HEADER DE NOVO PROTEIN 23-SEP-12 4H8M TITLE CRYSTAL STRUCTURE OF A PARALLEL 6-HELIX COILED COIL CC-HEX-H24-A5/7C COMPND MOL_ID: 1; COMPND 2 MOLECULE: CC-HEX-H24-A5/7C; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: STANDARD F-MOC SOLID PHASE PEPTIDE SYNTHESIS KEYWDS CC-HEX, 6-STRANDED COILED COIL, PARALLEL, DISULFIDE BONDS,N-TERMINAL KEYWDS 2 ACETYLATION, C-TERMINAL AMIDATION, DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.CHI,N.R.ZACCAI,R.L.BRADY,D.N.WOOLFSON REVDAT 1 05-FEB-14 4H8M 0 JRNL AUTH B.CHI,N.R.ZACCAI,R.L.BRADY,D.N.WOOLFSON JRNL TITL TBD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 8799 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) : 0.197 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.780 REMARK 3 FREE R VALUE TEST SET COUNT : 421 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 44.0342 - 2.0613 0.99 2922 144 0.1958 0.1935 REMARK 3 2 2.0613 - 1.6361 0.97 2836 122 0.1919 0.2310 REMARK 3 3 1.6361 - 1.4292 0.90 2620 155 0.2143 0.2145 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.61 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 47.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.600 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) : 0.10910 REMARK 3 B22 (A**2) : 0.10910 REMARK 3 B33 (A**2) : -0.21810 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 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 : 0.002 473 REMARK 3 ANGLE : 0.573 632 REMARK 3 CHIRALITY : 0.048 71 REMARK 3 PLANARITY : 0.002 76 REMARK 3 DIHEDRAL : 11.683 178 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4H8M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-SEP-12. REMARK 100 THE RCSB ID CODE IS RCSB075156. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9078 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.429 REMARK 200 RESOLUTION RANGE LOW (A) : 44.013 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 3R46 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM SODIUM FLUORIDE, 30 MM SODIUM REMARK 280 BROMIDE, 30 MM SODIUM IODIDE, 50 MM SODIUM HEPES, 50 MM MOPS REMARK 280 (ACID) PH 7.5, 20 % PEG-MME 550 AND 10 % PEG 20K, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 15.85000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 9.15100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 44.01333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 15.85000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 9.15100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 44.01333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 15.85000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 9.15100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.01333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 18.30200 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 88.02667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 18.30200 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 88.02667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 18.30200 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 88.02667 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: DISULFIDE-BRIDGED PARALLEL HEXAMERIC COILED COIL IN REDOX REMARK 300 CONDITIONS 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 119 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 120 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 121 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 122 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 127 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 119 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 120 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 124 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 123 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 ACE A 0 REMARK 465 ACE B 0 REMARK 465 GLN B 29 REMARK 465 GLY B 30 REMARK 465 NH2 B 31 REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 120 DISTANCE = 7.34 ANGSTROMS REMARK 525 HOH A 121 DISTANCE = 7.14 ANGSTROMS REMARK 525 HOH A 127 DISTANCE = 7.27 ANGSTROMS REMARK 525 HOH B 119 DISTANCE = 7.80 ANGSTROMS REMARK 525 HOH B 120 DISTANCE = 8.13 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R3K RELATED DB: PDB REMARK 900 RELATED ID: 3R4A RELATED DB: PDB REMARK 900 RELATED ID: 4H7R RELATED DB: PDB REMARK 900 RELATED ID: 4H8F RELATED DB: PDB REMARK 900 RELATED ID: 4H8G RELATED DB: PDB REMARK 900 RELATED ID: 4H8L RELATED DB: PDB REMARK 900 RELATED ID: 4H8O RELATED DB: PDB DBREF 4H8M A 0 31 PDB 4H8M 4H8M 0 31 DBREF 4H8M B 0 31 PDB 4H8M 4H8M 0 31 SEQRES 1 A 32 ACE GLY GLU LEU LYS CYS ILE CYS GLN GLU LEU LYS ALA SEQRES 2 A 32 ILE ALA LYS GLU LEU LYS ALA ILE ALA TRP GLU HIS LYS SEQRES 3 A 32 ALA ILE ALA GLN GLY NH2 SEQRES 1 B 32 ACE GLY GLU LEU LYS CYS ILE CYS GLN GLU LEU LYS ALA SEQRES 2 B 32 ILE ALA LYS GLU LEU LYS ALA ILE ALA TRP GLU HIS LYS SEQRES 3 B 32 ALA ILE ALA GLN GLY NH2 HET NH2 A 31 1 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N FORMUL 3 HOH *56(H2 O) HELIX 1 1 GLY A 1 GLN A 29 1 29 HELIX 2 2 GLU B 2 ALA B 26 1 25 SSBOND 1 CYS A 5 CYS B 7 1555 2555 2.03 SSBOND 2 CYS A 7 CYS B 5 1555 1555 2.03 LINK C GLY A 30 N NH2 A 31 1555 1555 1.33 CRYST1 31.700 31.700 132.040 90.00 90.00 120.00 H 3 18 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 0.031546 0.018213 0.000000 0.00000 SCALE2 0.000000 0.036426 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007573 0.00000 MASTER 279 0 1 2 0 0 0 6 0 0 0 6 END