HEADER TRANSCRIPTION/DNA 28-JUL-95 1SRS TITLE SERUM RESPONSE FACTOR (SRF) CORE COMPLEXED WITH SPECIFIC TITLE 2 SRE DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*CP*(5IU) COMPND 3 P*TP*CP*CP*TP*AP*AP*TP*TP*AP*GP*GP*CP*CP*AP*TP*G)-3'); COMPND 4 CHAIN: W; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*CP*CP*AP*TP*GP*GP*CP*CP*TP*AP*AP*TP*TP*AP*GP*GP*A COMPND 9 P*AP*G)-3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: PROTEIN (SERUM RESPONSE FACTOR (SRF)); COMPND 14 CHAIN: A, B; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: SRF CORE (RESIDUES 132-223); SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 14 EXPRESSION_SYSTEM_GENE: SRF CORE (RESIDUES 132-223) KEYWDS TRANSCRIPTION REGULATION, MADS-DOMAIN, COMPLEX (DNA BINDING KEYWDS 2 PROTEIN/DNA), TRANSCRIPTION/DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.PELLEGRINI,S.TAN,T.J.RICHMOND REVDAT 2 24-FEB-09 1SRS 1 VERSN REVDAT 1 28-JUL-95 1SRS 0 JRNL AUTH L.PELLEGRINI,S.TAN,T.J.RICHMOND JRNL TITL STRUCTURE OF SERUM RESPONSE FACTOR CORE BOUND TO JRNL TITL 2 DNA. JRNL REF NATURE V. 376 490 1995 JRNL REFN ISSN 0028-0836 JRNL PMID 7637780 JRNL DOI 10.1038/376490A0 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 7162 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1304 REMARK 3 NUCLEIC ACID ATOMS : 769 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 0 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 0.90 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 35.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.87 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; 1.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; 2.000 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1SRS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 277.00 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7629 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.50, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293.00K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 38.44000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.42000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.42000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.66000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.42000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.42000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 19.22000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.42000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.42000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.66000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.42000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.42000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 19.22000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 38.44000 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 300 REMARK: REMARK 300 THERE IS ONE COMPLEX PER ASYMMETRIC UNIT CONSISTING OF TWO REMARK 300 IDENTICAL POLYPEPTIDE CHAINS LABELLED *A* AND *B* AND TWO REMARK 300 DNA CHAINS LABELLED *W* AND *C*. 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 APPLY THE FOLLOWING TO CHAINS: W, C, A, B 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 SER A 132 REMARK 465 GLY A 133 REMARK 465 ALA A 134 REMARK 465 LYS A 135 REMARK 465 PRO A 136 REMARK 465 GLY A 137 REMARK 465 LYS A 138 REMARK 465 LYS A 139 REMARK 465 SER B 132 REMARK 465 GLY B 133 REMARK 465 ALA B 134 REMARK 465 LYS B 135 REMARK 465 PRO B 136 REMARK 465 GLY B 137 REMARK 465 LYS B 138 REMARK 465 LYS B 139 REMARK 465 ASN B 220 REMARK 465 SER B 221 REMARK 465 PRO B 222 REMARK 465 ASP B 223 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 MET A 148 96.83 -60.10 REMARK 500 LYS B 145 97.65 -69.47 REMARK 500 MET B 148 95.47 -61.66 REMARK 500 ARG B 200 -70.53 -32.85 REMARK 500 REMARK 500 REMARK: NULL DBREF 1SRS A 132 223 UNP P11831 SRF_HUMAN 87 178 DBREF 1SRS B 132 223 UNP P11831 SRF_HUMAN 87 178 DBREF 1SRS W -9 10 PDB 1SRS 1SRS -9 10 DBREF 1SRS C 11 -8 PDB 1SRS 1SRS 11 -8 SEQRES 1 W 19 DC DC 5IU DT DC DC DT DA DA DT DT DA DG SEQRES 2 W 19 DG DC DC DA DT DG SEQRES 1 C 19 DC DC DA DT DG DG DC DC DT DA DA DT DT SEQRES 2 C 19 DA DG DG DA DA DG SEQRES 1 A 92 SER GLY ALA LYS PRO GLY LYS LYS THR ARG GLY ARG VAL SEQRES 2 A 92 LYS ILE LYS MET GLU PHE ILE ASP ASN LYS LEU ARG ARG SEQRES 3 A 92 TYR THR THR PHE SER LYS ARG LYS THR GLY ILE MET LYS SEQRES 4 A 92 LYS ALA TYR GLU LEU SER THR LEU THR GLY THR GLN VAL SEQRES 5 A 92 LEU LEU LEU VAL ALA SER GLU THR GLY HIS VAL TYR THR SEQRES 6 A 92 PHE ALA THR ARG LYS LEU GLN PRO MET ILE THR SER GLU SEQRES 7 A 92 THR GLY LYS ALA LEU ILE GLN THR CYS LEU ASN SER PRO SEQRES 8 A 92 ASP SEQRES 1 B 92 SER GLY ALA LYS PRO GLY LYS LYS THR ARG GLY ARG VAL SEQRES 2 B 92 LYS ILE LYS MET GLU PHE ILE ASP ASN LYS LEU ARG ARG SEQRES 3 B 92 TYR THR THR PHE SER LYS ARG LYS THR GLY ILE MET LYS SEQRES 4 B 92 LYS ALA TYR GLU LEU SER THR LEU THR GLY THR GLN VAL SEQRES 5 B 92 LEU LEU LEU VAL ALA SER GLU THR GLY HIS VAL TYR THR SEQRES 6 B 92 PHE ALA THR ARG LYS LEU GLN PRO MET ILE THR SER GLU SEQRES 7 B 92 THR GLY LYS ALA LEU ILE GLN THR CYS LEU ASN SER PRO SEQRES 8 B 92 ASP MODRES 1SRS 5IU W -7 DU 5-IODO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE HET 5IU W -7 20 HETNAM 5IU 5-IODO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE FORMUL 1 5IU C9 H12 I N2 O8 P HELIX 1 1 ASN A 153 THR A 179 1 27 HELIX 2 2 GLU A 209 LEU A 219 1 11 HELIX 3 3 ASN B 153 THR B 179 1 27 HELIX 4 4 GLU B 209 LEU B 219 1 11 SHEET 1 A 4 VAL A 194 ALA A 198 0 SHEET 2 A 4 GLN A 182 ALA A 188 -1 N VAL A 187 O TYR A 195 SHEET 3 A 4 GLN B 182 ALA B 188 -1 N ALA B 188 O GLN A 182 SHEET 4 A 4 VAL B 194 ALA B 198 -1 N PHE B 197 O LEU B 185 LINK O3' 5IU W -7 P DT W -6 1555 1555 1.60 LINK O3' DC W -8 P 5IU W -7 1555 1555 1.60 CRYST1 106.840 106.840 76.880 90.00 90.00 90.00 P 43 21 2 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 0.009360 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009360 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013007 0.00000 MASTER 267 0 1 4 4 0 0 6 0 0 0 20 END