HEADER UNKNOWN FUNCTION 21-NOV-05 2F3L TITLE CRYSTAL STRUCTURE OF A LUMENAL RFR-DOMAIN PROTEIN TITLE 2 (CONTIG83.1_1_243_746) FROM CYANOTHECE SP. 51142 AT 2.1 ANGSTROM TITLE 3 RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: RFR-DOMAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FULL-LENGTH RFR-DOMAIN PROTEIN MINUS N-TERMINAL 29 RESIDUES COMPND 5 PREDICTED TO BE A SIGNAL PEPTIDE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYANOTHECE SP. ATCC 51142; SOURCE 3 ORGANISM_TAXID: 43989; SOURCE 4 STRAIN: BH68; SOURCE 5 ATCC: 51142; SOURCE 6 GENE: RFR-DOMAIN PROTEIN; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: ROSETTA DE3 PLYSS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS BETA HELIX, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR M.A.KENNEDY,S.NI,G.W.BUCHKO,H.ROBINSON REVDAT 3 13-NOV-24 2F3L 1 LINK REVDAT 2 24-FEB-09 2F3L 1 VERSN REVDAT 1 07-NOV-06 2F3L 0 JRNL AUTH G.W.BUCHKO,S.NI,H.ROBINSON,E.A.WELSH,H.B.PAKRASI,M.A.KENNEDY JRNL TITL CHARACTERIZATION OF TWO POTENTIALLY UNIVERSAL TURN MOTIFS JRNL TITL 2 THAT SHAPE THE REPEATED FIVE-RESIDUES FOLD-CRYSTAL STRUCTURE JRNL TITL 3 OF A LUMENAL PENTAPEPTIDE REPEAT PROTEIN FROM CYANOTHECE JRNL TITL 4 51142. JRNL REF PROTEIN SCI. V. 15 2579 2006 JRNL REFN ISSN 0961-8368 JRNL PMID 17075135 JRNL DOI 10.1110/PS.062407506 REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 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) (%) : 85.1 REMARK 3 NUMBER OF REFLECTIONS : 9549 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : RANDOM REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 485 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 : 988 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 25 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) : -8.31100 REMARK 3 B22 (A**2) : -8.31100 REMARK 3 B33 (A**2) : 16.62100 REMARK 3 B12 (A**2) : -2.32800 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) : 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) : 1.003 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 2F3L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035409. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-05; 17-OCT-05 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : NSLS; NSLS REMARK 200 BEAMLINE : X29A; X29A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979; 1.1 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL; SI 111 CHANNEL REMARK 200 OPTICS : ROSENBAUM-ROCK DOUBLE CRYSTAL REMARK 200 SAGITTAL FOCUSING MONOCHROMETER REMARK 200 AND VERTICAL FOCUSING MIRROR; REMARK 200 ROSENBAUM-ROCK DOUBLE CRYSTAL REMARK 200 SAGITTAL FOCUSING MONOCHROMETER REMARK 200 AND VERTICAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9861 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.110 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : 0.07600 REMARK 200 FOR THE DATA SET : 25.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.11 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 57.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.21800 REMARK 200 R SYM FOR SHELL (I) : 0.21800 REMARK 200 FOR SHELL : 3.560 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 1500, 50 MM SODIUM CHLORIDE, REMARK 280 10 MM TRIS, PH 7.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 55.80533 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 27.90267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.90267 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 55.80533 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 MSE A -44 REMARK 465 HIS A -43 REMARK 465 HIS A -42 REMARK 465 HIS A -41 REMARK 465 HIS A -40 REMARK 465 HIS A -39 REMARK 465 HIS A -38 REMARK 465 SER A -37 REMARK 465 SER A -36 REMARK 465 GLY A -35 REMARK 465 LEU A -34 REMARK 465 VAL A -33 REMARK 465 PRO A -32 REMARK 465 ARG A -31 REMARK 465 GLY A -30 REMARK 465 SER A -29 REMARK 465 GLY A -28 REMARK 465 MSE A -27 REMARK 465 LYS A -26 REMARK 465 GLU A -25 REMARK 465 THR A -24 REMARK 465 ALA A -23 REMARK 465 ALA A -22 REMARK 465 LYS A -21 REMARK 465 PHE A -20 REMARK 465 GLU A -19 REMARK 465 ARG A -18 REMARK 465 GLN A -17 REMARK 465 HIS A -16 REMARK 465 MSE A -15 REMARK 465 ASP A -14 REMARK 465 SER A -13 REMARK 465 PRO A -12 REMARK 465 ASP A -11 REMARK 465 LEU A -10 REMARK 465 GLY A -9 REMARK 465 THR A -8 REMARK 465 ASP A -7 REMARK 465 ASP A -6 REMARK 465 ASP A -5 REMARK 465 ASP A -4 REMARK 465 LYS A -3 REMARK 465 ALA A -2 REMARK 465 MSE A -1 REMARK 465 ALA A 0 REMARK 465 MSE A 1 REMARK 465 VAL A 2 REMARK 465 THR A 3 REMARK 465 GLY A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 GLN A 139 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 LEU A 14 69.36 -113.13 REMARK 500 TYR A 26 14.34 58.87 REMARK 500 ASP A 36 19.32 56.38 REMARK 500 LEU A 54 53.22 -106.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 NO SUITABLE SEQUENCE DATABASE REFERENCE WAS AVAILABLE REMARK 999 AT THE TIME OF PROCESSING THIS FILE. DBREF 2F3L A -44 139 PDB 2F3L 2F3L -44 139 SEQRES 1 A 184 MSE HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO SEQRES 2 A 184 ARG GLY SER GLY MSE LYS GLU THR ALA ALA LYS PHE GLU SEQRES 3 A 184 ARG GLN HIS MSE ASP SER PRO ASP LEU GLY THR ASP ASP SEQRES 4 A 184 ASP ASP LYS ALA MSE ALA MSE VAL THR GLY SER SER ALA SEQRES 5 A 184 SER TYR GLU ASP VAL LYS LEU ILE GLY GLU ASP PHE SER SEQRES 6 A 184 GLY LYS SER LEU THR TYR ALA GLN PHE THR ASN ALA ASP SEQRES 7 A 184 LEU THR ASP SER ASN PHE SER GLU ALA ASP LEU ARG GLY SEQRES 8 A 184 ALA VAL PHE ASN GLY SER ALA LEU ILE GLY ALA ASP LEU SEQRES 9 A 184 HIS GLY ALA ASP LEU THR ASN GLY LEU ALA TYR LEU THR SEQRES 10 A 184 SER PHE LYS GLY ALA ASP LEU THR ASN ALA VAL LEU THR SEQRES 11 A 184 GLU ALA ILE MSE MSE ARG THR LYS PHE ASP ASP ALA LYS SEQRES 12 A 184 ILE THR GLY ALA ASP PHE SER LEU ALA VAL LEU ASP VAL SEQRES 13 A 184 TYR GLU VAL ASP LYS LEU CYS ASP ARG ALA ASP GLY VAL SEQRES 14 A 184 ASN PRO LYS THR GLY VAL SER THR ARG GLU SER LEU ARG SEQRES 15 A 184 CYS GLN MODRES 2F3L MSE A 89 MET SELENOMETHIONINE MODRES 2F3L MSE A 90 MET SELENOMETHIONINE HET MSE A 89 8 HET MSE A 90 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 2 HOH *25(H2 O) HELIX 1 1 ASP A 110 ASP A 119 1 10 HELIX 2 2 SER A 131 LEU A 136 1 6 SHEET 1 A 6 SER A 8 GLU A 10 0 SHEET 2 A 6 GLN A 28 THR A 30 1 O GLN A 28 N TYR A 9 SHEET 3 A 6 VAL A 48 ASN A 50 1 O VAL A 48 N PHE A 29 SHEET 4 A 6 LEU A 68 SER A 73 1 O LEU A 68 N PHE A 49 SHEET 5 A 6 ILE A 88 LYS A 93 1 O ILE A 88 N ALA A 69 SHEET 6 A 6 VAL A 108 LEU A 109 1 O VAL A 108 N MSE A 89 SSBOND 1 CYS A 118 CYS A 138 1555 1555 2.03 LINK C ILE A 88 N MSE A 89 1555 1555 1.33 LINK C MSE A 89 N MSE A 90 1555 1555 1.33 LINK C MSE A 90 N ARG A 91 1555 1555 1.33 CRYST1 61.754 61.754 83.708 90.00 90.00 120.00 P 32 2 1 6 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 0.016193 0.009349 0.000000 0.00000 SCALE2 0.000000 0.018698 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011946 0.00000