HEADER TRANSCRIPTION 16-NOV-16 5MF0 TITLE CRYSTAL STRUCTURE OF SMAD4-MH1 BOUND TO THE GGCCG SITE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MH1 DOMAIN OF HUMAN SMAD4; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MOTHERS AGAINST DPP HOMOLOG 4,DELETION TARGET IN PANCREATIC COMPND 5 CARCINOMA 4,SMAD FAMILY MEMBER 4,HSMAD4; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(P*AP*CP*GP*GP*GP*CP*CP*GP*CP*GP*GP*CP*CP*CP*GP*T)-3'); COMPND 10 CHAIN: E, F; COMPND 11 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: SMAD4, DPC4, MADH4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS SMADS, TRANSCRIPTION FACTOR, DNA COMPLEX, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR Z.KACZMARSKA,R.FREIER,J.A.MARQUEZ,M.J.MACIAS REVDAT 3 17-JAN-24 5MF0 1 REMARK REVDAT 2 27-DEC-17 5MF0 1 JRNL REVDAT 1 15-NOV-17 5MF0 0 JRNL AUTH P.MARTIN-MALPARTIDA,M.BATET,Z.KACZMARSKA,R.FREIER,T.GOMES, JRNL AUTH 2 E.ARAGON,Y.ZOU,Q.WANG,Q.XI,L.RUIZ,A.VEA,J.A.MARQUEZ, JRNL AUTH 3 J.MASSAGUE,M.J.MACIAS JRNL TITL STRUCTURAL BASIS FOR GENOME WIDE RECOGNITION OF 5-BP GC JRNL TITL 2 MOTIFS BY SMAD TRANSCRIPTION FACTORS. JRNL REF NAT COMMUN V. 8 2070 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 29234012 JRNL DOI 10.1038/S41467-017-02054-6 REMARK 2 REMARK 2 RESOLUTION. 3.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 9289 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.231 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.650 REMARK 3 FREE R VALUE TEST SET COUNT : 432 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.03 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.92 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2603 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3150 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2470 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE : 0.3840 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.11 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 133 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1940 REMARK 3 NUCLEIC ACID ATOMS : 656 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 4 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 97.46 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.87490 REMARK 3 B22 (A**2) : 2.87490 REMARK 3 B33 (A**2) : -5.74970 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.480 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.425 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.891 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2718 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3821 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 835 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 39 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 328 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2718 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 354 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 2775 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.20 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 23.79 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 15.0102 132.6130 48.2530 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 31.4844 116.4490 61.7762 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { E|* } REMARK 3 ORIGIN FOR THE GROUP (A): 22.2016 154.2320 37.9675 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { F|* } REMARK 3 ORIGIN FOR THE GROUP (A): 22.8261 152.5570 39.9363 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MF0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002374. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-SEP-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9289 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.030 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.760 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: 3QSV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG MME 2000 AND 0.1 M SODIUM REMARK 280 ACETATE PH 5.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 22.89000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.33500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 11.44500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 -101.52000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 203.04000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -34.33500 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 6 REMARK 465 ALA A 7 REMARK 465 MET A 8 REMARK 465 GLY A 9 REMARK 465 PRO A 10 REMARK 465 THR A 11 REMARK 465 SER A 12 REMARK 465 ASN A 13 REMARK 465 ASP A 14 REMARK 465 ALA A 15 REMARK 465 PRO A 139 REMARK 465 GLY A 140 REMARK 465 GLY B 6 REMARK 465 ALA B 7 REMARK 465 MET B 8 REMARK 465 GLY B 9 REMARK 465 PRO B 10 REMARK 465 THR B 11 REMARK 465 SER B 12 REMARK 465 ASN B 13 REMARK 465 PRO B 139 REMARK 465 GLY B 140 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 45 CG CD CE NZ REMARK 470 LYS A 48 CG CD CE NZ REMARK 470 GLU A 49 CG CD OE1 OE2 REMARK 470 LYS A 51 CG CD CE NZ REMARK 470 LYS A 106 CG CD CE NZ REMARK 470 LYS A 110 CG CD CE NZ REMARK 470 LYS A 113 CG CD CE NZ REMARK 470 LYS A 122 CG CD CE NZ REMARK 470 ASP B 14 CG OD1 OD2 REMARK 470 LYS B 45 CG CD CE NZ REMARK 470 LYS B 51 CG CD CE NZ REMARK 470 LYS B 106 CG CD CE NZ REMARK 470 LYS B 110 CG CD CE NZ REMARK 470 LYS B 113 CG CD CE NZ REMARK 470 LYS B 122 CG CD CE NZ 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 ARG A 97 CG - CD - NE ANGL. DEV. = 12.9 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 ARG A 100 -55.03 -125.63 REMARK 500 LYS A 106 -128.73 45.05 REMARK 500 LYS B 50 67.58 -119.96 REMARK 500 ARG B 100 -54.98 -125.48 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 71 SG REMARK 620 2 CYS A 115 SG 109.6 REMARK 620 3 CYS A 127 SG 112.6 110.9 REMARK 620 4 HIS A 132 ND1 102.5 107.1 113.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 71 SG REMARK 620 2 CYS B 115 SG 113.6 REMARK 620 3 CYS B 127 SG 117.3 112.0 REMARK 620 4 HIS B 132 ND1 100.2 102.7 109.2 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 202 DBREF 5MF0 A 10 140 UNP Q13485 SMAD4_HUMAN 10 140 DBREF 5MF0 B 10 140 UNP Q13485 SMAD4_HUMAN 10 140 DBREF 5MF0 E 1 16 PDB 5MF0 5MF0 1 16 DBREF 5MF0 F 1 16 PDB 5MF0 5MF0 1 16 SEQADV 5MF0 GLY A 6 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 ALA A 7 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 MET A 8 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 GLY A 9 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 GLY B 6 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 ALA B 7 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 MET B 8 UNP Q13485 EXPRESSION TAG SEQADV 5MF0 GLY B 9 UNP Q13485 EXPRESSION TAG SEQRES 1 A 135 GLY ALA MET GLY PRO THR SER ASN ASP ALA CYS LEU SER SEQRES 2 A 135 ILE VAL HIS SER LEU MET CYS HIS ARG GLN GLY GLY GLU SEQRES 3 A 135 SER GLU THR PHE ALA LYS ARG ALA ILE GLU SER LEU VAL SEQRES 4 A 135 LYS LYS LEU LYS GLU LYS LYS ASP GLU LEU ASP SER LEU SEQRES 5 A 135 ILE THR ALA ILE THR THR ASN GLY ALA HIS PRO SER LYS SEQRES 6 A 135 CYS VAL THR ILE GLN ARG THR LEU ASP GLY ARG LEU GLN SEQRES 7 A 135 VAL ALA GLY ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA SEQRES 8 A 135 ARG LEU TRP ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU SEQRES 9 A 135 LYS HIS VAL LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS SEQRES 10 A 135 CYS ASP SER VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG SEQRES 11 A 135 VAL VAL SER PRO GLY SEQRES 1 B 135 GLY ALA MET GLY PRO THR SER ASN ASP ALA CYS LEU SER SEQRES 2 B 135 ILE VAL HIS SER LEU MET CYS HIS ARG GLN GLY GLY GLU SEQRES 3 B 135 SER GLU THR PHE ALA LYS ARG ALA ILE GLU SER LEU VAL SEQRES 4 B 135 LYS LYS LEU LYS GLU LYS LYS ASP GLU LEU ASP SER LEU SEQRES 5 B 135 ILE THR ALA ILE THR THR ASN GLY ALA HIS PRO SER LYS SEQRES 6 B 135 CYS VAL THR ILE GLN ARG THR LEU ASP GLY ARG LEU GLN SEQRES 7 B 135 VAL ALA GLY ARG LYS GLY PHE PRO HIS VAL ILE TYR ALA SEQRES 8 B 135 ARG LEU TRP ARG TRP PRO ASP LEU HIS LYS ASN GLU LEU SEQRES 9 B 135 LYS HIS VAL LYS TYR CYS GLN TYR ALA PHE ASP LEU LYS SEQRES 10 B 135 CYS ASP SER VAL CYS VAL ASN PRO TYR HIS TYR GLU ARG SEQRES 11 B 135 VAL VAL SER PRO GLY SEQRES 1 E 16 DA DC DG DG DG DC DC DG DC DG DG DC DC SEQRES 2 E 16 DC DG DT SEQRES 1 F 16 DA DC DG DG DG DC DC DG DC DG DG DC DC SEQRES 2 F 16 DC DG DT HET ZN A 201 1 HET CL A 202 1 HET ZN B 201 1 HET CL B 202 1 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CL 2(CL 1-) FORMUL 9 HOH *4(H2 O) HELIX 1 AA1 CYS A 16 CYS A 25 1 10 HELIX 2 AA2 SER A 32 LEU A 47 1 16 HELIX 3 AA3 LYS A 50 THR A 63 1 14 HELIX 4 AA4 PHE A 90 ARG A 100 1 11 HELIX 5 AA5 ALA A 118 LYS A 122 5 5 HELIX 6 AA6 ASN A 129 TYR A 131 5 3 HELIX 7 AA7 ALA B 15 CYS B 25 1 11 HELIX 8 AA8 SER B 32 LEU B 47 1 16 HELIX 9 AA9 LYS B 50 THR B 63 1 14 HELIX 10 AB1 PHE B 90 ARG B 100 1 11 HELIX 11 AB2 ALA B 118 LYS B 122 5 5 HELIX 12 AB3 ASN B 129 TYR B 131 5 3 SHEET 1 AA1 2 THR A 73 GLN A 75 0 SHEET 2 AA1 2 SER A 125 CYS A 127 -1 O VAL A 126 N ILE A 74 SHEET 1 AA2 2 LEU A 82 VAL A 84 0 SHEET 2 AA2 2 ARG A 87 GLY A 89 -1 O GLY A 89 N LEU A 82 SHEET 1 AA3 2 LEU A 109 HIS A 111 0 SHEET 2 AA3 2 TYR A 133 ARG A 135 -1 O GLU A 134 N LYS A 110 SHEET 1 AA4 2 THR B 73 GLN B 75 0 SHEET 2 AA4 2 SER B 125 CYS B 127 -1 O VAL B 126 N ILE B 74 SHEET 1 AA5 2 LEU B 82 VAL B 84 0 SHEET 2 AA5 2 ARG B 87 GLY B 89 -1 O GLY B 89 N LEU B 82 SHEET 1 AA6 2 LEU B 109 HIS B 111 0 SHEET 2 AA6 2 TYR B 133 ARG B 135 -1 O GLU B 134 N LYS B 110 LINK SG CYS A 71 ZN ZN A 201 1555 1555 2.54 LINK SG CYS A 115 ZN ZN A 201 1555 1555 2.39 LINK SG CYS A 127 ZN ZN A 201 1555 1555 2.29 LINK ND1 HIS A 132 ZN ZN A 201 1555 1555 2.00 LINK SG CYS B 71 ZN ZN B 201 1555 1555 2.44 LINK SG CYS B 115 ZN ZN B 201 1555 1555 2.38 LINK SG CYS B 127 ZN ZN B 201 1555 1555 2.24 LINK ND1 HIS B 132 ZN ZN B 201 1555 1555 2.16 SITE 1 AC1 4 CYS A 71 CYS A 115 CYS A 127 HIS A 132 SITE 1 AC2 3 HIS A 111 ASP A 120 TYR A 133 SITE 1 AC3 4 CYS B 71 CYS B 115 CYS B 127 HIS B 132 SITE 1 AC4 3 HIS B 111 ASP B 120 TYR B 133 CRYST1 101.520 101.520 45.780 90.00 90.00 90.00 P 43 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 0.009850 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009850 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021844 0.00000