22: -0.1238 S23: 0.2278 REMARK 3 S31: 0.7240 S32: 0.1487 S33: -0.1008 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESID 10:138) REMARK 3 ORIGIN FOR THE GROUP (A): -21.8340 22.5045 -57.8606 REMARK 3 T TENSOR REMARK 3 T11: 0.5971 T22: 0.1210 REMARK 3 T33: 0.2266 T12: -0.0336 REMARK 3 T13: 0.0766 T23: 0.0348 REMARK 3 L TENSOR REMARK 3 L11: 2.8036 L22: 0.6941 REMARK 3 L33: 5.3294 L12: -0.0627 REMARK 3 L13: 0.1578 L23: -0.7527 REMARK 3 S TENSOR REMARK 3 S11: 0.0657 S12: -0.0428 S13: -0.1813 REMARK 3 S21: -0.0057 S22: 0.0862 S23: -0.0944 REMARK 3 S31: -0.6849 S32: -0.1651 S33: -0.1615 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESID 13:136) REMARK 3 ORIGIN FOR THE GROUP (A): -14.6684 13.1366 -15.3281 REMARK 3 T TENSOR REMARK 3 T11: 0.2970 T22: 1.3305 REMARK 3 T33: 0.2384 T12: -0.0870 REMARK 3 T13: 0.0437 T23: 0.3173 REMARK 3 L TENSOR REMARK 3 L11: 3.3046 L22: 2.3974 REMARK 3 L33: 0.7789 L12: 0.8340 REMARK 3 L13: -0.4137 L23: -1.3577 REMARK 3 S TENSOR REMARK 3 S11: -0.0386 S12: -1.3624 S13: -0.1196 REMARK 3 S21: 0.4783 S22: 0.3253 S23: 0.3828 REMARK 3 S31: -0.1200 S32: -0.5291 S33: -0.2996 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESID 12:136) REMARK 3 ORIGIN FOR THE GROUP (A): 20.8685 18.6758 -15.4351 REMARK 3 T TENSOR REMARK 3 T11: 0.4010 T22: 1.2342 REMARK 3 T33: 0.1897 T12: -0.1257 REMARK 3 T13: 0.0330 T23: -0.2476 REMARK 3 L TENSOR REMARK 3 L11: 4.4084 L22: 2.7896 REMARK 3 L33: 0.5000 L12: -1.0817 REMARK 3 L13: 0.7443 L23: 0.2928 REMARK 3 S TENSOR REMARK 3 S11: -0.0429 S12: -1.6247 S13: 0.1964 REMARK 3 S21: 0.6299 S22: 0.3127 S23: -0.0395 REMARK 3 S31: 0.1732 S32: -0.2100 S33: -0.2300 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN E AND RESID 1000:1015) REMARK 3 ORIGIN FOR THE GROUP (A): 25.6894 11.9928 -34.4068 REMARK 3 T TENSOR REMARK 3 T11: 0.1263 T22: 0.4732 REMARK 3 T33: 0.4370 T12: -0.1350 REMARK 3 T13: -0.0030 T23: -0.0729 REMARK 3 L TENSOR REMARK 3 L11: 9.6899 L22: 9.6722 REMARK 3 L33: 5.7197 L12: 8.1462 REMARK 3 L13: -0.3427 L23: 2.4429 REMARK 3 S TENSOR REMARK 3 S11: 0.0416 S12: -2.1677 S13: 0.6519 REMARK 3 S21: -0.5112 S22: -0.6745 S23: 0.5572 REMARK 3 S31: 0.2017 S32: 0.2463 S33: 0.3496 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN F AND RESID 2000:2015) REMARK 3 ORIGIN FOR THE GROUP (A): 25.8063 11.0192 -36.9435 REMARK 3 T TENSOR REMARK 3 T11: 0.4646 T22: 0.3932 REMARK 3 T33: 0.4414 T12: -0.2519 REMARK 3 T13: 0.1060 T23: -0.0858 REMARK 3 L TENSOR REMARK 3 L11: 9.8606 L22: 3.5688 REMARK 3 L33: 1.5692 L12: 2.0982 REMARK 3 L13: -1.3076 L23: 1.2745 REMARK 3 S TENSOR REMARK 3 S11: -0.6991 S12: -1.1317 S13: -1.0127 REMARK 3 S21: -0.5772 S22: 0.3252 S23: -0.5559 REMARK 3 S31: -0.1166 S32: 0.2762 S33: 0.2491 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN G AND RESID 1000:1015) REMARK 3 ORIGIN FOR THE GROUP (A): -18.5920 17.9284 -34.8264 REMARK 3 T TENSOR REMARK 3 T11: 0.3595 T22: 0.5691 REMARK 3 T33: 0.5705 T12: -0.2334 REMARK 3 T13: 0.0121 T23: 0.1922 REMARK 3 L TENSOR REMARK 3 L11: 8.4322 L22: 9.3678 REMARK 3 L33: 2.2836 L12: 7.7758 REMARK 3 L13: 0.8523 L23: 0.7008 REMARK 3 S TENSOR REMARK 3 S11: 0.2557 S12: -2.6934 S13: -0.8840 REMARK 3 S21: -0.6573 S22: -0.6551 S23: -0.4782 REMARK 3 S31: -0.1068 S32: -0.2920 S33: 0.1474 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN H AND RESID 2000:2015) REMARK 3 ORIGIN FOR THE GROUP (A): -18.6015 18.7881 -37.4529 REMARK 3 T TENSOR REMARK 3 T11: 0.4076 T22: 0.4004 REMARK 3 T33: 0.2818 T12: -0.2248 REMARK 3 T13: -0.0097 T23: 0.0781 REMARK 3 L TENSOR REMARK 3 L11: 9.9051 L22: 6.3404 REMARK 3 L33: 1.1093 L12: 4.7317 REMARK 3 L13: 1.9113 L23: 0.5610 REMARK 3 S TENSOR REMARK 3 S11: -0.8454 S12: -1.5743 S13: -0.1554 REMARK 3 S21: -0.9318 S22: 0.5279 S23: 0.2510 REMARK 3 S31: 0.0942 S32: -0.1262 S33: 0.0733 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 4 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A REMARK 3 SELECTION : CHAIN B REMARK 3 ATOM PAIRS NUMBER : 1034 REMARK 3 RMSD : 0.029 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C REMARK 3 SELECTION : CHAIN D REMARK 3 ATOM PAIRS NUMBER : 1001 REMARK 3 RMSD : 0.015 REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN E REMARK 3 SELECTION : CHAIN G REMARK 3 ATOM PAIRS NUMBER : 328 REMARK 3 RMSD : 0.034 REMARK 3 NCS GROUP : 4 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN F REMARK 3 SELECTION : CHAIN H REMARK 3 ATOM PAIRS NUMBER : 328 REMARK 3 RMSD : 0.034 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3QSV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1000064060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 8.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24301 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM MGCL2, 100MM TRIS, 30% PEG 4000, REMARK 280 10MM SPERMINE, PH 8.4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 89.17850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.67700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 89.17850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.67700 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: 3750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, E, F 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: 3760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, G, H 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 THR A 9 REMARK 465 PRO A 139 REMARK 465 GLY A 140 REMARK 465 THR B 9 REMARK 465 PRO B 139 REMARK 465 GLY B 140 REMARK 465 THR C 9 REMARK 465 PRO C 10 REMARK 465 THR C 11 REMARK 465 SER C 12 REMARK 465 VAL C 137 REMARK 465 SER C 138 REMARK 465 PRO C 139 REMARK 465 GLY C 140 REMARK 465 THR D 9 REMARK 465 PRO D 10 REMARK 465 THR D 11 REMARK 465 VAL D 137 REMARK 465 SER D 138 REMARK 465 PRO D 139 REMARK 465 GLY D 140 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 E1004 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT E1007 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES REMARK 500 DT F2007 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG F2013 C3' - O3' - P ANGL. DEV. = 8.6 DEGREES REMARK 500 DG G1004 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT G1007 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DT H2007 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DC H2011 C1' - O4' - C4' ANGL. DEV. = -6.0 DEGREES REMARK 500 DG H2013 C3' - O3' - P ANGL. DEV. = 8.5 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 SER A 12 -140.51 -104.77 REMARK 500 ASP A 14 -152.35 -112.26 REMARK 500 ARG A 100 -42.25 -138.18 REMARK 500 ASN A 107 33.42 -96.67 REMARK 500 LYS A 113 -19.75 -49.50 REMARK 500 VAL A 137 152.81 -47.69 REMARK 500 SER B 12 -140.10 -104.31 REMARK 500 ASP B 14 -152.62 -112.37 REMARK 500 ARG B 100 -41.76 -137.95 REMARK 500 ASN B 107 33.47 -96.58 REMARK 500 ARG C 100 -54.61 -132.94 REMARK 500 LEU C 109 114.70 -161.91 REMARK 500 TYR C 117 48.63 -100.44 REMARK 500 ASP C 120 4.88 -65.65 REMARK 500 LYS C 122 40.03 39.29 REMARK 500 ARG D 100 -55.30 -132.35 REMARK 500 LEU D 109 114.10 -161.42 REMARK 500 TYR D 117 47.79 -100.80 REMARK 500 ASP D 120 5.90 -65.82 REMARK 500 LYS D 122 39.78 39.06 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 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 71 SG REMARK 620 2 CYS A 115 SG 114.8 REMARK 620 3 CYS A 127 SG 128.0 104.8 REMARK 620 4 HIS A 132 ND1 94.2 101.6 109.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 71 SG REMARK 620 2 CYS B 115 SG 113.3 REMARK 620 3 CYS B 127 SG 126.2 104.8 REMARK 620 4 HIS B 132 ND1 94.0 104.1 112.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 71 SG REMARK 620 2 CYS C 115 SG 94.3 REMARK 620 3 CYS C 127 SG 98.7 111.4 REMARK 620 4 HIS C 132 ND1 109.0 108.3 128.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 4 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 71 SG REMARK 620 2 CYS D 115 SG 93.0 REMARK 620 3 CYS D 127 SG 97.4 112.8 REMARK 620 4 HIS D 132 ND1 108.3 106.3 131.4 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 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 4 DBREF 3QSV A 9 140 UNP P97471 SMAD4_MOUSE 9 140 DBREF 3QSV B 9 140 UNP P97471 SMAD4_MOUSE 9 140 DBREF 3QSV C 9 140 UNP P97471 SMAD4_MOUSE 9 140 DBREF 3QSV D 9 140 UNP P97471 SMAD4_MOUSE 9 140 DBREF 3QSV E 1000 1015 PDB 3QSV 3QSV 1000 1015 DBREF 3QSV F 2000 2015 PDB 3QSV 3QSV 2000 2015 DBREF 3QSV G 1000 1015 PDB 3QSV 3QSV 1000 1015 DBREF 3QSV H 2000 2015 PDB 3QSV 3QSV 2000 2015 SEQRES 1 A 132 THR PRO THR SER ASN ASP ALA CYS LEU SER ILE VAL HIS SEQRES 2 A 132 SER LEU MET CYS HIS ARG GLN GLY GLY GLU SER GLU THR SEQRES 3 A 132 PHE ALA LYS ARG ALA ILE GLU SER LEU VAL LYS LYS LEU SEQRES 4 A 132 LYS GLU LYS LYS ASP GLU LEU ASP SER LEU ILE THR ALA SEQRES 5 A 132 ILE THR THR ASN GLY ALA HIS PRO SER LYS CYS VAL THR SEQRES 6 A 132 ILE GLN ARG THR LEU ASP GLY ARG LEU GLN VAL ALA GLY SEQRES 7 A 132 ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA ARG LEU TRP SEQRES 8 A 132 ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU LYS HIS VAL SEQRES 9 A 132 LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS CYS ASP SER SEQRES 10 A 132 VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG VAL VAL SER SEQRES 11 A 132 PRO GLY SEQRES 1 B 132 THR PRO THR SER ASN ASP ALA CYS LEU SER ILE VAL HIS SEQRES 2 B 132 SER LEU MET CYS HIS ARG GLN GLY GLY GLU SER GLU THR SEQRES 3 B 132 PHE ALA LYS ARG ALA ILE GLU SER LEU VAL LYS LYS LEU SEQRES 4 B 132 LYS GLU LYS LYS ASP GLU LEU ASP SER LEU ILE THR ALA SEQRES 5 B 132 ILE THR THR ASN GLY ALA HIS PRO SER LYS CYS VAL THR SEQRES 6 B 132 ILE GLN ARG THR LEU ASP GLY ARG LEU GLN VAL ALA GLY SEQRES 7 B 132 ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA ARG LEU TRP SEQRES 8 B 132 ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU LYS HIS VAL SEQRES 9 B 132 LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS CYS ASP SER SEQRES 10 B 132 VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG VAL VAL SER SEQRES 11 B 132 PRO GLY SEQRES 1 C 132 THR PRO THR SER ASN ASP ALA CYS LEU SER ILE VAL HIS SEQRES 2 C 132 SER LEU MET CYS HIS ARG GLN GLY GLY GLU SER GLU THR SEQRES 3 C 132 PHE ALA LYS ARG ALA ILE GLU SER LEU VAL LYS LYS LEU SEQRES 4 C 132 LYS GLU LYS LYS ASP GLU LEU ASP SER LEU ILE THR ALA SEQRES 5 C 132 ILE THR THR ASN GLY ALA HIS PRO SER LYS CYS VAL THR SEQRES 6 C 132 ILE GLN ARG THR LEU ASP GLY ARG LEU GLN VAL ALA GLY SEQRES 7 C 132 ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA ARG LEU TRP SEQRES 8 C 132 ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU LYS HIS VAL SEQRES 9 C 132 LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS CYS ASP SER SEQRES 10 C 132 VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG VAL VAL SER SEQRES 11 C 132 PRO GLY SEQRES 1 D 132 THR PRO THR SER ASN ASP ALA CYS LEU SER ILE VAL HIS SEQRES 2 D 132 SER LEU MET CYS HIS ARG GLN GLY GLY GLU SER GLU THR SEQRES 3 D 132 PHE ALA LYS ARG ALA ILE GLU SER LEU VAL LYS LYS LEU SEQRES 4 D 132 LYS GLU LYS LYS ASP GLU LEU ASP SER LEU ILE THR ALA SEQRES 5 D 132 ILE THR THR ASN GLY ALA HIS PRO SER LYS CYS VAL THR SEQRES 6 D 132 ILE GLN ARG THR LEU ASP GLY ARG LEU GLN VAL ALA GLY SEQRES 7 D 132 ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA ARG LEU TRP SEQRES 8 D 132 ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU LYS HIS VAL SEQRES 9 D 132 LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS CYS ASP SER SEQRES 10 D 132 VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG VAL VAL SER SEQRES 11 D 132 PRO GLY SEQRES 1 E 16 DT DG DC DA DG DT DC DT DA DG DA DC DT SEQRES 2 E 16 DG DC DA SEQRES 1 F 16 DT DG DC DA DG DT DC DT DA DG DA DC DT SEQRES 2 F 16 DG DC DA SEQRES 1 G 16 DT DG DC DA DG DT DC DT DA DG DA DC DT SEQRES 2 G 16 DG DC DA SEQRES 1 H 16 DT DG DC DA DG DT DC DT DA DG DA DC DT SEQRES 2 H 16 DG DC DA HET ZN A 1 1 HET ZN B 2 1 HET ZN C 3 1 HET ZN D 4 1 HETNAM ZN ZINC ION FORMUL 9 ZN 4(ZN 2+) FORMUL 13 HOH *9(H2 O) HELIX 1 1 ALA A 15 CYS A 25 1 11 HELIX 2 2 SER A 32 LYS A 48 1 17 HELIX 3 3 LYS A 50 THR A 63 1 14 HELIX 4 4 PHE A 90 ARG A 100 1 11 HELIX 5 5 ALA A 118 LYS A 122 5 5 HELIX 6 6 ASN A 129 TYR A 131 5 3 HELIX 7 7 ALA B 15 CYS B 25 1 11 HELIX 8 8 SER B 32 LYS B 48 1 17 HELIX 9 9 LYS B 50 THR B 63 1 14 HELIX 10 10 PHE B 90 ARG B 100 1 11 HELIX 11 11 ALA B 118 LYS B 122 5 5 HELIX 12 12 ASN B 129 TYR B 131 5 3 HELIX 13 13 ASN C 13 HIS C 26 1 14 HELIX 14 14 SER C 32 LYS C 48 1 17 HELIX 15 15 LYS C 50 THR C 63 1 14 HELIX 16 16 PHE C 90 ARG C 100 1 11 HELIX 17 17 ALA C 118 LYS C 122 5 5 HELIX 18 18 ASN C 129 TYR C 131 5 3 HELIX 19 19 SER D 12 HIS D 26 1 15 HELIX 20 20 SER D 32 LYS D 48 1 17 HELIX 21 21 LYS D 50 THR D 63 1 14 HELIX 22 22 PHE D 90 ARG D 100 1 11 HELIX 23 23 ALA D 118 LYS D 122 5 5 HELIX 24 24 ASN D 129 TYR D 131 5 3 SHEET 1 A 2 THR A 73 GLN A 75 0 SHEET 2 A 2 SER A 125 CYS A 127 -1 O VAL A 126 N ILE A 74 SHEET 1 B 2 LEU A 82 VAL A 84 0 SHEET 2 B 2 ARG A 87 GLY A 89 -1 O GLY A 89 N LEU A 82 SHEET 1 C 2 LEU A 109 HIS A 111 0 SHEET 2 C 2 TYR A 133 ARG A 135 -1 O GLU A 134 N LYS A 110 SHEET 1 D 2 THR B 73 GLN B 75 0 SHEET 2 D 2 SER B 125 CYS B 127 -1 O VAL B 126 N ILE B 74 SHEET 1 E 2 LEU B 82 VAL B 84 0 SHEET 2 E 2 ARG B 87 GLY B 89 -1 O GLY B 89 N LEU B 82 SHEET 1 F 2 LEU B 109 HIS B 111 0 SHEET 2 F 2 TYR B 133 ARG B 135 -1 O GLU B 134 N LYS B 110 SHEET 1 G 2 THR C 73 GLN C 75 0 SHEET 2 G 2 SER C 125 CYS C 127 -1 O VAL C 126 N ILE C 74 SHEET 1 H 2 LYS C 110 HIS C 111 0 SHEET 2 H 2 TYR C 133 GLU C 134 -1 O GLU C 134 N LYS C 110 SHEET 1 I 2 THR D 73 GLN D 75 0 SHEET 2 I 2 SER D 125 CYS D 127 -1 O VAL D 126 N ILE D 74 SHEET 1 J 2 LYS D 110 HIS D 111 0 SHEET 2 J 2 TYR D 133 GLU D 134 -1 O GLU D 134 N LYS D 110 LINK ZN ZN A 1 SG CYS A 71 1555 1555 2.25 LINK ZN ZN A 1 SG CYS A 115 1555 1555 2.15 LINK ZN ZN A 1 SG CYS A 127 1555 1555 2.41 LINK ZN ZN A 1 ND1 HIS A 132 1555 1555 2.22 LINK ZN ZN B 2 SG CYS B 71 1555 1555 2.31 LINK ZN ZN B 2 SG CYS B 115 1555 1555 2.16 LINK ZN ZN B 2 SG CYS B 127 1555 1555 2.41 LINK ZN ZN B 2 ND1 HIS B 132 1555 1555 2.14 LINK ZN ZN C 3 SG CYS C 71 1555 1555 2.50 LINK ZN ZN C 3 SG CYS C 115 1555 1555 2.41 LINK ZN ZN C 3 SG CYS C 127 1555 1555 2.49 LINK ZN ZN C 3 ND1 HIS C 132 1555 1555 2.37 LINK ZN ZN D 4 SG CYS D 71 1555 1555 2.54 LINK ZN ZN D 4 SG CYS D 115 1555 1555 2.43 LINK ZN ZN D 4 SG CYS D 127 1555 1555 2.44 LINK ZN ZN D 4 ND1 HIS D 132 1555 1555 2.36 SITE 1 AC1 4 CYS A 71 CYS A 115 CYS A 127 HIS A 132 SITE 1 AC2 4 CYS B 71 CYS B 115 CYS B 127 HIS B 132 SITE 1 AC3 4 CYS C 71 CYS C 115 CYS C 127 HIS C 132 SITE 1 AC4 4 CYS D 71 CYS D 115 CYS D 127 HIS D 132 CRYST1 178.357 35.354 139.544 90.00 93.83 90.00 C 1 2 1 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 0.005607 0.000000 0.000375 0.00000 SCALE2 0.000000 0.028285 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007182 0.00000