HEADER SIGNALING PROTEIN 23-MAY-01 1J8Y TITLE SIGNAL RECOGNITION PARTICLE CONSERVED GTPASE DOMAIN FROM A. AMBIVALENS TITLE 2 T112A MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION 54 KDA PROTEIN; COMPND 3 CHAIN: F; COMPND 4 FRAGMENT: G-DOMAIN, GTPASE DOMAIN; COMPND 5 SYNONYM: SRP54; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACIDIANUS AMBIVALENS; SOURCE 3 ORGANISM_TAXID: 2283; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET16 KEYWDS SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.MONTOYA,K.TE KAAT,R.MOLL,G.SCHAERFER,I.SINNING REVDAT 5 07-FEB-24 1J8Y 1 REMARK REVDAT 4 27-OCT-21 1J8Y 1 SEQADV REVDAT 3 24-FEB-09 1J8Y 1 VERSN REVDAT 2 01-APR-03 1J8Y 1 JRNL REVDAT 1 13-JUN-01 1J8Y 0 JRNL AUTH G.MONTOYA,K.KAAT,R.MOLL,G.SCHAFER,I.SINNING JRNL TITL THE CRYSTAL STRUCTURE OF THE CONSERVED GTPASE OF SRP54 FROM JRNL TITL 2 THE ARCHAEON ACIDIANUS AMBIVALENS AND ITS COMPARISON WITH JRNL TITL 3 RELATED STRUCTURES SUGGESTS A MODEL FOR THE SRP-SRP RECEPTOR JRNL TITL 4 COMPLEX. JRNL REF STRUCTURE FOLD.DES. V. 8 515 2000 JRNL REFN ISSN 0969-2126 JRNL PMID 10801496 JRNL DOI 10.1016/S0969-2126(00)00131-3 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.MONTOYA,K.TE KAAT,R.MOLL,G.SCHAFER,I.SINNING REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY DIFFRACTION STUDIES ON REMARK 1 TITL 2 THE CONSERVED GTPASE DOMAIN OF THE SIGNAL RECOGNITION REMARK 1 TITL 3 PARTICLE FROM ACIDIANUS AMBIVALENS. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 11 1949 1999 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444999011348 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 500.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 20502 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) : 0.227 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1043 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 : 2272 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 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) : -16.26700 REMARK 3 B22 (A**2) : 9.48600 REMARK 3 B33 (A**2) : 6.78100 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) : 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 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 1J8Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-01. REMARK 100 THE DEPOSITION ID IS D_1000013508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 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 : BM14 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 : 21100 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 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: MIR 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 (%): 46.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 36.02000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.02000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 32.43300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.01000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 32.43300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.01000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 36.02000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 32.43300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.01000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 36.02000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 32.43300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.01000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: 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 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 F 1 REMARK 465 LYS F 2 REMARK 465 THR F 109 REMARK 465 GLY F 110 REMARK 465 LYS F 111 REMARK 465 ALA F 112 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 F 18 -74.19 -83.34 REMARK 500 TYR F 65 -14.21 81.43 REMARK 500 ALA F 189 -108.14 -121.84 REMARK 500 THR F 274 -73.20 -89.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1J8M RELATED DB: PDB DBREF 1J8Y F 1 292 UNP P70722 SRP54_ACIAM 1 292 SEQADV 1J8Y THR F 10 UNP P70722 ALA 10 SEE REMARK 999 SEQADV 1J8Y ALA F 112 UNP P70722 THR 112 ENGINEERED MUTATION SEQADV 1J8Y VAL F 165 UNP P70722 ALA 165 SEE REMARK 999 SEQADV 1J8Y LEU F 293 UNP P70722 EXPRESSION TAG SEQADV 1J8Y HIS F 294 UNP P70722 EXPRESSION TAG SEQADV 1J8Y HIS F 295 UNP P70722 EXPRESSION TAG SEQADV 1J8Y HIS F 296 UNP P70722 EXPRESSION TAG SEQADV 1J8Y HIS F 297 UNP P70722 EXPRESSION TAG SEQRES 1 F 297 SER LYS LEU LEU ASP ASN LEU ARG ASP THR VAL ARG LYS SEQRES 2 F 297 PHE LEU THR GLY SER SER SER TYR ASP LYS ALA VAL GLU SEQRES 3 F 297 ASP PHE ILE LYS GLU LEU GLN LYS SER LEU ILE SER ALA SEQRES 4 F 297 ASP VAL ASN VAL LYS LEU VAL PHE SER LEU THR ASN LYS SEQRES 5 F 297 ILE LYS GLU ARG LEU LYS ASN GLU LYS PRO PRO THR TYR SEQRES 6 F 297 ILE GLU ARG ARG GLU TRP PHE ILE LYS ILE VAL TYR ASP SEQRES 7 F 297 GLU LEU SER ASN LEU PHE GLY GLY ASP LYS GLU PRO LYS SEQRES 8 F 297 VAL ILE PRO ASP LYS ILE PRO TYR VAL ILE MET LEU VAL SEQRES 9 F 297 GLY VAL GLN GLY THR GLY LYS ALA THR THR ALA GLY LYS SEQRES 10 F 297 LEU ALA TYR PHE TYR LYS LYS LYS GLY PHE LYS VAL GLY SEQRES 11 F 297 LEU VAL GLY ALA ASP VAL TYR ARG PRO ALA ALA LEU GLU SEQRES 12 F 297 GLN LEU GLN GLN LEU GLY GLN GLN ILE GLY VAL PRO VAL SEQRES 13 F 297 TYR GLY GLU PRO GLY GLU LYS ASP VAL VAL GLY ILE ALA SEQRES 14 F 297 LYS ARG GLY VAL GLU LYS PHE LEU SER GLU LYS MET GLU SEQRES 15 F 297 ILE ILE ILE VAL ASP THR ALA GLY ARG HIS GLY TYR GLY SEQRES 16 F 297 GLU GLU ALA ALA LEU LEU GLU GLU MET LYS ASN ILE TYR SEQRES 17 F 297 GLU ALA ILE LYS PRO ASP GLU VAL THR LEU VAL ILE ASP SEQRES 18 F 297 ALA SER ILE GLY GLN LYS ALA TYR ASP LEU ALA SER LYS SEQRES 19 F 297 PHE ASN GLN ALA SER LYS ILE GLY THR ILE ILE ILE THR SEQRES 20 F 297 LYS MET ASP GLY THR ALA LYS GLY GLY GLY ALA LEU SER SEQRES 21 F 297 ALA VAL ALA ALA THR GLY ALA THR ILE LYS PHE ILE GLY SEQRES 22 F 297 THR GLY GLU LYS ILE ASP GLU LEU GLU VAL PHE ASN PRO SEQRES 23 F 297 ARG ARG PHE VAL ALA ARG LEU HIS HIS HIS HIS HELIX 1 1 LEU F 3 THR F 16 1 14 HELIX 2 2 SER F 20 ALA F 39 1 20 HELIX 3 3 ASN F 42 GLU F 60 1 19 HELIX 4 4 GLU F 67 PHE F 84 1 18 HELIX 5 5 THR F 113 LYS F 125 1 13 HELIX 6 6 ARG F 138 GLY F 153 1 16 HELIX 7 7 ASP F 164 GLU F 179 1 16 HELIX 8 8 GLU F 196 LYS F 212 1 17 HELIX 9 9 SER F 223 LYS F 227 5 5 HELIX 10 10 ALA F 228 SER F 239 1 12 HELIX 11 11 LYS F 254 ALA F 264 1 11 HELIX 12 12 ASN F 285 ARG F 292 1 8 SHEET 1 A 8 VAL F 156 TYR F 157 0 SHEET 2 A 8 VAL F 129 GLY F 133 1 O LEU F 131 N TYR F 157 SHEET 3 A 8 ILE F 183 ASP F 187 1 O ILE F 183 N GLY F 130 SHEET 4 A 8 TYR F 99 VAL F 104 1 O TYR F 99 N ILE F 184 SHEET 5 A 8 GLU F 215 ASP F 221 1 O GLU F 215 N MET F 102 SHEET 6 A 8 GLY F 242 THR F 247 1 O THR F 243 N LEU F 218 SHEET 7 A 8 ILE F 269 GLY F 273 1 N LYS F 270 O ILE F 244 SHEET 8 A 8 LEU F 281 VAL F 283 -1 N GLU F 282 O ILE F 272 CISPEP 1 ILE F 97 PRO F 98 0 -0.04 CRYST1 64.866 128.020 72.040 90.00 90.00 90.00 C 2 2 21 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 0.015416 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007811 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013881 0.00000